Sequence
atgc intronic sequence ATGC exonic sequence...cttagttgggttaaaggccgaacatatgattttactataatttcttcagctactttttaatggaatttttttttaattgttctttaaatgttaattatagGAGGATAAGGGATATAATTGTCCAGTGTAAAGGAAGCCTTGTGCTTGAATTGCAGCAGAGATCCATTGAATTTAATTCCATTATTGGGAAGCATCAAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G017421_T01 (Zea mays), 3'ss of exon 12
cttagt-tgggttaaaggccgaacatatgattttactataatttcttcagctactttttaatgg--aatttttttttaattgttctttaaatgttaattatagGAGGATAAGGGATATAATTGTCCAGTGTAAAGGAAGCCTTGTGCTTGAATTGCAGCAGAGATCCATTGAATTTAATTCCATTATTGGGAAGCATCAAAAT
||| | | | | | | || | || | || | | | | || | | | ||| || |||| | ||| || || |||| ||||| |||| || ||| ||| || |||||| | |||||||||||||||||| ||||| |||||||| | ||||||||| | |||||
tacagtgtcagcttagtttcaagtctacgtgttcattagattgatgtgatatattgtaaagtggctgataattttatcatttttattcttgtgttgtc---agGAGAATAAAAGAAATAGTTGCGCAAAATAAAGGGAATACTGTGCTTGAATTGCAGCAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAGTCG
upper sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G030144_T03 (Zea mays), 3'ss of exon 11
cttagttgggttaaaggccgaacatatgattttactataatttcttcagc-----tactttttaatggaatttttttttaattgttctttaaatgtta-attat-agGAGGATAAGGGATATAATTGTCCAGTGTAAAGGAAGCCTTGTGCTTGAATTGCAGCAGAGATCCATTGAATTTAATTCCATTATTGGGAAGCATCAAAAT
| || ||| | || || | | | | | ||| | | ||| | | ||| || || ||| | | || || | |||||||||| || ||| ||| || |||||| | |||||||||||||||||| ||||| |||||||| | ||||||||| | ||||||
-------agtttcaagtctatgtgcccccttgtaatgcatgccttgaaacaagttcactgtaaagtggcagcatgatttcatcatttttttattcttgtgttgtcagGAGGATAAAAGAAATAGTTGCGCAAAATAAAGGGAATACTGTGCTTGAATTGCAGCAAAGATCTATTGAATTCAGTTCCATTATACAAAGACATCAATCG
upper sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA01G03890.1 (Glycine max), 3'ss of exon 12
--cttagttgggttaaaggccgaacatatgattttact-ataatttcttcagct-actttttaa--tggaatttttttttaattgttctttaaatgttaattatagGAGGATAAGGGATATAATTGTCCAGTGTAAAGGAAGCCTTGTGCTTGAATTGCAGCAGAGATCCATTGAATTTAATTCCATTATTGGGAAGCATCAAAAT
| || | | | || | || || ||| ||| | | | || |||| | ||||| |||| ||| | ||| ||| | || |||||||||| | || || ||||| |||| ||||| ||| ||||||| ||||||||||||||| | |||||||| ||||| ||||||| ||||||||||||
agacttgtgcaaccagtgcaagtttatttatttcctcttatattttgtatatttgacattttgacctggaagtttt-----attctcttttgaatatggat-atagGAGGATCAAAGAAATTATTGTTCAGTTCAAAGGGAGCTTTGTGCTAGAATTGCAGCAGAGAGCTATTGAATTCAATTCGATTATTGCAAAGCATCAAAAT
upper sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA08G39930.1 (Glycine max), 3'ss of exon 12
cttagttgggttaaaggccgaaca--tatgattttactataatttcttcagctactttttaatggaatttttttttaattgt----tctttaaatgttaattatagGAGGATAAGGGATATAATTGTCCAGTGTAAAGGAAGCCTTGTGCTTGAATTGCAGCAGAGATCCATTGAATTTAATTCCATTATTGGGAAGCATCAAAAT
||| | || || | | || || |||| || | || || | || | ||| || | | ||||| || | | |||||| || ||||| |||||||| ||||| ||||| | |||||| | ||||||||||| |||||||| ||||| |||| ||||||| ||||||||||||
------ccctttacacaccaaatacttgtgtacctatgataagctcatatccttattgtatttgtacatttgacttgaaagcattctcttttcattcaatatgtagGAGAATCAGGGAAATAATTGTTCAGTGCAAAGGGAACCTTGTATTAGAATTGCAGCAAAGATCCATAGAATTCAATTTGATTATTGCAAAGCATCAAAAT
upper sequence: Vv01s0026g00310.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA02G03800.1 (Glycine max), 3'ss of exon 11
-cttagttgggttaaaggccgaacatatgattttactataatttcttcagctactttttaatggaattttt--ttttaattgttctttaaatgttaattatagGAGGATAAGGGATATAATTGTCCAGTGTAAAGGAAGCCTTGTGCTTGAATTGCAGCAGAGATCCATTGAATTTAATTCCATTATTGGGAAGCATCAAAAT
| | | | || | | |||| | ||||| || || || | || | | ||| ||| | ||| ||| | ||| |||||||||| | || || ||||| |||| ||||| ||| ||||||| |||||||||||||| | |||||||| | ||| |||||| ||||||||||||
ccatgcctaagacttgtgcaaccagtgcaagtttattt--atttcctcttatatttgtatatttgacctggaaattttattctcttttgaatatgaat-atagGAGGATCAAAGAAATTATTGTTCAGTTCAAAGGGAGCTTTGTGCTAGAATTGCAGCAGAGGGCTATTGAATTCAGTTCGATTATTTCAAAGCATCAAAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcagctactttttaatggaatttttttttaattgttctttaaatgttaattatagGAGGATAAGGGATATAATTGTCCAGTGTAAAGGAAGCCTTGTGCTTGAATTGCAGCAGAGATCCATTGAATTTAATTCCATTATTGGGAAGCATCAAAAT
tgttaat putative branch site (score: 3)
tactttttaatggaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttagttgggttaaaggccgaacatatgattttactataatttcttcagctactttttaatggaatttttttttaattgttctttaaatgttaattatagGAGGATAAGGGATATAATTGTCCAGTGTAAAGGAAGCCTTGTGCTTGAATTGCAGCAGAGATCCATTGAATTTAATTCCATTATTGGGAAGCATCAAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- tagttgg
- - - - - - aaaggcc
- - - - - - - - - - - - - - - - - - - - - - - cagctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatggaa