Sequence
atgc intronic sequence ATGC exonic sequencegtgatctggtgttcttttgtacctgtaaatgacaatgctctacctcatttctgttacttttatcttaaaaagatttaaaacaccattttctcactcttttatttaatacagacattattagcaaaaaagctgttgctacatagtgttccttaaattttcttagCGTGAAAGGTCCTGAACTGATCAACATGTACATTGGAGAGTCTGAAAAGAATGTTCGAGACATTTTCCAGAAG
Basic information
species | Glycine max |
transcript | GLYMA03G36930.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G36930.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os04g52690.3 (Oryza sativa), 3'ss of exon 9
--------gtgatctggtgttcttttgtacct-gtaaatgacaatgctctacctcat--ttctgttacttttatcttaaaaagattt---------aaaacaccattttc-------tcactcttttatttaa---tacagacattattagcaaaaaagctgttgctacatagtgttccttaaattttcttagCGTGAAAGGTCCTGAACTGATCAACATGTACATTGGAGAGTCTGAAAAGAATGTTCGAGACATTTTCCAGAAG
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gttggtttacggtgtttttctattttatactttgtttttagttaagctttaccttttcgtttcttcccatctgtccaaagaggataagcacatagaaaagcactgtatacgtgctcattattattatgtttcaatttgcagACATTATTGGCAAAA--GCTGTAGCAACAGAGTGCTCTTTAAACTTTCTTAGTGTAAAAGGTCCAGAATTGATTAACATGTATGTTGGAGAATCGGAGAAGA-----------------------
upper sequence: GLYMA03G36930.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G445617_T02 (Zea mays), 3'ss of exon 9
gt-gatctggtgttcttttgtacctgta-aatgacaatgct-ctacctcatttctgttacttttatcttaaaaagatttaaaac---accattttctcactcttttatttaa--tacagacattattagcaaaaaagctgttgctacatagtgttccttaaattttcttagCGTGAAAGGTCCTGAACTGATCAACATGTACATTGGAGAGTCTGAAAAGAATGTTCGAGACATTTTCCAGAAG
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gtaggtttgaaaaggttccatccggattcaattgtatttttgtttagctaccaataacaagtgcatccagaagaaacatgatacgagatcgctaaaataattgtcccttggacttctagACTTTACTCGCGAAA--GCAGTAGCAACTGAATGCTCATTGAACTTTCTTAGCGTCAAAGGTCCAGAACTGATAAACATGTATGTTGGAGAATCAGAGAAAA-----------------------
upper sequence: GLYMA03G36930.1 (Glycine max), 3'ss of exon 14
lower sequence: AT1G03000.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgatctggtgttcttttgtacctgtaaatga-caatgctctacctcatttctgttacttttatcttaaaaagatttaaaaca-ccat-tttctcactcttttatttaa---tacagacattattagcaaaaaagctgttgctacatagtgttccttaaattttcttagCGTGAAAGGTCCTGAACTGATCAACATGTACATTGGAGAGTCTGAAAAGAATGTTCGAGACATTTTCCAGAAG
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------------------------gtaagtaagccattttttctttcacttttagcatctct-taatagtctgttttttggcagttatatttttgagtttttgaattaaatttacagACTTTACTGGCAAAA--GCTGTGGCGACAGAGTGCTCCTTAAATTTCCTCAGTGTAAAGGGTCCAGAATTAATCAACATGTATATTGGAGAGTCAGAGAAAA-----------------------
upper sequence: GLYMA03G36930.1 (Glycine max), 3'ss of exon 14
lower sequence: Vv07s0104g01610.t01 (Vitis vinifera), 3'ss of exon 9
gtgatctggtgttcttttgtacctgtaaatgacaatgctctacctcatttct-gttacttttatcttaaaaagatttaaaacaccattttctcact--cttttatttaata---cagacattattagcaaaaaagctgttgctacatagtgttccttaaattttcttagCGTGAAAGGTCCTGAACTGATCAACATGTACATTGGAGAGTCTGAAAAGAATGTTCGAGACATTTTCCAGAAG
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gtaagtttttgtttgttagccacttatggtgatatctcaatacgttatttcttgtttatttttttaaccaggaacctggttcattgctttcttggttactcctattgcaaatctcagACTTTATTGGCAAAA--GCTGTTGCAACAGAGTGCTCCCTCAATTTTCTGAGTGTAAAAGGGCCTGAACTGATCAACATGTATATAGGAGAATCAGAGAAAA-----------------------
upper sequence: GLYMA03G36930.1 (Glycine max), 3'ss of exon 14
lower sequence: PP1S68_6V6.1 (Physcomitrella patens), 3'ss of exon 10
------------------------------gtgatctggtgttcttttgtacctg-taaatgacaatgctct--acctcatttctgttacttttatcttaaaaa----gatttaaaac---accattttctcactcttttatttaa--tacagacattattagcaaaaaagctgttgctacatagtgttccttaaattttcttagCGTGAAAGGTCCTGAACTGATCAACATGTACATTGGAGAGTCTGAAAAGAATGTTCGAGACATTTTCCAGAAG
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gtataagataatttcgagctcattagacatgctgactgcggttgtgctttttatgatagaaagtcttgttctgaacattaggcaaattatcaacactaccaaagtttggttgcatgactgaatcgattatgtaccgtgatgtttgtgttgcagACATTGCTCGCCAAG--GCTGTTGCCACTGAGTGCGCGTTGAACTTTCTGAGTGTCAAAGGTCCTGAGCTCATCAACATGTACATTGGAGAGTCAGAGAAGA----------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagacattattagcaaaaaagctgttgctacatagtgttccttaaattttcttagCGTGAAAGGTCCTGAACTGATCAACATGTACATTGGAGAGTCTGAAAAGAATGTTCGAGACATTTTCCAGAAG
ttttctt CT-rich tract
attattagcaaaaaa 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
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gtgatctggtgttcttttgtacctgtaaatgacaatgctctacctcatttctgttacttttatcttaaaaagatttaaaacaccattttctcactcttttatttaatacagacattattagcaaaaaagctgttgctacatagtgttccttaaattttcttagCGTGAAAGGTCCTGAACTGATCAACATGTACATTGGAGAGTCTGAAAAGAATGTTCGAGACATTTTCCAGAAG
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