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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTAGGATAGAAAAATTGGCAGAGAAGTATGGATGTACATCTTCGCAACTTGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgattttcctgactttggtacgcaacatttgatctaattcttgactttgttgtgtgtcagtcaatttgatctctaacactagcgatcaaatcaat...

Basic information

species Glycine max
transcript GLYMA03G40680.1
intron # 6
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G40680.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM5G813143_T02 (Zea mays), 5'ss of exon 6
TCTAGGATAGAAAAATTGGCAGAGAAGTATGGATGTACATCTTCGCAACTTGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt--ttcctgactttggtacgc-aacatttgatctaattcttg-actttgttgtg--tgtcagtcaatttgatctctaacactagcgatcaaatcaat
 |  |  | ||||  ||| |  |||||||||| || ||| || | ||||| |||||  | ||| |||||||||||||||| |||||||| |||||||||||| |     |     |  |  ||  || |  || | |  |  | ||  ||    | |  | ||  | | ||     |  | |  |  ||  | | | | |      
ACACGACTTGAAATGTTGTCCAAGAAGTATGGGTGCACACCTGCTCAACTCGCTCTCTCCTGGGTTCTTCATCAAGGAGAAGATGTGGTCCCCATCCCTGgtaatgtcctgacatcatatattcatatgttaatactgaagatcatgtttatgttctactctgcctatgagcagggtcaaacctttccatcaacaaacca------

upper sequence: GLYMA03G40680.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv14s0030g01980.t01 (Vitis vinifera), 5'ss of exon 6
TCTAGGATAGAAAAATTGGCAGAGAAGTATGGATGTACATCTTCGCAACTTGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgattttcctgactttggtacgcaacatttgatcta-attcttgac-tttgttgtgtgtcagtcaatttgatctctaacactagcgatcaaatcaat
 |||  || || |  ||||| || ||| |  |||| ||  || | || ||||| || || ||| ||||||||||||| || ||||||| ||| ||||||||||||| |  |      | |    ||  | |||   |   | || ||| || | |||| |    |   ||||   |||  | | |       |   ||    
ACTAAAATGGAGATGTTGGCTGAAAAGCACAGATGCACCCCTGCACAGCTTGCACTAGCTTGGGTTCTTCATCAAGGGGATGATGTGGCACCTATCCCTGgtgagtcacgtgttcttcctctcaacctagcatgcaaagaacatgcttaacatctgttcttgtcctcacaataacatcattcatatc--tcttttgattgtc

upper sequence: GLYMA03G40680.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv14s0030g02020.t01 (Vitis vinifera), 5'ss of exon 6
TCTAGGATAGAAAAATTGGCAGAGAAGTATGGATGTACATCTTCGCAACTTGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgattttcctgactttggtacgcaacatttgatcta-attcttgactttgttgtgtgtcagtcaatttgatctctaacactagcgatcaaatcaat
 |||  || || |  ||||| || ||| |  |||| ||  || | || ||||| || || ||| ||||||||||||| || ||||||| ||| ||||||||||||| |  |      | |    ||  | ||    |   | ||  || || |   |   ||||     | |   ||  | |         | |  ||   
ACTAAAATGGAGATGTTGGCTGAAAAGCACAGATGCACCCCTGCACAGCTTGCACTAGCTTGGGTTCTTCATCAAGGGGATGATGTGGCACCTATCCCTGgtgagtcacgtgttcttcctctcaacctagcacacaaagaacatggttaacatctattcttgtcctcacaataactcattcatgtctcttttgatgtcgg-

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|192298310|gb|FG992100.1|FG992100
EST:     TGTTCTTGCATGGATTTTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|6913427|gb|AW394948.1|AW394948
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|193419001|gb|FK384821.1|FK384821
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|31472024|gb|CD414052.1|CD414052
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|38192802|gb|CF922008.1|CF922008
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|17998790|gb|BI245414.1|BI245414
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTGATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|21887306|gb|BQ740519.1|BQ740519
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|192332296|gb|FK025961.1|FK025961
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|192334363|gb|FK025540.1|FK025540
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|12772321|gb|BG237248.1|BG237248
EST:     TTCTTCATGAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|12496212|gb|BG046951.1|BG046951
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|261497124|gb|GT185192.1|GT185192
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|5761333|gb|AI966692.1|AI966692
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCG
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCG
EST: gi|58017212|gb|CX703954.1|CX703954
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|19937667|gb|BQ081378.1|BQ081378
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|209701736|gb|BW667401.1|BW667401
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATC
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATC
EST: gi|9902294|gb|BE611262.1|BE611262
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|58014894|gb|CX701636.1|CX701636
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|21887893|gb|BQ741106.1|BQ741106
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|31464493|gb|CD406521.1|CD406521
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|209701737|gb|BW667402.1|BW667402
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
EST: gi|7285866|gb|AW598353.1|AW598353
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCCGGT-CATGTGAAGTG
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATC-GGTTCATGTGAAGTG
EST: gi|209699282|gb|BW670244.1|BW670244
EST:     TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTG                         GAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA
genomic: TGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgatt ... tgtattgcagGAACAACTAAGATAAAAAATCTTGATAGTAATATCGGTTCATGTGAAGTGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTAGGATAGAAAAATTGGCAGAGAAGTATGGATGTACATCTTCGCAACTTGCTCTTGCATGGATTCTTCATCAAGGAGACGATGTGGTACCCATCCCTGgtgagtgattttcctgactttggtacgcaacatttgatctaattcttgactttgttgtgtgtcagtcaatttgatctctaacactagcgatcaaatcaat

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA