Sequence
atgc intronic sequence ATGC exonic sequence...tcaaattgatgcaactgaaagtctctttctttaatggtgtagtcattgacatatttatttgtttgtttggttgaatatgattatttgagtaatttgacagGAGTCAAAATAGAAGGGATCTTGCGACAAGCTGCAGATGTCGATGATGTTGAATGTCGAATTCGGGAATATGAAAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g07310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G019153_T01 (Zea mays), 3'ss of exon 9
-----------------tcaaattgatgcaactgaaagtc--tctttctttaatggtgtagtcattgacatatttatttgtttgtttggttgaatatgatta--tttgagtaatttgacagGAGTCAAAATAGAAGGGATCTTGCGACAAGCTGCAGATGTCGATGATGTTGAATGTCGAATTCGGGAATATGAAAAAG
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gtgagtttttcttttcttttaattgctacaattgcatttaagtaatattctaaatttctaattccctatac---tgtataactgtctatgtatatataatcatgttaaaataacttaacagGTGTCAGAGTAGAAGGGATCTTACGACAAGCTGCAGATGTTGAAGATGTTAAGCGTCGAATTCAGGAATATGAACAGG
upper sequence: Vv18s0001g07310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G09780.1 (Glycine max), 3'ss of exon 6
--tcaaattgatgcaactgaaagtctctttctttaatggtgtagtcattgacatatttatttgtttgtttggt-tgaatatgattatttgagtaatttgacagGAGTCAAAATAGAAGGGATCTTGCGACAAGCTGCAGATGTCGATGATGTTGAATGTCGAATTCGGGAATATGAAAAAG
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atatacattagtttctttgagtcaataccaagtcagaatggtccttctggtattgctaaactttgtgttttatatgaatctaataaat---attatgaaatagGAGCCAACATAGAAGGAATCTTGCGACAAGCAGCTGATGTTGATGAGGTTGAACGTCGAGTTCGGGAATATGAACAAG
upper sequence: Vv18s0001g07310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G09860.1 (Glycine max), 3'ss of exon 9
---tcaaattgatgcaactgaaagtctctttctttaatggtgtagtcattgacatatttatttgtttgtttggt-tgaatatgattatttgagtaatttgacagGAGTCAAAATAGAAGGGATCTTGCGACAAGCTGCAGATGTCGATGATGTTGAATGTCGAATTCGGGAATATGAAAAAG
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acattagtttctttgagccaataccaagtcagaatggtccttttggtattgctaaact-gttagtgtgtttcatatgaatctaataaatattataa---aatagGTGCTAACATAGAAGGAATCTTGCGACAAGCAGCTGATGTTGATGAGGTTGAACGTCGAGTTCGGGAATATGAACAAG
upper sequence: Vv18s0001g07310.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G24580.1 (Arabidopsis thaliana), 3'ss of exon 8
tcaaattgatgcaactgaaagtctctttctttaatggtgtagtcattgacatatttatttgtttgtttggttgaatatgattatttgagtaatttgacagGAGTCAAAATAGAAGGGATCTTGCGACAAGCTGCAGATGTCGATGATGTTGAATGTCGAATTCGGGAATATGAAAAAG
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-------gtattagtttcaggttttttcagcttcttttgctgct-ttgttttactcactc---tgagctgataaagacaacaa-------aatcttgcagGAGTCAGGATAGAAGGAATCTTGAGACAAGCTGCTGATGTTGATGATGTTGAACACCGAATTCGCGAATATGAGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgacatatttatttgtttgtttggttgaatatgattatttgagtaatttgacagGAGTCAAAATAGAAGGGATCTTGCGACAAGCTGCAGATGTCGATGATGTTGAATGTCGAATTCGGGAATATGAAAAAG
cattgac putative branch site (score: 3)
aatatgattatttgag 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcaaattgatgcaactgaaagtctctttctttaatggtgtagtcattgacatatttatttgtttgtttggttgaatatgattatttgagtaatttgacagGAGTCAAAATAGAAGGGATCTTGCGACAAGCTGCAGATGTCGATGATGTTGAATGTCGAATTCGGGAATATGAAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - atgcaac
- - - - - - - - - - - - - - - - - tggtgta
- - - - - - - - - - - - - - - - - - - - - -cattgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtttgg