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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCACTTTGCTCCTGGGATCCCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtcttttaactagttcatgttttgttgtttttcttttcatcaagaagcttttatctttttttatttattcatactctgtattttctgtag

Basic information

species Glycine max
transcript GLYMA09G34610.1
intron # 11
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G34610.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv02s0033g01110.t01 (Vitis vinifera), 5'ss of exon 11
TCACTTTGCTCCTGGGATCCCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtcttttaactagttcatgttttgttgt--ttttcttttcatcaagaagcttttatctttttttatttattcatactctgt--attttctgtag---------------------------------
|||||||| || |||||||||||||||||||||||||| |  ||||||||||| |||||||||||||||||  ||||||    | || ||    || | |  | | |  |  | ||| | || ||  |   ||| | |   || |   | ||   ||   | ||                                   
TCACTTTGTTCATGGGATCCCTGCAAGAGGCCAACAGCCTTGGAGGCTCTTCAGCATCCTTTCTTCCAGgtattctttttgggaatttattcaatgatatagtgtccgatctagcaatatgcattgttgcctttctctgagtttaggatgtggtgatagccagttatttgactaatttacactgttctttttgtggcag
















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|21637546|gb|BM107701.1|BM107701
EST:     CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
genomic: CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtctttt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
EST: gi|120533910|gb|EH262043.1|EH262043
EST:     CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
genomic: CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtctttt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
EST: gi|308098976|gb|HO760817.1|HO760817
EST:     CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
genomic: CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtctttt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
EST: gi|26048713|gb|CA785166.1|CA785166
EST:     CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
genomic: CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtctttt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
EST: gi|15662868|gb|BI700239.1|BI700239
EST:     CCTGCAAGAGGCCAACGGCTTCAGAGGCACTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCGAGAACT
genomic: CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtctttt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
EST: gi|151399948|gb|EV269819.1|EV269819
EST:     CCTACAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
genomic: CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtctttt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
EST: gi|120533985|gb|EH262118.1|EH262118
EST:     CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
genomic: CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtctttt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
EST: gi|192325797|gb|FK018019.1|FK018019
EST:     CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
genomic: CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtctttt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
EST: gi|13311347|gb|BG404998.1|BG404998
EST:     CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAG
genomic: CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtctttt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAG
EST: gi|208282925|gb|GE077285.1|GE077285
EST:     CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
genomic: CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtctttt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
EST: gi|207750556|gb|GD724397.1|GD724397
EST:     CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
genomic: CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtctttt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
EST: gi|18732820|gb|BM527268.1|BM527268
EST:     CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
genomic: CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtctttt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
EST: gi|193451674|gb|FK419830.1|FK419830
EST:     CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
genomic: CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtctttt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
EST: gi|21600601|gb|BQ610932.1|BQ610932
EST:     CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAG                         AGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT
genomic: CCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtctttt ... ttttctgtagAGTTGCTTTTACATTCCTCCATCCCTTCGCAACAGAGCAGTAGCAAGAACT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCACTTTGCTCCTGGGATCCCTGCAAGAGGCCAACAGCTTCAGAGGCTCTTCAACATCCTTTCTTCCAGgtggtcttttaactagttcatgttttgttgtttttcttttcatcaagaagcttttatctttttttatttattcatactctgtattttctgtag

- - - - - - - - - - - GCAAGA
- - - - - - - - - - - - AAGAGG