Sequence
atgc intronic sequence ATGC exonic sequence...agagttataacttcctaataactttttgtttcattcacaccttattcacttttaaacatgtgaccttaatttgcatatattcatggaattttatcttcagGAACTTGAGGGAGATGTTTAAGTTGGATGCTGCAGATTACATGATGTCCATCTGCGGTGATGATGGTCTCAGGGAGCTTCCTTCTCCAGGGAAAAGTGGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g01790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os03g49510.1 (Oryza sativa), 3'ss of exon 4
--agagttataacttcctaataactttttgtttcattcacacct--tattcacttttaaacatgtgaccttaatttgcatatattcatggaattttatct-tcagGAACTTGAGGGAGATGTTTAAGTTGGATGCTGCAGATTACATGATGTCCATCTGCGGTGATGATGGTCTCAGGGAGCTTCCTTCTCCAGGGAAAAGTGGC
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acattgtttagaaatgc-atcgacttgaaagttcgatcaattctgtcaattgttcttgtaattttctccatatctt--attagctcat--aatttactctaccagGAATCTTCGAGAAATGTTTCATATCGATGCTGCAGATTACATGATGTCTATATGTGGTGGTGATAGTCTAAAGGAGCTTTCTTCACCTGGGAAAAGTGGC
upper sequence: Vv12s0034g01790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G05150.1 (Glycine max), 3'ss of exon 2
agagttataacttcc----taata-actttttgtttcattcacaccttattcacttttaaacatgtgaccttaatttgcatatattcatggaattttatcttcagGAACTTGAGGGAGATGTTTAAGTTGGATGCTGCAGATTACATGATGTCCATCTGCGGTGATGATGGTCTCAGGGAGCTTCCTTCTCCAGGGAAAAGTGGC
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--attcatgccccctccagtaatgcacatgcagctttgcagataccttggtcttttcttctttctttgcat-aattagtaattacacaacca--tatatttccagGAATTTGAGAGAGATGTTCAAGTTAGATGCTGCAGAGTACATGATGTCCATTTGTGGAGATAGTGGTCTAAGGGACTTGTCTTCTCCCGGAAAAAGTGGC
upper sequence: Vv12s0034g01790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G30320.1 (Glycine max), 3'ss of exon 2
-agagttataacttcctaataactttttgtttcattcacaccttattcacttttaaacatgtgaccttaatttgcatatattcatggaattttatcttcagGAACTTGAGGGAGATGTTTAAGTTGGATGCTGCAGATTACATGATGTCCATCTGCGGTGATGATGGTCTCAGGGAGCTTCCTTCTCCAGGGAAAAGTGGC
| ||| || || | | | | || | | || |||| || ||| |||||||| | ||| | ||| | |||||| ||||| |||||||| || || ||||||||||| |||||||||||||| || |||||| |||||| ||||| | |||| || || |||||||||
ttaatgtatgcctcccaatttattaattacat-gtagctttctagcatctttttttttattctttctttctttgcataattacataagcatatatttccagGAATTTGAGAGAGATGTTCAAATTAGATGCTGCAGAGTACATGATGTCCATTTGTGGTGATTCTGGTCTAAGGGACATATCTTCACCTGGAAAAAGTGGC
upper sequence: Vv12s0034g01790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G13450.2 (Glycine max), 3'ss of exon 4
-agagttataacttcctaataactttttgtttcattcacaccttattcacttttaaacatgtgaccttaatttgcatatattcatggaattttatcttcagGAACTTGAGGGAGATGTTTAAGTTGGATGCTGCAGATTACATGATGTCCATCTGCGGTGATGATGGTCTCAGGGAGCTTCCTTCTCCAGGGAAAAGTGGC
|| | || | ||| | || || || | | ||| | | | | | | || |||||||| | ||| | ||| | |||||| ||||| |||||||| || || ||||||||||| |||||||||||||| || |||||| |||||| ||||| | |||| || || |||||||||
ttgattaatgtatgcctctcagtttattaatt-acatgtagctttctagcatcctttttttttccttttctttgcataattacataagcatatatttccagGAATTTGAGAGAGATGTTCAAATTAGATGCTGCAGAGTACATGATGTCCATTTGTGGTGATTCTGGTCTAAGGGATATATCTTCACCTGGAAAAAGTGGC
upper sequence: Vv12s0034g01790.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G19860.1 (Glycine max), 3'ss of exon 2
---agagttataacttcctaataactttttgtttcattcacaccttattcacttttaaacatgtgaccttaatttgcatatattcatggaattttatcttcagGAACTTGAGGGAGATGTTTAAGTTGGATGCTGCAGATTACATGATGTCCATCTGCGGTGATGATGGTCTCAGGGAGCTTCCTTCTCCAGGGAAAAGTGGC
||| ||| | || | | | || | | || || ||| | | | | |||| | | || || | | | ||| | |||||| ||||| |||||||| | ||| ||||||||||| |||||||||||||| || || ||| ||| || ||||| | ||||||| || ||||||||
cctccagtgatattgctcatgtaggctgtagctttgcagatatgttggtctcttcttctttctttgcat-aattagtaattacacaagca--tatatttccagGAATTTGAGAGAGATGTTCAGGTTAGATGCTGCAGAGTACATGATGTCCATTTGTGGAGATAGTGGACTAAGGGACTTGTCTTCTCCTGGAAAAAGTGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcacttttaaacatgtgaccttaatttgcatatattcatggaattttatcttcagGAACTTGAGGGAGATGTTTAAGTTGGATGCTGCAGATTACATGATGTCCATCTGCGGTGATGATGGTCTCAGGGAGCTTCCTTCTCCAGGGAAAAGTGGC
ccttaat putative branch site (score: 4)
ttttatcttc putative PPT
ttaatttgcatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agagttataacttcctaataactttttgtttcattcacaccttattcacttttaaacatgtgaccttaatttgcatatattcatggaattttatcttcagGAACTTGAGGGAGATGTTTAAGTTGGATGCTGCAGATTACATGATGTCCATCTGCGGTGATGATGGTCTCAGGGAGCTTCCTTCTCCAGGGAAAAGTGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - tcacacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - catgtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcatgg