Sequence
atgc intronic sequence ATGC exonic sequence...caataacttgtttattattgacagcatcaacaactgcattgcagaccagtatttgaaccatgataggttatgacctaaacaatttccttggtgtggccagGGCATTTAACGGCTCGAAGTGATGTTTATGGTTTTGGAGTGGTGCTGCTTGAGCTGCTCATTGGAAGGAGGGCCATGGACAAGAGCAGGCCCAGTCGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0065g00470.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G157115_T01 (Zea mays), 3'ss of exon 5
---------------------------caataacttgtttatta--------ttgacagcatcaacaactgcat-tgcagaccagt--atttgaaccatgataggttatgacctaaacaatttccttggtgtggccagGGCATTTAACGGCTCGAAGTGATGTTTATGGTTTTGGAGTGGTGCTGCTTGAGCTGCTCATTGGAAGGAGGGCCATGGACAAGAGCAGGCCCAGTCGAGA
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gtaagcaagggtttcctatcgtcaagccaacgatttgaggataaaaatgagcttgtccccaagaatgaatagacactcatgttacttgacttggtcca-aatattttaatcctcaaatcaccatttaacttgacgcagGCCATCTGACGGCACGAAGTGATGTTTATGGCTTCGGAGTGGTGCTTCTAGAGATGATTATCGGAAGAAGGGCTGTGGACAAGAGCCGGCCAAGCCGTGA
upper sequence: Vv11s0065g00470.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G050701_T02 (Zea mays), 3'ss of exon 5
---------------------------caataacttgtttattattgacagcat----caacaactgcattgcagacca--gtatttgaaccatgataggttatgacc-taaacaatttcc--ttggtgtggc-cagGGCATTTAACGGCTCGAAGTGATGTTTATGGTTTTGGAGTGGTGCTGCTTGAGCTGCTCATTGGAAGGAGGGCCATGGACAAGAGCAGGCCCAGTCGAGA
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gtaagcaaggatttcctatcatcaagccaacaattcgaggataaaaatgaacttgtccccaagaatgaatagacactcatggtacttgaccta-gtccaattatgttaatcctcaatcaccaattaacttgacgcagGCCATCTGACAGCACGAAGTGATGTTTATGGCTTTGGAGTCGTGCTTCTAGAGATGATTATTGGAAGAAGGGCTGTGGACGATAGCCGGCCGAGCCGTGA
upper sequence: Vv11s0065g00470.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G36500.2 (Glycine max), 3'ss of exon 5
caataacttgtttattattgacagcatcaacaa-ctgcattgcagaccagta--tttgaaccatgataggttatgacctaaacaatttccttggtgtggccagGGCATTTAACGGCTCGAAGTGATGTTTATGGTTTTGGAGTGGTGCTGCTTGAGCTGCTCATTGGAAGGAGGGCCATGGACAAGAGCAGGCCCAGTCGAGA
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-gatagtcctttcaatcttaaactgatgatcaagccactatgttaacagttacgtatgagtgattacat-ctgttaactaaccggattg-tcattatgatcagGGCATTTGACAGCTAGAAGTGATGTGTATGGTTTTGGGGTGGTGCTGCTTGAAATGCTTATTGGTAGAAGAGCATTAGACAAGAGCAGGCCCAGCCGAGA
upper sequence: Vv11s0065g00470.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G03070.1 (Glycine max), 3'ss of exon 5
-caataacttgtttattattgacagcatcaacaa-ctgcattgcagaccagtatttgaaccatgataggttatgacctaaacaatttccttggtgtggccagGGCATTTAACGGCTCGAAGTGATGTTTATGGTTTTGGAGTGGTGCTGCTTGAGCTGCTCATTGGAAGGAGGGCCATGGACAAGAGCAGGCCCAGTCGAGA
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tagatagtcctttcaatcttaaactgatgatcaagccactattttgacatgtacgtatgagattacatctgttaactaacctgattgtcat--tatgatcagGGCATTTGACAGCTCGAAGTGATGTGTATGGTTTTGGGGTGGTGCTACTTGAAATGCTTATCGGTAGAAGAGCATTAGACAAGAGCAGGCCTAGCCGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccagtatttgaaccatgataggttatgacctaaacaatttccttggtgtggccagGGCATTTAACGGCTCGAAGTGATGTTTATGGTTTTGGAGTGGTGCTGCTTGAGCTGCTCATTGGAAGGAGGGCCATGGACAAGAGCAGGCCCAGTCGAGA
acctaaa putative branch site (score: 3)
taaacaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caataacttgtttattattgacagcatcaacaactgcattgcagaccagtatttgaaccatgataggttatgacctaaacaatttccttggtgtggccagGGCATTTAACGGCTCGAAGTGATGTTTATGGTTTTGGAGTGGTGCTGCTTGAGCTGCTCATTGGAAGGAGGGCCATGGACAAGAGCAGGCCCAGTCGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
caataac
- - - - - - - - - - - -gcatcaa
- - - - - - - - - - - - - - - caactgc
- - - - - - - - - - - - - - - - - - - - -cagacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccatgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaacaa