Sequence
atgc intronic sequence ATGC exonic sequencegttttgtatataagatatagccatcaaatattttagttgtgctctttcatcaacaaatttaacctagacaatcatctttgtggagaatgatggataaaggataaaagagtttgaaatgtttttaggtttgttctttttcttggtcaattaggctgtcatgtttaaagtgtcacgatctgttttatgtggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCACTATTGCAGTATTTTGGAACACTTCTAACAAGAGGAAAGCTGAATGCCTTTGAGTCATTGGAATTGT
Basic information
species | Glycine max |
transcript | GLYMA11G35460.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 11
gttttgtatataagatatagccatcaaatattttagttgtgctctttcatcaacaaatttaacctagacaatcatctttgtggagaatgatggataaaggataaaagagtttgaaatgtttttaggtttgttctttttcttggtcaattaggctgtcatgtttaaagtgtcacgatctgttttatgtggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCACTATTGCAGTATTTTGGAACACTTCTAACAAGAGGAAAGCTGAATGCCTTTGAGTCATTGGAATTGT
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-------------------------------------------------------------------------attttcatttactttcctgtgttgggactgtacaact----aatcttaatgcttatgctcttctgcttg----acttagctttttcgtttc-----------tgtgctttaaaatgcagAGTGTTCCTGTTCAAGCTGGGCAAACGCCTCCACTCTTGCAGTACTTTGGCACATTGCTAACTCGGGGGAAGCTCAATGCTTACGAGTCTCTTGAGCTAT
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 11
gttttgtatataagatatagccatcaaatattttagttgtgctctttcatcaacaaatttaacctagacaatcatctttgtggagaatgatggataaaggataaaagagtttgaaatgtttttaggtttgttctttttcttggtcaattaggctgtcatgtttaaagtgtcacgatctgttttatgtggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCACTATTGCAGTATTTTGGAACACTTCTAACAAGAGGAAAGCTGAATGCCTTTGAGTCATTGGAATTGT
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-------------------------------------------------------------------------attttcatttactttcctgtgttgggactgtacaact----aatcttaatgcttatgctcttctgcttg----acttagctttttcgtttc-----------tgtgcttttaaatgcagAGTGTTCCTGTTCAAGCTGGGCAAACGCCTCCACTCTTGCAGTACTTTGGCACATTGCTAACTCGGGGGAAGCTCAATGCTTACGAGTCTCTTGAGCTAT
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 9
gttttgtatataagatatagccatcaaatattttagttgtgctctttcatcaacaaatttaacctagacaatcatctttgtggagaatgatggataaaggataaaagagtttgaaatgtttttaggtttgttctttttcttggtcaattaggctgtcatgtttaaagtgtcacgatctgttttatgtggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCACTATTGCAGTATTTTGGAACACTTCTAACAAGAGGAAAGCTGAATGCCTTTGAGTCATTGGAATTGT
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----------------------------------------------------------------------------cctgctatcag-gattcatgtacatttaatcaattctcagtgt------ataagttcctttctttgacttaataa-ttcttatgtttattactttatca--------aaattgcagAGTGTTCCTGTGCAAGCTGGGCAAACACCCCCACTCTTGCAGTACTTTGGCACATTGCTAACTCGAGGGAAGCTCAATGCCTTTGAGTCTCTTGAGCTAT
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 11
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 11
gttttgtatataagatatagccatcaaatattttagttgtgctctttcatcaacaaatttaacctagacaatcatctttgtggagaatgatggataaaggataaaagagtttgaaatgtttttaggtttgttctttttcttggtcaattaggctgtcatgtttaaagtgtcacgatctgttttatg---tggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCACTATTGCAGTATTTTGGAACACTTCTAACAAGAGGAAAGCTGAATGCCTTTGAGTCATTGGAATTGT
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----------------------------------------------------------------------------------gtatatgttccatattcaagcaaagaatcc------tctgtgaacatgttgtctataatgtatgtttgtaacaccagtctgaaactacaacatcacactttacaattttgcagAGTGTTCCTGTACAAGCAGGGCAAACTCCTCCATTGTTACAGTATTTTGGGACCCTTTTGACTAGAGGGAAGCTCAATTCATATGAGTCTTTGGAACTAT
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 11
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 11
gttttgtatataagatatagccatcaaatattttagttgtgctctttcatcaacaaatttaacctagacaatcatctttgtggagaatgatggataaaggataaaagagtttgaaatgtttttaggtttgttctttttcttggtcaattaggctgtcatgtttaaagtgtcacgatctgttttatgtggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCACTATTGCAGTATTTTGGAACACTTCTAACAAGAGGAAAGCTGAATGCCTTTGAGTCATTGGAATTGT
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-----------------------------------------------------------------------------------------gtgtctatttcatatccaagc---aactatgtgtaaacatgt--ttatttatgatgaa--atgttggtaacaccaatttttcaa---ctctataattttgcagAGTGTTCCTGTACAAGCTGGACAAACTCCTCCATTGTTACAGTATTTTGGGACTCTTTTGACTAGAGGGAAACTCAATTCATATGAGTCACTGGAACTAT
upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 11
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 11
gttttgtatataagatatagccatcaaatattttagttgtgctctttcatcaacaaatttaacctagacaatcatctttgtggagaatgatggataaaggataaaagagtttgaaatgtttttaggtttgttctttttcttggtcaattaggctgtcatgtttaaagtgtcacgatctgttttatgtggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCACTATTGCAGTATTTTGGAACACTTCTAACAAGAGGAAAGCTGAATGCCTTTGAGTCATTGGAATTGT
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-----------------------------------------------------------------------------------------cttcctttattttttatttttttaaaaaaccattc--cctggaattttggggtgggaaagatgctaaccactttgtcttcttctggtgtctaat-ttttgcagAGTGTTCCTATGCAATCTGGGCAGACTCCACCTTTGCTACAGTACTTTGGAACACTTCTAACTAGAGGAAAGCTCAATGCATTTGAGTCATTGGAATTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttggtcaattaggctgtcatgtttaaagtgtcacgatctgttttatgtggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCACTATTGCAGTATTTTGGAACACTTCTAACAAGAGGAAAGCTGAATGCCTTTGAGTCATTGGAATTGT
tctgtttt CT-rich tract
atgtttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttgtatataagatatagccatcaaatattttagttgtgctctttcatcaacaaatttaacctagacaatcatctttgtggagaatgatggataaaggataaaagagtttgaaatgtttttaggtttgttctttttcttggtcaattaggctgtcatgtttaaagtgtcacgatctgttttatgtggcagAGTGTTCCTGTGCAAGCTGGGCAAACTCCTCCACTATTGCAGTATTTTGGAACACTTCTAACAAGAGGAAAGCTGAATGCCTTTGAGTCATTGGAATTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA