Sequence
atgc intronic sequence ATGC exonic sequencegtaactaacctgacttgttcttttttttgcattaactaccttttgtgtgatttgtaacatgctaaatctcagGGATGCATGGGACATGGCTGCTGAGATTTGCCTTTCCAAGCTTCCTCAGTTAATTGCTGATCCAAATGCAGAGTTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os11g01872.1 (Oryza sativa), 3'ss of exon 7
gtaactaacctgacttgttcttttttttgca--ttaactaccttttgt--gtgatttgtaacatgctaaatctc------agGGATGCATGGGACATGGCTGCTGAGATTTGCCTTTCCAAGCTTCCTCAGTTAATTGCTGATCCAAATGCAGAGTTTCAG
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gtaattgatggcactagccattctttttatagtttagctacctcttctccattttctttaatttcctaaatttcaattttagGGATGCATGGGACATGGCTGCAGAGATCTGCCTTTCTAAGCTTCCTCAATTAATTGCTGATCCTAATGCAGAGTTTCAG
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os12g01922.1 (Oryza sativa), 3'ss of exon 8
gtaactaacctgacttgttcttttttttgca--ttaactaccttttgtgtgatttgt--aacatgctaaatctc------agGGATGCATGGGACATGGCTGCTGAGATTTGCCTTTCCAAGCTTCCTCAGTTAATTGCTGATCCAAATGCAGAGTTTCAG
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gtaattgatggcactagccattctttttatagtttagctacctcttctgcattttctttaatttcctaaattttaattttagGGATGCATGGGACATGGCTGCAGAGATCTGCCTTTCTAAGCTTCCTCAATTAATTGCTGATCCTAATGCAGAGTTTCAG
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA18G44210.1 (Glycine max), 3'ss of exon 8
---------gtaactaacctgac--ttgttcttttttttgcat-taactaccttttgt--gtgatttgtaacatg--ctaaatctcagGGATGCATGGGACATGGCTGCTGAGATTTGCCTTTCCAAGCTTCCTCAGTTAATTGCTGATCCAAATGCAGAGTTTCAG
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gtattgttggtgattattgttatgataatttttttctaaacgtgttgccaacttttgtcaacagtttatgtttttatccgcactgcagGGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCATCTTTAGTTGAGGATCCTAATTCTGAATTTCAG
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA09G41510.1 (Glycine max), 3'ss of exon 8
---------gtaactaacctgact-tgttcttttttttgcat-taactaccttttgt--gtgatttgtaacatg--ctaaatctcagGGATGCATGGGACATGGCTGCTGAGATTTGCCTTTCCAAGCTTCCTCAGTTAATTGCTGATCCAAATGCAGAGTTTCAG
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gtattgttggtgattatttttatgatatttttttctaaacgtgttgtcaaattttgtcaacagtttatgtttttatctgcactgcagGGATGCATGGGACATGGCTGCTGAGCTCTGCCTCTCTCAACTTCCGTCTTTAGTTGAGGATCCTAATGCTGAATTTCAG
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT3G08850.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaactaacctgacttgttctttttt-ttgcattaactaccttttgtgtgatttgtaacat-gctaaa-----------tctcagGGATGCATGGGACATGGCTGCTGAGATTTGCCTTTCCAAGCTTCCTCAGTTAATTGCTGATCCAAATGCAGAGTTTCAG
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gtattcaacaagaaccatattcttctgttatgtaaaatgttatgtgtctagattttgactcagctatccgttgcatgcttttcagGGATGCATGGGACATGGCTGCTGAAATCTGTCTTTCTCAGCTTCCCCAACTTGTTCTGGACCCAAGCACAGAGTTCCAG
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 8
lower sequence: AT5G01770.1 (Arabidopsis thaliana), 3'ss of exon 8
------gtaactaacctgacttgttcttttttttgcattaactacct----tttgtgtgatttgtaacatgctaaatctcagGGATGCATGGGACATGGCTGCTGAGATTTGCCTTTCCAAGCTTCCTCAGTTAATTGCTGATCCAAATGCAGAGTTTCAG
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gtattggacgttatccctagtt-tgcattttgatgaattgtgtgtctgagctctttacctccgctaata-gctgttttccagGGATGCATGGGACATGGCTGCTGAAATCTGCCTTTCTCAGCTTCCTCAATTTTTTCTGGACCCAAATACGGAGTTTCAG
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 8
lower sequence: Vv08s0058g00890.t01 (Vitis vinifera), 3'ss of exon 8
---------gtaactaacctgacttgttctttttttt-gcattaacta--ccttttgtgtgatt-tgtaacatgc---taaatctcagGGATGCATGGGACATGGCTGCTGAGATTTGCCTTTCCAAGCTTCCTCAGTTAATTGCTGATCCAAATGCAGAGTTTCAG
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gtacctactggaaata-ctagataagtaattttgttaagtgttcaataatccatttgtctcataatgtgccatgcatgtgtgctatagGGATGCATGGGACATGGCTGCTGAAATCTGCCTTTCTCAGCTTAAGTCATTGGTTGATGATCCCAATGCAGAGTTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttttttttgcattaactaccttttgtgtgatttgtaacatgctaaatctcagGGATGCATGGGACATGGCTGCTGAGATTTGCCTTTCCAAGCTTCCTCAGTTAATTGCTGATCCAAATGCAGAGTTTCAG
tgctaaa putative branch site (score: 2)
attaacta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactaacctgacttgttcttttttttgcattaactaccttttgtgtgatttgtaacatgctaaatctcagGGATGCATGGGACATGGCTGCTGAGATTTGCCTTTCCAAGCTTCCTCAGTTAATTGCTGATCCAAATGCAGAGTTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT