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 5'  3'   		2  
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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttcaaccattgctaattacagttgtccaactctgcacctgccatgcaattgattcgtccgttcatatgtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA

Basic information

species Zea mays
transcript GRMZM2G011518_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G011518_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g42940.1 (Oryza sativa), 3'ss of exon 2
gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttcaaccattgctaattacagttgtccaactctgcacctgccatgcaattgattcgtccgttcatatgtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA
                                   ||  ||    | ||| || |  ||   | |   |   | | |||     |    ||   ||||  |     | || |       | ||| |||   | | ||||   || ||| ||||| || ||||| ||||||||||||||||| |||||||| ||||||||||||||||||||||| ||  | |||||| | |||||||||||||||||
----------------------------------gtaggttc-actctcatccctccctccctccgcctcatcgaatct---tttattttgtt-ttgagccaa--atccaaacccaacctaacatcatcatcatcatcatcatgcagGCTTCAACGTGGAGAAAGTTCAATACAAGAATGTGGTGTTCACTGTGTGGGATGTTGGTGGCCAGGAAAAATTGAGGCCCTTATGGAGGCACTACTTCAA

upper sequence: GRMZM2G011518_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA11G09790.3 (Glycine max), 3'ss of exon 1
gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttcaaccattgctaattacagttgtccaactctgcacctgccatgcaattgattcgtccgttcatatgtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA
                                            ||  ||   ||  | | |||   ||  |  |    | |   |   |  || | |    |   ||  | || |||  |     |     | ||   | ||| |||||| ||||| ||||||||||| || |||||||| || ||||| || ||||||||||| || || |||||  | ||| | || ||||||||||| || ||
-------------------------------------------tgtaccagt-atcac-acttaagtttagctgaggaagaattagaagtagaaataacctatatatt-gtttgattaaggcttatagat-ttgtagtgctttgcagGTTTTAATGTGGAGAAGGTTCAGTATAAGAATGTTGTTTTCACGGTTTGGGATGTTGGAGGGCAAGAGAAATTAAGGGCACTTTGGAGGCACTATTTTAA

upper sequence: GRMZM2G011518_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA11G01380.2 (Glycine max), 3'ss of exon 3
gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttcaaccattgctaattacagttgtccaactctgca--cctgccatgcaattgattcgtccgttcatatgtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA
                                               | ||   |   || |   | |   |   ||    |    || | ||||| ||| ||  |   |  | | | || ||     |     | |||  | ||| |||||||||||| ||||| ||||| || || |||||  | ||||| || ||||||||||| || || ||||| || ||||| || ||||||||||| || ||
----------------------------------------------attaagtgtctata-tggtattgacctggcttgttagttttggcctgcaaatgagtctacatattgtttctcta-tgtttataaat-ttatattgccttgcagGTTTCAATGTGGAGAAAGTTCAGTATAAAAATGTTATTTTCACAGTTTGGGATGTTGGAGGACAAGAGAAACTAAGGCCACTTTGGAGGCACTATTTTAA

upper sequence: GRMZM2G011518_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA01G43910.2 (Glycine max), 3'ss of exon 3
gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttcaaccattgctaattacagttgtccaactctgcacctgccatgcaattgattcgtccgttcatatgtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA
                                              || ||    |      ||  |  | |      |     || |  |||| ||| ||  |   | || | | |   |           | |||  | ||| |||||||||||| ||||| ||||| || ||||||||  | ||||| || ||||||||||| || || ||||| || ||||| || ||||||||||||||  |
---------------------------------------------gttgaatgtctatatggtattggcgccgcttgttagttttggccagcaaatgagtctaca--taatgtttctctaggtttttaaatttatattgccttgcagGTTTCAATGTGGAGAAAGTTCAGTATAAGAATGTTATTTTCACAGTCTGGGATGTTGGAGGACAAGAGAAACTAAGGCCACTTTGGAGGCACTACTTTGA

upper sequence: GRMZM2G011518_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA12G02110.1 (Glycine max), 3'ss of exon 2
gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttcaaccat-tgcta--attacagtt--gtccaactctgcacctgccatgcaattgattcgtccgttcatatgtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA
                                                ||| ||| | | |  || ||| ||  ||  |||   | |    | |   || | |    |  |||  | | ||||  |    |      | ||   | ||| |||||| ||||| ||||||||||| || |||||||| || ||||| || ||||||||||| || || |||||  | ||| | || ||||||||||| || ||
------------------------------------------------caaacatgtaccagtatcacacttaagtttaacaggggaagaactag--aaataacctatatgtt-gtttatttaaggcttacggat-ttgtagtgctttgcagGTTTTAATGTGGAGAAGGTTCAGTATAAGAATGTTGTTTTCACGGTTTGGGATGTTGGAGGGCAAGAGAAATTAAGGGCACTTTGGAGGCACTATTTTAA

upper sequence: GRMZM2G011518_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT3G03120.1 (Arabidopsis thaliana), 3'ss of exon 2
gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttcaaccattgctaattacagttgtccaac-tctgcacctgccatgcaattg---attcgtccgttcatatgtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA
                                                        |    | | | |  || | | | |  |  |    |||  ||    |||  ||     |   ||||| |||     |  | ||| | |||    |||||||||||||||||| ||||| |||||||||||  | ||||| || ||||||||||||||||| |||||||| |||||| |||||||||| ||||||||
--------------------------------------------------------gtaggtcagattgctcaagcatttttattttttttgcgttttctcatttatcttacaacgggtttactgaggattttaaatttcttacac---agGTTTCAATGTTGAGAAAGTTCAGTACAAGAATGTCATCTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAGCTGAGGCCCTTGTGGAGGCATTACTTCAA

upper sequence: GRMZM2G011518_T03 (Zea mays), 3'ss of exon 2
lower sequence: AT5G17060.1 (Arabidopsis thaliana), 3'ss of exon 2
gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttcaaccattgctaattacagttgtccaactctgcacctgccatgcaattgattcgtccgttcatatgtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA
                                      ||| ||   | |   | |  ||  ||   || |    || | ||  | || |    ||| || |        ||||| |  |||||   |  |||| ||   | |  ||| |||||||||||||| ||||| |||||||||||  ||||||| || ||||||||||||||||| ||||| || || || || |||||||| ||||||||
------------------------------------ttcttgtgacatta--tacttttatctatgattattgttctgt-cattttccttttggttgtttggat------tatgtctgctgacaatttaaactt-atgttact-cagGATTCAATGTTGAGAAAGTTCAGTACAAGAATGTGATGTTCACAGTTTGGGATGTTGGTGGCCAAGAGAAACTGAGACCTCTTTGGAGGCATTACTTCAA

upper sequence: GRMZM2G011518_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv16s0039g02240.t01 (Vitis vinifera), 3'ss of exon 2
gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttcaaccattgctaat--tacagttgtccaactctgcacctgccatgcaattgattcgtccgttcatatgtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA
                                                 |||  ||| | ||  |  |  |||   |  ||     ||        | || | |  | |||| ||   |  | |  |       | |   |   | ||||||||||||| ||||| ||||| || ||||| ||  ||||||| ||||||||||| ||||| || ||||| |||||||| || |||||||| ||||| ||
------------------------------------------------taacagttgatcatattgtacatgtattatactatggatgttgatgtgtcgaatggagc-ttcagattgattttaattgatcattttctggtaatatatagGTTTCAATGTGGAGAAAGTTCAGTATAAGAACGTGATGTTCACAGTGTGGGATGTAGGTGGACAAGAGAAACTCAGGCCACTCTGGAGGCATTACTTTAA

upper sequence: GRMZM2G011518_T03 (Zea mays), 3'ss of exon 2
lower sequence: EDP05355 (Chlamydomonas reinhardtii), 3'ss of exon 1
gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttcaaccattgctaattacagttgtccaactctgcacctgccatgcaattgattcgtccgttcatatgtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA
                                            || ||  |||   |    | ||  |  ||     | || |  ||    ||  || ||  ||   || |   |         | ||| |  |   |      ||| ||||| ||||||||||| ||||||||||| || |||||||| |||||||| || || ||||||||||||||  |||| |||||| |||| ||||||||
----------------------------------------cccagtatc--ccagcccatgctccatgtaccccttattacagc--ccg---aacagaatcccccacacacacaatccacacacacctgcgccctgcaaaccgacagGCTTCAACGTTGAGAAGGTGCAATACAAGAACGTTGTGTTCACGGTGTGGGACGTGGGCGGCCAGGAGAAGCTGCGGCCACTGTGGCGGCATTACTTCAA

upper sequence: GRMZM2G011518_T03 (Zea mays), 3'ss of exon 2
lower sequence: PP1S37_304V6.1 (Physcomitrella patens), 3'ss of exon 2
---------------------gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttca------accattgctaattacagttgtccaactctgca-cctgcca------tgcaattgattcgtccgttcatatgtttagtgacagcatgcactttatcacattgt-agGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA
                        | ||  |  ||  | | || | ||||   || |   || ||  |  |      ||  ||| |   |||| |  | ||||  |    |||||||      ||  | || ||     | | | || | | |  | |  |     |  ||   ||| | ||| |||||||| ||||| ||||||||||||||||| | ||| || |||||||| ||||| ||||| |||||  |  | || |||||| |||| ||||||||
gtaatttgacttatcacttgtagtcaatcct-tcatttttttggtagtgcgcctcttcgtttctgagtatagatggcactgttgttttatacaatgttgcaaccgtatttcctgccaagtgcatgtgagtgtttttgagggtaacatctgttgctaaattacattttccattcaattttcagGGTTCAATGTAGAGAAAGTTCAATACAAGAATGTTGAGTTTACAGTGTGGGACGTTGGAGGCCAAGAGAAATTGCGACCTCTGTGGCGGCATTACTTCAA

upper sequence: GRMZM2G011518_T03 (Zea mays), 3'ss of exon 2
lower sequence: PP1S91_59V6.1 (Physcomitrella patens), 3'ss of exon 2
-----------------------gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttcaaccattgctaattacagttgtccaactct-gcacct---------gccatgcaat--tgattcgtccgttcatat----gtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA
                         | | |  |      | ||   | | |  | || |   |  | |||  |   | |  |  |  |  |||   |||| | ||||||         ||   ||  |  ||| ||| | | | ||||     |||  | ||  | ||   |    ||  |   ||| || ||||| || || ||||||||||||||||| | |||||| || ||||||||||| || ||||||||  |  ||||||| ||| |||| ||||||||
gtaaagtgacacatgacacttgccgcaggtcttgatgattctcaaatggagtgtctcgtcgttcctagttgaaggtagttgtgttatctattgatgaacttttgcaccttaatattgtgctgagcgttgatgagtcggctggttatattggcatttgttcacttcctgtgttcccgcatctctcagGATTTAATGTGGAAAAAGTTCAATACAAGAATGTCGAGTTCACAGTATGGGATGTTGGAGGTCAGGAGAAATTGCGGCCCCTTTGGCGGCATTACTTCAA

upper sequence: GRMZM2G011518_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ08154 (Selaginella moellendorffii), 3'ss of exon 2
gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttcaaccattgctaattacagttgtccaactctgcacctgccatgcaattgattcgtccgttcatatgtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA
                                                                  ||  |||   | | |   |  | ||   || ||     | ||| |   |  | |||     || |   |  |      |||| || || || |||||||| || ||||||||||| |||||||| ||||||||||| ||||||||||||||||| || || || |||| ||||||||| | 
------------------------------------------------------------------gtaatcctttttttctggtttcttggctttcatcttggccttcttgc-tcgactgat---gtgaatccttgc------tagGATTTAACGTGGAGAAGGTCCAGTACAAGAATGTGGTGTTCACGGTGTGGGATGTGGGTGGCCAGGAGAAGCTAAGACCGCTCTGGAAGCACTACTTTAG

upper sequence: GRMZM2G011518_T03 (Zea mays), 3'ss of exon 2
lower sequence: EFJ24533 (Selaginella moellendorffii), 3'ss of exon 2
gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttcaaccattgctaattacagttgtccaactctgcacctgccatgcaattgattcgtccgttcatatgtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA
                                                          ||||  |  || ||    |      ||  |||    ||||       | ||     |||   ||| | |||    |  |  |    |||| || || || |||||||| || ||||||||||| |||||||| ||||||||||||||||||||||||||||| || || || |||| ||||||||| | 
---------------------------------------------------------gtaatc-cttttttctggtttcttggctttcatc---ttgaccttcttgctcg---atttctcgactg-atgtgaatccttgc----tagGATTTAACGTGGAGAAGGTCCAGTACAAGAATGTGGTGTTCACGGTGTGGGATGTTGGTGGCCAGGAGAAGCTAAGACCGCTCTGGAAGCACTACTTTAG

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|211535182|gb|FL238609.1|FL238609
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
EST: gi|21330796|gb|BQ486177.1|BQ486177
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
EST: gi|60399000|gb|DN231816.1|DN231816
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
EST: gi|211532193|gb|FL238605.1|FL238605
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
EST: gi|211532190|gb|FL238602.1|FL238602
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
EST: gi|211532195|gb|FL238607.1|FL238607
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
EST: gi|211535183|gb|FL238610.1|FL238610
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
EST: gi|211532186|gb|FL238598.1|FL238598
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
EST: gi|211535184|gb|FL238611.1|FL238611
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCA
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCA
EST: gi|76016402|gb|DT943572.1|DT943572
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
EST: gi|211532185|gb|FL238597.1|FL238597
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
EST: gi|211535181|gb|FL238608.1|FL238608
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTG
EST: gi|211532189|gb|FL238601.1|FL238601
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAATACAAGAATGTWGTGTTCACCGTGTGGG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
EST: gi|211532184|gb|FL238596.1|FL238596
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAGTACAAGAATGTAGTGTTCACCGTGTGGG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
EST: gi|32802499|gb|CD954735.1|CD954735
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTATCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAGTACAAGAATGTAGTGTTCACCGTGTGGG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
EST: gi|113667114|gb|DW831326.1|DW831326
EST:     ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAG                         GTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG
genomic: ACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGG

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: 49 (upstream exon), 48 (downstream exon)
Score: 93

GTGGTGATGCTTGGGTTGGATGCAGCTGGGAAAACCACCATACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 79

GTGGTGATGCTTGGGTTGGATGCAGCTGGGAAAACCACCATACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 88

GTGGTGATGCTTGGGTTGGATGCAGCTGGGAAAACCACCATACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 96

GTGGTGATGCTTGGGTTGGATGCAGCTGGGAAAACCACCATACTCTATAAGCTTCACATTGGTGAAGTTCTCTCCACTGTCCCTACCATAGgtccgattgt ... cacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattgattcgtccgttcatatgtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA
 aattgat  putative branch site (score: 96)
                                       ctttatc  putative PPT
                 atatgttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtccgattgtaccacctatctgcttgtgcatttcataacttttggtttcaaccattgctaattacagttgtccaactctgcacctgccatgcaattgattcgtccgttcatatgtttagtgacagcatgcactttatcacattgtagGTTTCAATGTTGAGAAGGTTCAATACAAGAATGTAGTGTTCACCGTGTGGGATGTTGGTGGCCAGGAGAAGCTCAGGCCCCTGTGGAGGCACTACTTCAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG