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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgtttaagatgcttacatttgaatggttatgtttcattttgctttgctggcaggtgttctaatgtgaatgttccatttttatactgacag

Basic information

species Oryza sativa
transcript LOC_Os03g27260.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g27260.1 (Oryza sativa), 5'ss of exon 4
lower sequence: AT4G31700.1 (Arabidopsis thaliana), 5'ss of exon 4
GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgtttaagatgc------ttacatttgaatggttatgtttcattttgctttgc-tg-gcaggtgttctaatgtgaatgttccat-ttttatactgacag-----
|| || || |||||||||| ||| || || || |||||||||||||| ||||||||||| ||  | ||| | || ||||| |||||| | || ||| | ||||  |    |  || |      ||||| ||       |||  |  ||||   ||||  || |   ||||| |  |||  ||   |  | |||  || ||   |     
GGATACGTTTTCAAGATCAAGGGTGGTTGCGATAAGCAAGGTTTCCCAATGAAGCAGGGAGTTTTGACTCCAGGCCGTGTTCGCCTTTTGCTTCACCGAGgtaactaaacataataccttttcttacacttttgcatctataatggatttgtatttgtgtgtgtgtgtgttttgctgtagattaacattgtttcgtaatgggtgaacag

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 5'ss of exon 4
lower sequence: AT5G10360.2 (Arabidopsis thaliana), 5'ss of exon 4
GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgtttaag----atgcttacatttgaatggttatgtttcattttgctttgctggcaggtgttctaatgtgaatgttccatttttatactgacag
|| || |||||||||||||||||||| |||||||||||||||||||| ||||| || || || || ||| | || |||||||| ||| | || ||| | ||||   | ||       ||   || | ||  |  | |    ||  |||   |   ||     || || || |       |    || || |  | |   
GGATACGTATTCAAGATCATGGGAGGATGTGACAAGCAAGGTTTCCCAATGAAACAAGGAGTTCTCACTCCAGGGCGTGTCCGTCTTTTGCTTCACCGAGgtactagattccaccccattgataaaattatacagcttctctttttttcattaatcttctgtgttttttatttatgtgatctggttattgtgtttag--

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv03s0017g01350.t01 (Vitis vinifera), 5'ss of exon 4
GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgt-ttaaga---tgcttacatttgaa---tggttatgt--------ttcattttgctttgctggcaggtgttctaatgtgaat---gttccatttttatactgacag
|||||||| |||||||||||||| || |||||||||||||| || |||||||||||||| || || ||| |||| |||||  | ||| | || || ||||||   |    |  ||   | || |   || ||   || | |           ||||| ||  | |||  |  ||   | | |  |  ||     |  ||  ||||     |||
GGCTATGTTTTCAAGATCATGGGTGGTTGTGACAAGCAAGGGTTTCCCATGAAGCAGGGAGTACTGACTCCTGGCCGTGTTAGTCTTTTGCTTCATAGGGgtgagtaaactgggactgttctaatccttaaaaactgatcacaacccttaagttcatatttttatgcaagttgggtctatgagatttattacactttatgcttatttgagcag

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv07s0191g00060.t01 (Vitis vinifera), 5'ss of exon 4
GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagat------gtttaaga---tgcttacatttgaatg-gttatgtttcattttgctttgctggcaggtgttctaatgtgaatgttccatttttatactgacag-------------------------------------------------------------------------------
|| ||||||||||| || |||||||||||||||||||||||||| || ||||||||||| || || ||  | || || ||||  ||||| || ||||| ||| | |      || ||  |   ||   | ||||  ||| |  |   || | |    |||      |  |||| |   ||  || |     |||| | |||  ||                                                                               
GGTTATGTATTCAAAATAATGGGAGGCTGTGACAAGCAAGGTTTTCCAATGAAGCAGGGAGTACTGACCCCAGGCCGAGTCCAACTTCTGCTTCACAGAGgttggtagactggtctactactttgtgcatatttagatgtgaaacaattaaatgcagtttttatatat-tgttttggagtttatttgggcattttctcctgttagcattgtggttaatttgtctcattctgcatttgctcgatgcttgatgaaactaatacgaattggcattttgcttgaacag

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 5'ss of exon 4
lower sequence: Vv18s0001g06290.t01 (Vitis vinifera), 5'ss of exon 4
GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgtttaag---atgcttacatttg---aatggttatgtttcattttgcttt--gctggcaggtgttctaatgtga--atgttccatttttatactgacag----------------------------------------------------
|||||||||||||| |||||||||||||||||||||||||| ||||| ||||||||||| ||| | ||| |||| |||||  | ||  | ||||| || ||| | | |||      ||  |    || |   | ||   |   ||| ||    |||  | |||     |  |   |   |  |||||    |   |   ||                                                        
GGCTATGTATTCAAAATCATGGGAGGCTGTGACAAGCAAGGGTTCCCAATGAAGCAGGGAGTGTTAACTCCTGGTCGTGTTAGTCTCTTGCTCCATAGAGgtgggtttttggtggtatattagtgttggtgcactgaccaccattccttcaagtttaagatggatcacggccagttagaagcatgttttgctaggaccatgttttgttgccttgtcatagatgatggatgaaaactgttctagttttgcttaagcag

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S253_38V6.1 (Physcomitrella patens), 5'ss of exon 3
GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgta-gatgtttaagatgcttacatttgaatggttatgtttcattttgctttgctggcaggtgttctaatgtgaatgttccatttttatactgacag-------------------------------------------------------------------------------------------
|| ||||| |||||||||||||||||||| |||||||| |||||||| ||||||||||| || || |||   || ||||| |  || ||  | ||||| |||| |  | |  | |  |     | |   || | |||    |   |  | ||   |      || |    |   || |||  || |  |   |  |                                                                                           
GGGTATGTCTTCAAGATCATGGGAGGCTGCGACAAGCAGGGTTTCCCAATGAAGCAGGGAGTTCTCACTCAAGGCCGTGTGCAGCTCCTGATGCACAGAGgtatggcgatagatagacacgggtgttggtg-tcatgaagtaggctagtctgaacgagacatttatgtcctcgctgctcctcttgtgcaacaagcgttgagtggggttgtggagtggtttgatgggctcagtatgggtgcgagaatttagttctcccttttgtaacgattattgtgtgttgttgcag

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S253_7V6.1 (Physcomitrella patens), 5'ss of exon 3
GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgta--gatgtttaagatgct--tacatttgaatgg-ttatgtttcattt---tgctttgctg----gcaggtgttctaatgtg--aatgttccatttttatactgacag----------------------------------------------------
|| ||||| |||||||| |||||||| || |||||||| |||||||| ||||||||||| || || ||    || ||||| |  ||  |  | ||||| ||||  ||| |  |    |||  ||  | ||| | | | || | ||   |   ||| | ||||    | | | | |    || |   | || || ||  |  ||| |                                                       
GGGTATGTCTTCAAGATTATGGGAGGTTGCGACAAGCAGGGTTTCCCTATGAAGCAGGGAGTTCTCACACAAGGCCGTGTGCAGCTCTTGATGCACAGAGgtatggatataaacacagctggtatgtctgagtagatcatttatcgcgtcactgcctcgctgtgcagaaagcgatgagttgcgttgaagtacctttgatgcactcagtacggccgcgaggttatgattttcatctgtaacgactcttgcctgttgtcgcag

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S311_33V6.1 (Physcomitrella patens), 5'ss of exon 3
GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgtttaagatgcttacatttgaa-tggttatgttt-cattttgctttgctggcaggtgttctaatgtgaatgtt-ccattttta--tactgacag------------------------------------------------------------------
|| || || |||||||| |||||||| ||||||||||| |||||||||||||||||||||||  | ||    |||||||| |  || ||  | ||| | |||| |   ||||    ||  |  ||    | || ||| |     |  |  |   || |    | | |||   ||| ||  | ||    |  |||| |||                                                                   
GGATACGTTTTCAAGATTATGGGAGGATGTGACAAGCAGGGTTTCCCCATGAAGCAGGGTGTCTTGACCCAGGGACGTGTGCAACTGCTGATGCACCGAGgtacaacgttaaccacctgccgcttcctcttgtcatgctagtgctgggaataattgtcgatggatgtaaca-gaacgtcactatgcacacctacttacaaggcgcgtcttgattttcggttgcaactataatgcagtaaagtaatgaaatttttgttcttctgaag

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S311_33V6.2 (Physcomitrella patens), 5'ss of exon 3
GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTG-TGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgtttaagatgcttacatttgaatggttatgtttcattttgctttgctggcaggtgttctaatgtgaatgttccatttttatactgacag
       |  ||||  | |||  | || ||      ||||   ||       | |||  || || | | |||  |  |  | ||  |||      |  || | |  ||   |  | | || |      | |                                                                 
-------TCGTCAATTTTATGACAAGC-GTCTTGCTCAAGAGgtcagtggtgaccagcttggtgatgagttcaag--ggatacgttttcaagattatgggaggatgtgacaagcagggtttccccatgaag-----------------------------------------------------------------

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 5'ss of exon 4
lower sequence: PP1S31_322V6.1 (Physcomitrella patens), 5'ss of exon 3
GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtaga----tgtttaa---gatgcttaca-tttgaatggttatgtttcattttgctttgctgg-caggtgttctaatgtgaatgttccatttttatactgacag-------------------------------------------------
|| ||||| |||||||| |||||||| || || ||||| ||||| |||||||||||||||||| | |||   ||||| || |  || ||  | ||| | |||| |    || ||||   ||  || |   | ||||    |   |   |     |  | ||||  | | ||      || |    | |||| || |||||   |                                                 
GGATATGTCTTCAAGATTATGGGAGGATGCGATAAGCAGGGTTTTCCCATGAAGCAGGGTGTGTTGACTCAAGGACGCGTACAGCTCCTAATGCACCGAGgtacaatattgattaattggaacctcatggtctgaagttgtgcctgcaaggaatccgtactggatacgcgtctcgtcgtca----tgcattcttgtactgcatgtcactaaaatctaatttcttaacgattgtacttgatgttttctcggcag

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 5'ss of exon 4
lower sequence: EFJ14726 (Selaginella moellendorffii), 5'ss of exon 3
GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgtttaagatgcttacatttgaatggttatgtttcattttgctttgctggcaggtgttctaatgtgaatgttccatttttatactgacag
|||||||| ||||||||||||||||| ||||||||| | || ||||| ||||||||||| || || |   |    ||||| ||||| ||  |  || | |||| |     | |||||||   |||   |  ||        ||| | | || |   || | |  | |   |                        
GGCTATGTCTTCAAGATCATGGGAGGATGTGACAAGGATGGCTTCCCTATGAAGCAGGGCGTCCTCAAGACGAAGCGTGTGCGCCTCCTGTTAAACCGAGgtaaa-----acgatgcttcttttt---tcttttctccctctttcgttctgatttgagat-tcgtgaccag------------------------

upper sequence: LOC_Os03g27260.1 (Oryza sativa), 5'ss of exon 4
lower sequence: EFJ26393 (Selaginella moellendorffii), 5'ss of exon 3
GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgtttaagatgcttacatttgaatggttatgtttcattttgctttgctggcaggtgttctaatgtgaatgttccatttttatactgacag
|||||||| ||||||||||||||||| ||||||||| | || ||||| ||||||||||| || || |   |    ||||| ||||| ||  |  || | |||| |     | |||||||   |||   |  ||        ||| | | || |   || | |  | |   |                        
GGCTATGTCTTCAAGATCATGGGAGGATGTGACAAGGATGGCTTCCCTATGAAGCAGGGCGTTCTCAAGACGAAGCGTGTGCGCCTCCTGTTAAACCGAGgtaaa-----acgatgcttcttttt---tcttttctccctctttcgttctgatttgagat-tcgtgaccag------------------------

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|4881015|gb|AU065314.1|AU065314
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|88355433|gb|CI679149.1|CI679149
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|6449568|gb|AU081510.1|AU081510
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTNTCCTCCACAGGG                         GTACCCC-TGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|3763665|gb|AU030417.1|AU030417
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCC-TGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|88302324|gb|CI668170.1|CI668170
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|4880957|gb|AU065256.1|AU065256
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|4880899|gb|AU065198.1|AU065198
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCCCTGCTTCCGTGGATATNGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|33657451|gb|CF280065.1|CF280065
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|33654579|gb|CF277193.1|CF277193
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|88428463|gb|CI564931.1|CI564931
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|58683420|gb|CK072107.1|CK072107
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|88726151|gb|CI749806.1|CI749806
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|33676302|gb|CF304541.1|CF304541
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|33654394|gb|CF277008.1|CF277008
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|88581386|gb|CI698367.1|CI698367
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
EST: gi|33663296|gb|CF294263.1|CF294263
EST:     GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGG                         GTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA
genomic: GAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGA

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 1 RNA-Seqlibrary.


Block sizes: 58 (upstream exon), 65 (downstream exon)
Score: 101

GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgttt ... atactgacagGTACCCCCTGCTTCCGTGGATATGGCAGGCGTGATGGTGAGCGCAGAAGGAAGTCAGTCCGTGGTTGCATTGTCAGCCAAGATCTCTCTGTTATCAACTT




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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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGCTATGTATTCAAGATCATGGGAGGCTGTGACAAGCAAGGTTTCCCCATGAAGCAGGGTGTGCTTACTTCTGGACGTGTCCGCCTTCTCCTCCACAGGGgtagatgtttaagatgcttacatttgaatggttatgtttcattttgctttgctggcaggtgttctaatgtgaatgttccatttttatactgacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTCCTC