Sequence
atgc intronic sequence ATGC exonic sequence...ccagagattttttttaaccatttcctaaaagatcttagagcctaacccaactctggttttaattaatatgtttgtttctctctctctctctctggctcagATGGAGAAGCTTGAAAGGGATATCAGGGAATCAAAGTTTGCAGAATTGATGAATAAACACTTTGCAGCAAGTGCCATTCCAAAAGGCATTCACTGTCTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G49960.1 (Glycine max), 3'ss of exon 3
ccagagattttttttaaccatttcctaaaagatcttaga-gcctaacccaactctggttttaattaatatgtttgtttctctctctctctctctggctcagATGGAGAAGCTTGAAAGGGATATCAGGGAATCAAAGTTTGCAGAATTGATGAATAAACACTTTGCAGCAAGTGCCATTCCAAAAGGCATTCACTGTCTGT
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atagtcacattgtttagactatacagtactgctcttgtataaatattgtgataatggtgattttattgatctttgtaaaaatgttgtgcttcttggg-cagATGGAAAAACATGAGAGAGAAATCAGAGAGTCTAAATTTGCAGAGCTGATGAATAAACACTTTGCAGCAAGTTCTATCCCTAAAGGGATTCATTGTCTGT
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G26480.1 (Glycine max), 3'ss of exon 3
ccagagattttttttaaccatttcctaaaag----atcttagagcctaacccaactctggttttaattaatatgtttgtttctctctctctctctctggctcagATGGAGAAGCTTGAAAGGGATATCAGGGAATCAAAGTTTGCAGAATTGATGAATAAACACTTTGCAGCAAGTGCCATTCCAAAAGGCATTCACTGTCTGT
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-tagtcacattgtttagctatacagtactgttcttgtattaaaaattgtgataaatggtgattttattgatct--ttgtaaaaatgatgtgcttcttggg-cagATGGAAAAACTTGAGAGAGAAATCAGAGAGTCTAAATTTGCAGAGCTGATGAATAAACACTTCGCAGCAAGTTCTATCCCTAAAGGGATTCATTGTCTGT
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G05950.1 (Glycine max), 3'ss of exon 3
ccagagattttttttaaccatttcctaaaagatcttagagcc-taacccaactctggttttaatta-atatgtttgtttctctctctctctctctggctcagATGGAGAAGCTTGAAAGGGATATCAGGGAATCAAAGTTTGCAGAATTGATGAATAAACACTTTGCAGCAAGTGCCATTCCAAAAGGCATTCACTGTCTGT
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-ttattattatcccatagcattgtcatatttatcatgtttcaatagtgttgctata-tgataattatattggtctgttacattgcaatgtttttttgaacagATGCAGAAATTTGAGAGAGAAATCAGAGAATCTAAATTTTCAGAGCTGATGAATAAACACTTTGCAGCAAGTTCAGTCCCTAAAGGGATTCATTGTCTGT
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G03460.1 (Glycine max), 3'ss of exon 3
ccagagattttttttaaccatttcctaaaagatcttagagcctaacccaactctggttttaatta-atatgtttgtttctctctctctctctctggctcagATGGAGAAGCTTGAAAGGGATATCAGGGAATCAAAGTTTGCAGAATTGATGAATAAACACTTTGCAGCAAGTGCCATTCCAAAAGGCATTCACTGTCTGT
||| | | ||| | | ||| | | | | | |||||| || || |||| | | | | | |||||| |||| |||| || || ||||| ||||| || ||| |||| ||||||||||||| |||||||||||| | |||| ||||| ||||| |||||||
-ttattattatcccatagcataatcgtatttatcatgtttcaatagtgatgctatatgataattatattggtctgttacattgcaatgtttctttgaacagATGCAGAAATTTGAGAGAGAAATCAGAGAATCTAAATTTTCAGAGCTGATGAATAAACATTTTGCAGCAAGTTCAGTTCCTAAAGGGATTCATTGTCTGT
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G15470.1 (Arabidopsis thaliana), 3'ss of exon 3
-----ccagagattttttttaaccatttcctaaaagatcttagagcctaacccaactctggttttaattaatatgtttg-tttctctctctctctctctggctcagATGGAGAAGCTTGAAAGGGATATCAGGGAATCAAAGTTTGCAGAATTGATGAATAAACACTTTGCAGCAAGTGCCATTCCAAAAGGCATTCACTGTCTGT
|||||| ||| |||| || | ||| | | || | | |||| || | || | | ||||| ||| | ||| | |||||||||||| ||||| | ||||| |||||||| || ||||||||| | ||||| || ||||||||||||||| ||||||| ||||||||||| ||||| |
atttggaagagatctttgttaattcttgtt-----gctctctaaagtgagccatatcaatgggaagattatcatatgtgatatatctctatct-tgtcttgaacagATGGAGAAGTTTGAACGTGATATGAGGGAATCGAAATTTGCAGAACTTATGAACAAGCACTTTGCAGCAAGTTCCATTCCCAAAGGCATTCATTGTCTCT
upper sequence: Vv14s0108g01520.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G01040.2 (Arabidopsis thaliana), 3'ss of exon 3
ccagagattttttttaaccatttcctaaaagatcttagagcctaacccaactctggttttaattaatatgtttgtttctctctctctctctctggctcagATGGAGAAGCTTGAAAGGGATATCAGGGAATCAAAGTTTGCAGAATTGATGAATAAACACTTTGCAGCAAGTGCCATTCCAAAAGGCATTCACTGTCTGT
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----gtacattctctaatc---ttcaataaaagcttaaattgtagattgatccgaaactta-------tatttgatttgattactcttttt---gaacagGTAGAGAAGTTTGAAAGGGATTTAAGGGAATCCAAATTTGCAGAACTCATGAACAAGCACTTTGCTGCAAGTTCAATTCCAAAAGGAATTCACTGTCTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cccaactctggttttaattaatatgtttgtttctctctctctctctctggctcagATGGAGAAGCTTGAAAGGGATATCAGGGAATCAAAGTTTGCAGAATTGATGAATAAACACTTTGCAGCAAGTGCCATTCCAAAAGGCATTCACTGTCTGT
aattaat putative branch site (score: 3)
tgtttgtttctctctc CT-rich tract
ttttaattaatatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccagagattttttttaaccatttcctaaaagatcttagagcctaacccaactctggttttaattaatatgtttgtttctctctctctctctctggctcagATGGAGAAGCTTGAAAGGGATATCAGGGAATCAAAGTTTGCAGAATTGATGAATAAACACTTTGCAGCAAGTGCCATTCCAAAAGGCATTCACTGTCTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - -ccatttc
- - - - - - - - - - - - - aaaagat
- - - - - - - - - - - - - - - - - - - - - taaccca