Sequence
atgc intronic sequence ATGC exonic sequencegtatactcaaaaatttaatttgaagttatgagatgtttaatatcataacttgctgaatttctgtttattattaatttttttttggtcattaaaatatgcagATGTCGCCTGATGATTTTATAAGAAACAATCGTGGCATAGATGACGGAAAAGATTTACCTGAGGACTATATGAGATCATTGTATGAACGGATATCAAGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G058870_T01 (Zea mays), 3'ss of exon 4
gtatactcaaaaatttaatttgaagttatgagatgtttaatatcataacttgctgaatttctgtttattattaatttttttttggtcattaaaatatgcagATGTCGCCTGATGATTTTATAAGAAACAATCGTGGCATAGATGACGGAAAAGATTTACCTGAGGACTATATGAGATCATTGTATGAACGGATATCAAGAA
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----------------------gtactttcttgtggtgaaggttct--tttgcggagttctggtttac-acaattatgtaacatgttactcga---tgcagATGTCACCAGAAGATTTCATTAGAAACAATCGTGGTATCGATGATGGGAAGGACCTACCTGAAGAATTTATGAGATCATTGTATGAAAGGATTTGGAAAA
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G34560.1 (Glycine max), 3'ss of exon 5
gtatactcaaaaatttaatttgaagttatgagatgtttaatatcataacttgctgaatttctgtttattattaattttttt-ttggtcattaaaatatgcagATGTCGCCTGATGATTTTATAAGAAACAATCGTGGCATAGATGACGGAAAAGATTTACCTGAGGACTATATGAGATCATTGTATGAACGGATATCAAGAA
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-aaaaagtacaaactta-cagggactaaaaacatatttaagcctacaaataattatgatagaaatgatgacttattttcttattggttgttgagttatgcagATGTCTGCTGATGATTTCATAAGAAACAATCGTGGCATTGATGATGGAAAAGATTTGCCTGAGGAATACTTGAGGGCCTTGTTTGAGAGAATATCTAGAA
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G45360.1 (Glycine max), 3'ss of exon 3
gtatactcaaaaatttaatttgaagttatgagatgtttaatatcataact-tgctgaatttctgtttattattaatttttttttggtcattaaaatatgcagATGTCGCCTGATGATTTTATAAGAAACAATCGTGGCATAGATGACGGAAAAGATTTACCTGAGGACTATATGAGATCATTGTATGAACGGATATCAAGAA
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gtgcagtctg----tcaattctagaagttgattttcatatgattatgattatgattattatatatgtaatga-ggttcttttttgtttgctgagttatgcagATGTCGGCTGAAGATTTCATAAAAAATAATCGTGGCATAGATGATGGAAAAGATGTACCAGAGGAATACTTAAGGTCTTTGTATGAACGGATATCTAGAA
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G02610.1 (Glycine max), 3'ss of exon 4
gtatactcaaaaatttaatttgaagttatgagatgtttaatatcataacttgctgaatttctgtttattattaatttttttttggtcattaaaatatgcagATGTCGCCTGATGATTTTATAAGAAACAATCGTGGCATAGATGACGGAAAAGATTTACCTGAGGACTATATGAGATCATTGTATGAACGGATATCAAGAA
|| | |||| || || | || | ||||| || || || | | || | ||||| || |||||||| || | |||||||||||| |||||||||| |||||||||||||||||||| ||||| ||||||||||| || ||||| || |||| || |||| ||| | ||||| ||||
gtgtgctcacaatcctatagttctgtaaattgatgtacaa-ataattatgtcagacatgatggcttatt------ttctttttggttgttgagttatgcagATGTCTGCTGATGATTTCATAAGAAACAATCGTGGCATTGATGATGGAAAAGATTTGCCAGAGGAATACTTGAGGTCCTTGTTTGAGAGAATATCTAGAA
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G45340.1 (Glycine max), 3'ss of exon 4
gtatactcaaaaatttaatttgaagttatgagatgtttaatatcataacttgctgaatttctgtttatta-ttaatttttttttggtcattaaaatatgcagATGTCGCCTGATGATTTTATAAGAAACAATCGTGGCATAGATGACGGAAAAGATTTACCTGAGGACTATATGAGATCATTGTATGAACGGATATCAAGAA
||| | || | | | | | | | || ||||| | || | | | | || | ||| ||| |||||||| || | |||||||||||| || ||||||| |||||||||||||||||||| ||||| ||||||||||| |||||||| || |||| | |||| ||| | ||||| ||||
--ataaagtacaaacttacagggactaaaaacatatttaagcctacaaataattatgatagaaatgatgacttattttctttttggttcttgagttatgcagATGTCTGCTAATGATTTCATAAGAAACAATCGTGGCATTGATGATGGAAAAGATTTGCCTGAGGAATACTTGAGGGCCTTGTTTGAGAGAATATCTAGAA
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G40480.1 (Glycine max), 3'ss of exon 4
gtatactcaaaaatttaatttgaagttatgagatgtttaatatcataacttgctgaat-ttctgtttattattaatttttttttggtcattaaaatatgcagATGTCGCCTGATGATTTTATAAGAAACAATCGTGGCATAGATGACGGAAAAGATTTACCTGAGGACTATATGAGATCATTGTATGAACGGATATCAAGAA
| | || | ||| ||| | | ||||| | ||| | | | | | | || | || |||||| ||||| | |||||||||||| |||| ||||| |||| ||| ||||||||||||||||| ||||||||| |||| ||||| || | || || ||||||||||| ||||| ||||
------------gtgcggtctgtcaattctagaagttgattttcatatgattgtgattatgatatatgtaatgaggttctttttgttcattgagttatgcagATGTCAGCTGAAGATTTCATAAAAAATAATCGTGGCATAGATGATGGAAAAGATGTACCAGAGGAATACTTAAGGTCTTTGTATGAACGAATATCTAGAA
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G60860.1 (Arabidopsis thaliana), 3'ss of exon 4
----gtatactcaaaaatttaatttga---agttatga--gatgtttaatatcataacttgctgaatttctgtttattattaatttttttttggtcattaaaatatgcagATGTCGCCTGATGATTTTATAAGAAACAATCGTGGCATAGATGACGGAAAAGATTTACCTGAGGACTATATGAGATCATTGTATGAACGGATATCAAGAA
| | | | | || | | |||||| || |||| | | | | || ||| |||| | | || |||||| | || || || ||||||| ||||||| ||||| |||||||||||||| ||||| ||||||||||||||||||| |||||| |||||||| |||||||| ||||| |||
gtttgcttcattcattgtctaggataatacagttattgtggaagttttaggtaaaatgttagtgacgttctttgtgcctttttttttttctc-----ttggaacatatagATGTCTGCTGATGACTTTATCAGAAACAATCGTGGAATAGACGACGGAAAAGATTTACCTGCGGACTACATGAGATCGCTGTATGAAAGGATAACAAAGC
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G01960.1 (Arabidopsis thaliana), 3'ss of exon 4
----------------gtatactcaaaaattt----aatttgaagttatgagatgt-ttaatatcataacttgctgaatttctgtttatt-------attaatttttt------tttggtcattaaaatatgcagATGTCGCCTGATGATTTTATAAGAAACAATCGTGGCATAGATGACGGAAAAGATTTACCTGAGGACTATATGAGATCATTGTATGAACGGATATCAAGAA
| || | || || || | || | || | |||||| || | | || || || | | ||| | || ||| |||| || |||||||| | |||||| |||||| |||||||||||||| |||||||| || |||||||| |||||||| ||| | | |||| |||||| ||||||| ||||
gtacatatttgagctgtttcgcttagaagctttctgaaatccctcttgaggaatatcttaatacgatcttgtttgaagcttgtgattggtcaaacaaagtaactcattactaaatttttcaattacaacttgcagATGACAGCTGATGGTTTTATTAGAAACAATCGTGGTATAGATGATGGGAAAGATTTGCCTGAGGAATATCTACGTGCATTATATGAAAGGATATCTAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacttgctgaatttctgtttattattaatttttttttggtcattaaaatatgcagATGTCGCCTGATGATTTTATAAGAAACAATCGTGGCATAGATGACGGAAAAGATTTACCTGAGGACTATATGAGATCATTGTATGAACGGATATCAAGAA
tattaat putative branch site (score: 2)
aatttctgtttattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatactcaaaaatttaatttgaagttatgagatgtttaatatcataacttgctgaatttctgtttattattaatttttttttggtcattaaaatatgcagATGTCGCCTGATGATTTTATAAGAAACAATCGTGGCATAGATGACGGAAAAGATTTACCTGAGGACTATATGAGATCATTGTATGAACGGATATCAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA