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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TATACTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTTATTCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaatattgttcatattgccaacttcttgctagttagtgtgattcaagttttctgaaaatggattgtgtaataagtcaacaacttccgttcaact...

Basic information

species Glycine max
transcript GLYMA13G19500.2
intron # 5
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G19500.2 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os05g02310.1 (Oryza sativa), 5'ss of exon 5
TATACTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTTATTCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtac----ttgaatatt-gttcatattgccaacttcttgctagttagtgtgattcaagttttctgaaaatggattgtgtaataagtcaacaacttccgttcaact
| | || || ||||||||||| || |||||||||||||| || ||||| || ||  | ||||| ||| |||||||  |||||||  ||||||| |||||||||     ||| || || |||  || |   | | | ||||| ||     | |   ||    |    || |   || |    | || ||  |   |   |||    
TGTGCTCTATTCATCAGTTGTGTACCCTCACAACTATGGATTCATTCCTCGCACGCTGTGTGAAGACAGTGATCCGTTGGATGTGCTGGTTATAATGCAGgtatgtctttgtattttagttggtactagaatcctattgcttgtactcttaagaaaaacagtgcacaagtttcttttcccttcagccatta-tgtaaattc----

upper sequence: GLYMA13G19500.2 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os01g74350.1 (Oryza sativa), 5'ss of exon 6
TATACTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTTATTCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaatattgttcatattgccaacttcttgc-tagttagtgtg--attcaagttt--tctgaaaatggattgtgtaataagtcaacaacttccgttcaact
  | || ||||| ||||| || |||||||||||||||||||| ||||| || ||  | || || ||  |||||||  |||||||  |||| || ||||||||   |   |  | | ||  |||| || |        | | ||| |   ||  | || |   |     ||  || ||    | | | || |  |      ||   
AGTTCTCTACTCTTCAGTCGTCTATCCTCACAACTATGGGTTCATTCCTCGCACGCTGTGCGACGATAGTGATCCTTTGGATGTGCTGGTCATAATGCAGgtgtgtatttcct-tgcacgttgctaaatcagaatacaataagtctttcatctaggtatagcccatccatacatggtcccttcactgaa-acttgttacaca---

upper sequence: GLYMA13G19500.2 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G137930_T02 (Zea mays), 5'ss of exon 6
TATACTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTTATTCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgta--cttgaatattgttcatattgccaacttcttgctagttagtgtgattcaagttttctgaaaatggattgtgtaataagtcaacaacttccgttcaact---
| | || || |||||||||||||| |||||||||||||| || ||||| || ||  ||||||| ||| |||||||  |||||||  ||||||| |||||||||  |||   | || |  ||||        | |  | |  | ||        |||  |||||  ||   ||| | | |||||  |   ||    ||||| |   
TGTGCTGTATTCATCAGTTGTTTACCCTCACAACTATGGATTCATTCCTCGCACGCTTTGTGAAGACAGTGATCCTTTGGATGTACTGGTTATAATGCAGgtatgcttcttttttatatatatcattgggat-tcacaaaatggtacatcagtagtgatctgagtatcc-ttgggca-taagttga--gctaattttcaaatctt

upper sequence: GLYMA13G19500.2 (Glycine max), 5'ss of exon 5
lower sequence: AT3G53620.1 (Arabidopsis thaliana), 5'ss of exon 5
TATACTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTTATTCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaatattgttcatattgccaacttcttgc-tagttagtgtgattcaagttttctgaaaatggattgtgtaataagtc-aacaacttccgttcaact
||| ||||||||||| || || || || |||||||||||||| ||||| |||||  ||||||||||| |||| || || |||||  | || ||||||||||||    | | ||    | | |    |   | ||| || ||    | |   ||  |||||     |   |||  |  |   ||  | ||  |  |   || |
TATTCTTTACTCATCTGTCGTATACCCACACAACTATGGGTTCATTCCGCGTACCCTTTGTGAGGACAGTGACCCTATTGATGTTCTTGTCATTATGCAGgtaacatattttttcatacaattttgagaacctgcataatt--cattacataatgtttcttgttctattttgatttgtgcatctgataagctttgaagaagt

upper sequence: GLYMA13G19500.2 (Glycine max), 5'ss of exon 5
lower sequence: Vv08s0040g02470.t01 (Vitis vinifera), 5'ss of exon 5
TATACTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTTATTCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtac-ttgaatattgttc-atattgccaacttcttgctagttagtgtgattcaagttttctgaaaatgg-attgtgtaataagtcaacaacttccgttcaact
| | || ||||| |||||||| || || ||||||||||| ||||| ||||||||| | |||||||||  ||| |||||||||||||||||||| |||||||||   | |||  ||||  | ||     |||  ||   |       |  ||  |  | | ||   ||   | ||  |  |  |  ||||| ||   || | | 
TGTGCTGTACTCTTCAGTTGTGTACCCCCACAACTATGGCTTTATCCCACGTACTCTCTGTGAGGACAATGACCCCATGGATGTCTTGGTTATCATGCAGgtatgcttaatgctgtttgacatgtgtcactgttttgaatgcgtcatattttcacctgtatgctgattacaatgcatgtttgga-aacaatttt-atttatc-

upper sequence: GLYMA13G19500.2 (Glycine max), 5'ss of exon 5
lower sequence: PP1S46_53V6.1 (Physcomitrella patens), 5'ss of exon 6
TATACTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTTATTCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtact--tgaatattgttcatattgccaacttcttgctagttagtgtgattcaagttttctgaaaatggattgtgtaataagtcaacaacttccgttcaact
|||  | |||||||||||||| ||||| ||||| |||||||| |||||||||||| |||||||||| |  |||||||| |||||  | || ||||||||||||||  | || | | ||  | || |  |||   |   |     |||  ||   |  |     | |  ||   | | |||    |   |  | |    ||  
TATCTTGTACTCATCAGTTGTCTATCCACACAATTATGGGTTCATTCCACGTACTCTTTGTGAGGATGAGGATCCCATTGATGTTCTCGTCATTATGCAGgtactattcaagacttttttttttccttactaaatttcaacatttgtattttgtgaatgagatagactgagatttttatagcaaaggtaaatgcacgtaa--

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|298184004|gb|HO029217.1|HO029217
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
EST: gi|12489759|gb|BG043280.1|BG043280
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCGGGTTGCTTTCTTC
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTC
EST: gi|192330021|gb|FK020837.1|FK020837
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
EST: gi|19346407|gb|BM891287.1|BM891287
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
EST: gi|37996937|gb|CF808526.1|CF808526
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
EST: gi|298181507|gb|HO022946.1|HO022946
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
EST: gi|298169347|gb|HO020707.1|HO020707
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
EST: gi|6133848|gb|AW132241.1|AW132241
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCANAGCTATTGGTCTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
EST: gi|9565429|gb|BE474938.1|BE474938
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCAGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
EST: gi|7587913|gb|AW703719.1|AW703719
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAA                         GAGCCAGTACTTACGGGTTGCTATCTTCGGGCCAAAGCTATTGGTCTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
EST: gi|8403914|gb|BE059548.1|BE059548
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
EST: gi|192324146|gb|FK017877.1|FK017877
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
EST: gi|213593665|gb|DB971687.1|DB971687
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
EST: gi|209719745|gb|BW672120.1|BW672120
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
EST: gi|298178505|gb|HO024240.1|HO024240
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCGGGTTGCTTTCTTCGGG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGG
EST: gi|17154018|gb|BM143951.1|BM143951
EST:     GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAG                         GAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG
genomic: GTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaat ... ggttggacagGAGCCAGTTCTTCCGGGTTGCTTTCTTCGGGCCAAAGCTATTGGTCTCATG

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TATACTTTACTCATCAGTTGTTTATCCTCACAACTATGGGTTTATTCCACGTACTATTTGTGAGGACGGTGATCCCATGGATGTCTTGGTTATTATGCAGgtacttgaatattgttcatattgccaacttcttgctagttagtgtgattcaagttttctgaaaatggattgtgtaataagtcaacaacttccgttcaact

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CATGGA