Sequence
atgc intronic sequence ATGC exonic sequencegtgtgacatctttgattttttattttttttattctgatgagaaccatatttggtgattagtgctcttacatgataggaacttacacaagtccacctattattagatttggaaatgaataagggctggtattttttgtatttgcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAGGCATGGAGATAATGAATTTGCTTCAG
Basic information
species | Glycine max |
transcript | GLYMA13G00980.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G00980.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G18876.2 (Arabidopsis thaliana), 3'ss of exon 5
gtgtgacatctttgattttttattttttttattctgatgagaaccatatttggtgattagtgctcttacatgataggaacttacacaagtccacctattattagatttggaaatgaataagggctggtattttttgtatttgcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAGGCATGGAGATAATGAATTTGCTTCAG
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---------------------------------------------------------gtatgggttcacatagca--agttcagagtgtttgtaatataggttcaatcttaattaattaaaaattgatcttgttt-------tagGAGAGGTTAAACCAAGTGTTGATGGAGAAAAAGAAGGAAACGAGATCAGGCATGGAGATTATGAATCTACTCCAG
upper sequence: GLYMA13G00980.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G57410.2 (Arabidopsis thaliana), 3'ss of exon 7
gtgtgacatctttgattttttattttttttattctgatgagaaccatatttggtgattagtgctcttacatgataggaacttacacaagtccacctattattagatttggaaatgaataagggctggtattttttgtatttgcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAGGCATGGAGATAATGAATTTGCTTCAG
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------------------------------------------------------gttttgtatctttttctcgt-gaaactagcttt--tctgcatcctgtttaattctgcatt--ttgaacgct-----ttgtttctcttgtagGAACGGCTGAATCAAGTGTTAATGGAGAAAAAGAAAGAATCAAGATCTGGAATGGAGATTATGAATTTGCTACAG
upper sequence: GLYMA13G00980.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv11s0052g00890.t01 (Vitis vinifera), 3'ss of exon 7
gtgtgacatctttgat-----tttttattttttttattctgatgagaaccatatttggtgattagtgctcttacatgataggaacttacacaagt--ccacctattattagatttggaaa------tgaataagggct--ggtattttttgtattt-----gcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAGGCATGGAGATAATGAATTTGCTTCAG
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gtaggatcctttccatgtgtattattatgatattatcttttaggggaaacttaaa-ggttgctcatgttagcaaatgggaacatctttcatgaatgacaacatatatggagaacaggagaagttcatgagtaggaaattggggaatgattgtgtttcacttgcagGAGAGGCTTAACCAAGTTTTGATGGAGAAAAAGAAGGAATCGAGGTCTGGCATGGAGATAATGAATCTTCTTCAG
upper sequence: GLYMA13G00980.1 (Glycine max), 3'ss of exon 7
lower sequence: PP1S47_178V6.1 (Physcomitrella patens), 3'ss of exon 7
gtgtgacatctttgattttttattttttttattctgatgagaaccatatttggtgattagtgctcttacatgataggaacttacacaagtccacctattattagatttggaaatgaataagggctggtattttttgtatttgcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAGGCATGGAGATAATGAATTTGCTTCAG
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-------------gtataaggaattttcttgtcttaataa----tttcttttacagc--gtattcctagacgactggttctcttttgcataatgtttctatcatatttgaattgaggtgaatgt--atatcgtctgg---tacagGAACGATTGAACCAAGTCTTGATGGAAAAGAAAAAGGAGTCCAAGACCGGGATTGAGATAATGAATTTGCTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccacctattattagatttggaaatgaataagggctggtattttttgtatttgcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAGGCATGGAGATAATGAATTTGCTTCAG
ttttttgt CT-rich tract
tattttttgtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgacatctttgattttttattttttttattctgatgagaaccatatttggtgattagtgctcttacatgataggaacttacacaagtccacctattattagatttggaaatgaataagggctggtattttttgtatttgcagGAGAGGCTAAACCAAGTGTTGATGGAGAAGAAGAAAGAGTCTAGGTCAGGCATGGAGATAATGAATTTGCTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT