Sequence
atgc intronic sequence ATGC exonic sequence...atatagattctctctgttgtctgagagccccagtgaatctgaatcttctgggttaatatgttcactattgtttaaatacttggctggttgttttttacagGCCGAGAAGATAGCGTCAAGAATGATTTATGAGGATAGAATGAGGGGATCTATTGATCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g12250.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G153769_T02 (Zea mays), 3'ss of exon 4
--atatagattctctctgttgtctg--agagccccagtgaatctgaatcttctgggttaatatg-ttcactattgtttaa-atacttggctggttgttttttacagGCCGAGAAGATAGCGTCAAGAATGATTTATGAGGATAGAATGAGGGGATCTATTGATCAG
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tgttgtagatgagacctgactacagatagaattctggtttcattaagttttgcgattttctaaacttgattgtagttccctatatttggatatttg------acagGCTGAGAAGATAGCATCTCGGATGATTTATGAGGATAGAATGCGGGGCTCAATTGATCAG
upper sequence: Vv18s0001g12250.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA09G36550.1 (Glycine max), 3'ss of exon 12
atatagattctctctgttgtctga--gagccccagtgaatctgaatcttctgggttaatatgttcactattgtttaaata-cttggctggttgttttttacagGCCGAGAAGATAGCGTCAAGAATGATTTATGAGGATAGAATGAGGGGATCTATTGATCAG
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---ttagttctctctctctctttattaacgttcgatggtcctaaagtttgttatattctatttatgttgatatttctttctctctaataataacttttctcagGCCGAGAAGATAGCATCAAGAATGATTTATGAGGATAGGATGAGGGGCTCTATTGATCAG
upper sequence: Vv18s0001g12250.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA12G00810.1 (Glycine max), 3'ss of exon 12
-atatagattctctctgttgtctgagagccccagtgaatctgaatcttctgggttaatatgttcactattgtttaaatacttggctggttgttttttacagGCCGAGAAGATAGCGTCAAGAATGATTTATGAGGATAGAATGAGGGGATCTATTGATCAG
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gttgttagcgtttttctctctctcaacgttc-aatggtcctaaagtttgttatattctatttatgttgatatttctttctctctaacaatacttttctcagGCTGAGAAGATAGCATCAAGAATGATTTATGAGGATAGGATGAGGGGCTCTATCGATCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctgggttaatatgttcactattgtttaaatacttggctggttgttttttacagGCCGAGAAGATAGCGTCAAGAATGATTTATGAGGATAGAATGAGGGGATCTATTGATCAG
ggttaat putative branch site (score: 4)
ttgtttttt putative PPT
tattgtttaaatactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatagattctctctgttgtctgagagccccagtgaatctgaatcttctgggttaatatgttcactattgtttaaatacttggctggttgttttttacagGCCGAGAAGATAGCGTCAAGAATGATTTATGAGGATAGAATGAGGGGATCTATTGATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - tctctct
- - - - - - - - -tgtctga
- - - - - - - - - - - - - -ccccagt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggctgg