Sequence
atgc intronic sequence ATGC exonic sequence...ttgctgcaaatcttttaggcttgtttgactgtccttaattttatttgtatatttattcaaactctgtacacttaataaatatctaatttgaagttcacagGTACACTGTTGGCAAGATCACACCAGTACCAATGCGTGAAGTTCGGTCTTCTGATTTTGGAGATCGTGCCAGAATAAGAATGTATTTTCCCAGAAAAGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g01790.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G30320.1 (Glycine max), 3'ss of exon 1
ttgctgcaaatcttt--taggcttgtttgactgtccttaattttatttgtatatttattcaaactctgtacacttaataaatatctaatttg--aagttcacagGTACACTGTTGGCAAGATCACACCAGTACCAATGCGTGAAGTTCGGTCTTCTGATTTTGGAGATCGTGCCAGAATAAGAATGTATTTTCCCAGAAAAGGT
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-aactagaaaacaatggcaaacaaattgcattctcatcgtgtat-tttgtatttttgtttca--tatgaaggtttgatttaaagaaatttggccaaattctcagGTACACTGTTGGAAAAATTACACCAGTGCCTGCACGTGAAGTTCGGTCATCTGATTTTGGAGATCGAGCTAGGATAAGGATGTACTTCCCCAAGGAGGGT
upper sequence: Vv12s0034g01790.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G13450.2 (Glycine max), 3'ss of exon 3
--------------------------------------------------------------------------ttgctgcaaatcttttaggcttgtttgactgtccttaattttatttgtatatttattcaaactctgtacacttaataaatatctaatttgaag-------------ttcacagGTACACTGTTGGCAAGATCACACCAGTACCAATGCGTGAAGTTCGGTCTTCTGATTTTGGAGATCGTGCCAGAATAAGAATGTATTTTCCCAGAAAAGGT
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gtaaattatatgatctaacatcacccttctatcttattttggaacaacgtatatagtatctattgttaccagtaatatcaccattcttttttctgcattatacttattgttattttaaaaacaagaccatttggtattt-tgtttcatatgaaggtttgatttaaagaaatttggccaaattctcagGTACACTGTTGGAAAAATTACACCAGTGCCTGCACGTGAAGTTCGGTCATCTGATTTTGGAGATCGAGCTAGGATAAGGATGTACTTCCCCAAGGAGGGT
upper sequence: Vv12s0034g01790.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G19860.1 (Glycine max), 3'ss of exon 1
ttgctgcaaatcttttaggcttgttt---gactgtccttaattttatttg-tatatttattcaaactctgtacacttaataaatatctaatttgaagttcacagGTACACTGTTGGCAAGATCACACCAGTACCAATGCGTGAAGTTCGGTCTTCTGATTTTGGAGATCGTGCCAGAATAAGAATGTATTTTCCCAGAAAAGGT
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---ctctatagaagctagactgccataaggattgtgtcttgttgtgtttggcatggtgtgccatatagtgttt-tgggttgaattaatgtagataaattcacagGTATACCGTTGGCAAAATTACACCAGTGCCTGCACGCGAAGTTCGATCATCTGATTTTGGGGATCGAGCTAGAATAAGGATGTACTTCCCAAGGGCTGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtatatttattcaaactctgtacacttaataaatatctaatttgaagttcacagGTACACTGTTGGCAAGATCACACCAGTACCAATGCGTGAAGTTCGGTCTTCTGATTTTGGAGATCGTGCCAGAATAAGAATGTATTTTCCCAGAAAAGGT
atctaat putative branch site (score: 3)
ttaataaatatctaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgctgcaaatcttttaggcttgtttgactgtccttaattttatttgtatatttattcaaactctgtacacttaataaatatctaatttgaagttcacagGTACACTGTTGGCAAGATCACACCAGTACCAATGCGTGAAGTTCGGTCTTCTGATTTTGGAGATCGTGCCAGAATAAGAATGTATTTTCCCAGAAAAGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- -ctgcaaa
- - - - - - - - -ggcttgt
- - - - - - - - - - - - -tgactgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctctgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aataaat