Sequence
atgc intronic sequence ATGC exonic sequence...atttatttattttaatcaagttgataccagtagatatcagaattttgaattgatttttacttcgtgacttagtatttcttttacttttccctatctatagGATCACTTGGCGCTGATGATGGAGCTTCTTGGAATGATGCCGCGCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0061g01050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G171987_T01 (Zea mays), 3'ss of exon 2
atttatttattttaatcaagttgataccagtagatatcagaattttgaattgatttttacttcg-tgacttagtatttcttttacttttccctatctatagGATCACTTGGCGCTGATGATGGAGCTTCTTGGAATGATGCCGCGCAAG
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ctgtacctctagactgcggttttgcgtttttttgggtgggaaatgtgacttctcccttcccaagatgaagttatattctgagaaattcttcacaa-tgcagGATCACCTCGCGCTGATGATGGAGCTGCTAGGAATGATGCCTCGAAAG
upper sequence: Vv06s0061g01050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G05480.1 (Glycine max), 3'ss of exon 2
-----atttatttattttaat-caagttgataccagtagatatcagaattttgaatt-gatttttacttcgtgacttagtatttcttttacttttccctatctatagGATCACTTGGCGCTGATGATGGAGCTTCTTGGAATGATGCCGCGCAAG
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ctgtgagaaatgtataaaaatgtgcaatgctgct-gtgtttattaggacgtcaatttcaatctagaataaatgagttgacattt--tgtaatttac----tctacagGATCATCTGGCATTGATGATGGAGCTTCTTGGGATGATGCCTCGCAAG
upper sequence: Vv06s0061g01050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G30440.1 (Glycine max), 3'ss of exon 2
atttatttattttaatcaagttgataccagtagatatcagaattttgaattgatttttacttcgtgacttagta--tttcttttacttttccctatctatagGATCACTTGGCGCTGATGATGGAGCTTCTTGGAATGATGCCGCGCAAG
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-tgtgcgaattgtataaaaatgtgcaatgct-gctgtggttatttggacttcaatttcaatctatgaataaacaagttgacattttgtaatttactctacagGATCATCTGGCATTGATGATGGAGCTTCTTGGGATGATGCCTCGCAAG
upper sequence: Vv06s0061g01050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G22840.1 (Arabidopsis thaliana), 3'ss of exon 2
atttatttattttaatcaagttgataccagtagatatcagaattttgaattgatttttacttcgtg-acttagtatttcttttacttttccctatctatagGATCACTTGGCGCTGATGATGGAGCTTCTTGGAATGATGCCGCGCAAG
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gtatatatctcttatgtgatttctcatactt---tgtgaaaaaataaaatcgtttcatgtcgtttgtactcaattgtaacactaatggactttggtttcagGATCACTTGGCATTGATGATGGAGCTTCTCGGGATGATGCCACGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaattgatttttacttcgtgacttagtatttcttttacttttccctatctatagGATCACTTGGCGCTGATGATGGAGCTTCTTGGAATGATGCCGCGCAAG
aattgat putative branch site (score: 4)
tatttcttttactttt putative PPT
tatttcttttactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atttatttattttaatcaagttgataccagtagatatcagaattttgaattgatttttacttcgtgacttagtatttcttttacttttccctatctatagGATCACTTGGCGCTGATGATGGAGCTTCTTGGAATGATGCCGCGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - -tgatacc