Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcggtaaagctgtgaatctttctttctttcttatcctgcgaatcaatttgactgttttactggcttcttaaattaacttccgaaaaaaattgttcctttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG

Basic information

species Zea mays
transcript GRMZM2G458728_T07
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G458728_T07 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os11g06020.1 (Oryza sativa), 3'ss of exon 4
gtcggtaaagctgtgaatctttctttctttcttatcctg--cgaat------caatttgactgttt-tactggcttcttaaattaacttccgaa------aaaaattgttcctttctg---ttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG
||| | |      || |  ||  ||| |||  | |  ||   || |        |||| ||||  | | ||   |  || ||||   |   |||       ||  || ||    | ||   | |||| || || |||||||||||||| |||||| ||||||||||||| ||||||||||||||||||||||||||||| |||||||||||||  || |||||||
gtcagaattaagatggagtttaatttttttactgtgttgattgattggtttttgattttactgcgtgttcttcttggttgaattgggtgttgaattttgtgaattttattttggtttgatttcagGTTTCGAACTGGTTCATCAATGCCAGGGTGAGGCTGTGGAAGCCGATGGTGGAGGAGATGTACCTGGAGGAGACCAAGGACCAGGACGGCGGCGGCGGCG

upper sequence: GRMZM2G458728_T07 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os12g06340.2 (Oryza sativa), 3'ss of exon 4
gtcggtaaagctgtgaatctttctttctttcttatcctgcgaatcaatttgactgttttactggcttcttaaattaacttccgaaaaaaattgttcctttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG-
                                     | || |   ||  | ||   |      || | |  |   |  |  |||  |  | || | | | ||| ||||||| || ||||||||||| ||||||||| ||||||||||||| ||||||||||||||||||   |||||||| |||| | |||| |  ||||| || | 
------------------------------------gtacgtacgtatacgtctacgtacaatactacgtctacgtatgtttgaagtacgt-gtacgtatttgt-agGTGTCGAACTGGTTCATCAACGCGAGGGTGAGGCTGTGGAAGCCAATGGTGGAGGAGATGTACGCCGAGGAGACCAAGGCCAAGGAGGA-GGAGGAGGAGG

upper sequence: GRMZM2G458728_T07 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA10G10040.1 (Glycine max), 3'ss of exon 5
gtcggtaaagctgtgaatctttctttctttcttatcctgcgaatcaatttgactgttttactggcttcttaaattaac--ttccgaaaaaaattgttcctttctgt-tagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG
         |   |  |   ||| || ||    |   |       || |||  ||   | |||| || | | |||     | |  | ||  | | ||  |    |   |||| || ||||||||||| ||||| || || ||||| |||||||| ||||||||||| |||||| |||||||||  || || || ||       ||    |
---------gtaatacactcttcattattgtcaaaaatttattagaacttgtttgcaatcctgg-ttatgatattggtcatgctaacaacgaatattggtaatggaacagGTTTCAAATTGGTTCATTAATGCTAGAGTTCGGCTTTGGAAGCCAATGGTGGAGGAAATGTACTTGGAGGAGATGAAAGAGCATGAACTAAATGGTTCTG

upper sequence: GRMZM2G458728_T07 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA19G38690.1 (Glycine max), 3'ss of exon 7
gtcggtaaagctgtgaatctttctttctttcttatcctgcgaatcaatttgactgttttactggcttcttaaattaacttccgaaaaaaattgttcctttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG-
                              || ||   |  |    | |||||| ||| | | | |   |   |   | ||  || ||  |  ||  | | ||  |||| || |||||||| || |||||  | || ||||| |||||||| ||||||||||| |||||| |||||||||  ||||| || ||  | | | |   |  
---------------------gtaactagactgatgaagtaatggtacttgactctttcatttgatgaatggttcttcctcttaataatgt--ttggtgtgtgacagGTTTCAAATTGGTTTATAAATGCTCGAGTTCGGCTTTGGAAGCCAATGGTGGAGGAAATGTACATGGAGGAGATGAAGGATCATGA-ACAGAATGGATCTG

upper sequence: GRMZM2G458728_T07 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA02G35450.1 (Glycine max), 3'ss of exon 5
gtcggtaaagctgtgaatctttctttctttcttatcctgcgaatcaatttgactgttttactggcttcttaaattaacttccgaaaaaaattgttcctttctgt----tagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG
     || |    | | || || ||   |    || ||   ||  || |||  ||  || |||| |   |||  |   |   | ||| |||   |  |     |     |||| || ||||||||||| |||||  | || ||||| |||||||| ||||||||||| |||||| |||||||||  || || || ||       ||    |
-----tacactcttaattcattattg--tcagaattctattaa--aacttgtttgcattcctggtta--taacatggatcatgcaaacaatgaatattggtaatggaacagGTTTCAAATTGGTTCATAAATGCTCGAGTTCGGCTTTGGAAGCCAATGGTGGAGGAAATGTACTTGGAGGAGATGAAAGATCATGAACTAAATGGTTCTG

upper sequence: GRMZM2G458728_T07 (Zea mays), 3'ss of exon 4
lower sequence: AT2G35940.2 (Arabidopsis thaliana), 3'ss of exon 4
gtcggtaaagctgtgaatctttctttctttcttatcctgcgaatcaatt--tgactgttttactggctt-cttaaattaac-ttccgaaaaaaattgttcctttctg-----ttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG-
                                ||   | | ||   |||  |   ||| ||| | | || |||||   | | ||   ||  |||||  |  | | |      ||||||||| || ||||| || || ||||| || ||| | ||||| || |||||||||||||||||| ||||||| |  ||||| |||| |   | |   ||   
-------------------------------gtacgtttcaaaatgattctttcttgtgttattaggttacttaagaaagcgtttttaagtaaatttattttctttaattatttagGTGTCGAACTGGTTTATAAACGCGAGAGTTCGGTTATGGAAACCAATGGTGGAGGAGATGTACATGGAGGAAATGAAGGAGCAGG-CAAAGAACATGGGAT

upper sequence: GRMZM2G458728_T07 (Zea mays), 3'ss of exon 4
lower sequence: Vv06s0009g00410.t01 (Vitis vinifera), 3'ss of exon 4
------------------------------------------------------------------gtcggtaaagctgtgaatcttt--ctttctttcttatcctgcgaatcaatttgactgtttta--ctggcttcttaaattaacttccgaaaaaaattgttcctttctgt----tagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG
                                                                  || || | || | | ||  |    | ||   | ||     | |   |  | || |||   ||   |   |   |   |||  || | || |||  | |  |||| ||      ||||||| || |||||||| |||||  |||| || ||||||||||| ||||| || || |||||| ||||||| | |||||| |||||       ||   | 
gtatattgtatttactggcaatggcatgcatgtttcagttcagcttgcattatggttttgtggtgggttgggatagttctcaagttccagccttgcctgttggggagtgctactgtgtgcctgaaataatttaattggattttttactttgcaaagaaacatctaactttttgcagtgcagGTGTCAAACTGGTTCATAAATGCTCGGGTTCGACTGTGGAAGCCAATGGTTGAAGAAATGTACTTGGAGGAAATAAAGGATCAGGAGCACAATGGTTCCC

upper sequence: GRMZM2G458728_T07 (Zea mays), 3'ss of exon 4
lower sequence: PP1S220_67V6.1 (Physcomitrella patens), 3'ss of exon 4
gtcggtaaagctgtgaatctttctttctttcttatcctgcgaatcaatttgactgttttactggcttcttaaattaacttccgaaaaaa-attg--ttcctttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG---
          |    | ||       |||    |    |   |||| |      ||   |     |   ||  | ||  | |||       |||  || | | |    |||| || |||||||||||||| ||  | || |||||||||||||| ||||| |||||||||||| | |||||   ||| ||   | || ||||||         
----------cctccactccagaacgcttgaacagtgagaagatcagtcatcaggtagcagaaaatgaatatctgaatctacgatgttttgttgacttgcatgcgagcagGTTTCTAATTGGTTCATCAACGCACGAGTACGGCTGTGGAAGCCAATGGTAGAGGAGATGTACGTAGAGGAACAAAAAGA---GTACCCTGGAGATCATACTG

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|149085019|gb|EE174528.2|EE174528
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|89249475|gb|DY621261.1|DY621261
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|93015843|gb|EB641363.1|EB641363
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|149109652|gb|EE293440.2|EE293440
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|50329068|gb|CO524194.1|CO524194
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|78105639|gb|DV524057.1|DV524057
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148986387|gb|EE030125.2|EE030125
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148966560|gb|EE017586.2|EE017586
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|149097969|gb|EE183914.2|EE183914
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|149074574|gb|EE162974.2|EE162974
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|149099651|gb|EE185699.2|EE185699
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148961404|gb|EE012144.2|EE012144
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|149020750|gb|EE154411.2|EE154411
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|50331343|gb|CO526469.1|CO526469
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|149027244|gb|EE046442.2|EE046442
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|149097019|gb|EE182823.2|EE182823
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148963370|gb|EE014371.2|EE014371
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGGCTGTGGAAGCCTATGGG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGC-GGCTGTGGAAGCCTAT-GG
EST: gi|50324386|gb|CO519512.1|CO519512
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|149042744|gb|EE047262.2|EE047262
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148970835|gb|EE021605.2|EE021605
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|149105935|gb|EE291560.2|EE291560
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148993344|gb|EE033760.2|EE033760
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148939304|gb|EC883813.2|EC883813
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|76020309|gb|DT947479.1|DT947479
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|88754679|gb|DY538820.1|DY538820
EST:     TTCGGACAAGATCATGCTCGCCAAACAAACCGGGCTCACCAGGAAGTCAG                         GTGTCCAAATGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGT
genomic: TTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGG-AGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGT
EST: gi|86474648|gb|DY241018.1|DY241018
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|91052150|gb|EB162568.1|EB162568
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148983081|gb|EE028996.2|EE028996
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|76291302|gb|DV030870.1|DV030870
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|88747137|gb|DY531278.1|DY531278
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|149102690|gb|EE288040.2|EE288040
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|78085152|gb|DV513545.1|DV513545
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148954405|gb|EC899823.2|EC899823
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|76916977|gb|DV166633.1|DV166633
EST:     TCGGACAAGGATCATGCTCGCCAAGCAAACCGGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: TCGGACAA-GATCATGCTCGCCAAGCAAACC-GGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148970378|gb|EE021236.2|EE021236
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148953673|gb|EC899034.2|EC899034
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|101401659|gb|EB822493.1|EB822493
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|149102176|gb|EE188110.2|EE188110
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGATTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148986585|gb|EE030349.2|EE030349
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|71298538|gb|DR785245.1|DR785245
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|71430238|gb|DR811288.1|DR811288
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148951929|gb|EC897706.2|EC897706
EST:     CAGGAGTCAAG                         GTGTCCATTTGTTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGT
genomic: CAGGAGTC-AGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGT
EST: gi|149090270|gb|EE179573.2|EE179573
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|78088879|gb|DV517272.1|DV517272
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|149099885|gb|EE185938.2|EE185938
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148991536|gb|EE033060.2|EE033060
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|78115782|gb|DV534170.1|DV534170
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|86467856|gb|DY234226.1|DY234226
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|50329357|gb|CO524483.1|CO524483
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|74232659|gb|DT640573.1|DT640573
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|148936201|gb|EC880274.2|EC880274
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|149083776|gb|EE173141.2|EE173141
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|149051844|gb|EE155971.2|EE155971
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|76286143|gb|DV025711.1|DV025711
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|110195507|gb|EC877404.1|EC877404
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
EST: gi|88748054|gb|DY532195.1|DY532195
EST:     ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAG                         GTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG
genomic: ATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 22 (upstream exon), 42 (downstream exon)
Score: 2

ATACCCCAAGGATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 55

ATACCCCAAGGATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 46

ATACCCCAAGGATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 38

ATACCCCAAGGATTCGGACAAGATCATGCTCGCCAAGCAAACCGGGCTCACCAGGAGTCAGgtcggtaaag ... tttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgttttactggcttcttaaattaacttccgaaaaaaattgttcctttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG
                   aattaac  putative branch site (score: 38)
                                      ttgttcctttctgtt  putative PPT
             ttcttaaattaactt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtcggtaaagctgtgaatctttctttctttcttatcctgcgaatcaatttgactgttttactggcttcttaaattaacttccgaaaaaaattgttcctttctgttagGTGTCCAATTGGTTCATCAATGCGAGGGTGCGGCTGTGGAAGCCTATGGTGGAGGAGATGTACCTGGAGGAGACAAAGGACCAGGACGCTGGAGGCGGCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG