Sequence
atgc intronic sequence ATGC exonic sequence...atgaaccatgtagatatgctagtccatctcatggaatgtatggaagtgtaattgtgcttttgcattcgtgcaataactggtggcaccatgttttttttagGTGGTCGGGACACCAAATTACATGTGCCCAGAGCTGCTAGCTGATATTCCCTATGGTTTCAAGTCAGACATCTGGTCTCTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G137118_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os05g36960.1 (Oryza sativa), 3'ss of exon 8
-----atgaaccatgtagatatgctagtcc-atctcatggaatgtatggaagtgtaattgtgcttttgcattcgtgcaataactggtggcaccatgttttttttagGTGGTCGGGACACCAAATTACATGTGCCCAGAGCTGCTAGCTGATATTCCCTATGGTTTCAAGTCAGACATCTGGTCTCTCG
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tatagttatctcttttacacacatttatctgaatttgtaaaataggtgaagttattattatttttctatgctca------aactgacagcataatgctttctttagGTTGTTGGAACACCGAATTACATGTGTCCAGAGCTTCTCACAGATATCCCTTATGGATTCAAGTCAGACATCTGGTCTCTTG
upper sequence: GRMZM2G137118_T02 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA12G09910.1 (Glycine max), 3'ss of exon 8
atgaaccatgtagatatgctagtccatctcatggaatgtatggaagtgta-attgtgcttttgcattcgtgcaataactggtggcaccatgttttttttagGTGGTCGGGACACCAAATTACATGTGCCCAGAGCTGCTAGCTGATATTCCCTATGGTTTCAAGTCAGACATCTGGTCTCTCG
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gcttccaattttttaatccatatgattagcgtaacattcatagacaaatacatagtcaccacatatgggattaataattgctgtaaatgt-ttctatgtagGTGGTAGGAACTCCTAATTACATGTGCCCTGAACTGCTTGCTGATATTCCATATGGATTCAAATCTGATATTTGGTCACTAG
upper sequence: GRMZM2G137118_T02 (Zea mays), 3'ss of exon 9
lower sequence: AT3G44200.1 (Arabidopsis thaliana), 3'ss of exon 8
---atgaaccatgtagatatgctagtccatctcatggaatgtatggaagtgtaattgtgcttttgcattcgtgcaataactggtggcaccatgttttttttagGTGGTCGGGACACCAAATTACATGTGCCCAGAGCTGCTAGCTGATATTCCCTATGGTTTCAAGTCAGACATCTGGTCTCTCG
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tccataatgattattattcttaggattgctctcaagcttctgaactaatacttagtgtgatagaaaatggtgtttatgactcatggaa---ttttatatttagGTTGTTGGAACTCCAAACTACATGTGCCCGGAACTGCTTGCTGATATCCCTTATGGTTTTAAGTCAGATATCTGGTCCTTAG
upper sequence: GRMZM2G137118_T02 (Zea mays), 3'ss of exon 9
lower sequence: PP1S22_216V6.1 (Physcomitrella patens), 3'ss of exon 8
----------------------------------------------atgaaccatgtagatatgctagtccatctcatgg--aatgtatggaagtgtaattgtgcttttgcattcgtg-caataactggtggcaccatgttttttttagGTGGTCGGGACACCAAATTACATGTGCCCAGAGCTGCTAGCTGATATTCCCTATGGTTTCAAGTCAGACATCTGGTCTCTCG
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gtaagtaatccgttgtgaacctcgtatcatttgcattggaatgatgatcgctgctgtgaatagtttttaccatctcgcggtcgtactgttcgtttggaagttaatcaatccactaatggccggaacgtgctgcttcttgctattgc-agGTAGTAGGCACTCCAAATTACATGTGTCCAGAGCTACTTGCAGACATCCCATATGGATTCAAATCAGACATTTGGTCATTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtaattgtgcttttgcattcgtgcaataactggtggcaccatgttttttttagGTGGTCGGGACACCAAATTACATGTGCCCAGAGCTGCTAGCTGATATTCCCTATGGTTTCAAGTCAGACATCTGGTCTCTCG
caataac putative branch site (score: 2)
tgtttttttt putative PPT
atgtttttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgaaccatgtagatatgctagtccatctcatggaatgtatggaagtgtaattgtgcttttgcattcgtgcaataactggtggcaccatgttttttttagGTGGTCGGGACACCAAATTACATGTGCCCAGAGCTGCTAGCTGATATTCCCTATGGTTTCAAGTCAGACATCTGGTCTCTCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT