Sequence
atgc intronic sequence ATGC exonic sequence...ggttgggggaggggaaagatgctacgcattatgcatattctggatatgcatctttattcatggctgttgattagtgtgaaaaacttcattatatttgcagCAACTTGTCTCAGAGAAAGATTTGATAGTAAGAGAAGAAGCATGTCGTGTTGGTTTACTTTTTGGTGGTTTTACTGGATCCTATCATGCCCTCCGATGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0039g02700.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os07g31260.1 (Oryza sativa), 3'ss of exon 1
---ggttgggggaggggaaagatgctacgcattatgcatattctggatatgcatctttattcatggctgttg--attagtgtgaaaaacttcattatatttgcagCAACTTGTCTCAGAGAAAGATTTGATAGTAAGAGAAGAAGCATGTCGTGTTGGTTTACTTTTTGGTGGTTTTACTGGATCCTATCATGCCCTCCGATGTT
| || | || | | | | | || | ||| | | |||| | || ||| | | | ||| || ||||||||||||| || || ||||||||| | ||||| || || ||||| || || || || ||||||||||| || || |||||||| |||||||| || |||||||
ccaaacttccctttctgacaaatatt---tactgttc-tactactagtatactacaaagttcaaataagatgtcattgatataactttcttttcta-atttgcagCAACTGGTTTCGGAGAAAGATCTAATAGTGAGGGAGGAAGCTTGCCGGGTAGGATTACTTTTTGGAGGATTCACTGGATCATATCATGCACTTCGATGTT
upper sequence: Vv16s0039g02700.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G175799_T02 (Zea mays), 3'ss of exon 1
--ggttgggggaggggaaagatgctacgcattatgcatattctggatatgcatctttattcatggctgttgattagtgtgaaaaacttcattat-atttgcagCAACTTGTCTCAGAGAAAGATTTGATAGTAAGAGAAGAAGCATGTCGTGTTGGTTTACTTTTTGGTGGTTTTACTGGATCCTATCATGCCCTCCGATGTT
| || | | || | | | || | | ||| || | | || | || | | || | | |||| | |||| |||||||| || || ||||||||| | ||||||||||| ||||| || || || || || |||||||| || || |||||||| |||||||| || |||||||
ctgcttcgaacccgtgaccta-gtggcacagcgagacaactcttaccat--agcactaggcctgcccatctatatactcatctgaatacattctgatttacagCAACTGGTTTCGGAGAAAGATCTTATAGTAAGAGAGGAAGCTTGCCGGGTAGGGTTGCTTTTTGGCGGATTCACTGGATCATATCATGCACTTCGATGTT
upper sequence: Vv16s0039g02700.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA10G33510.1 (Glycine max), 3'ss of exon 1
----ggttgggggaggggaaag-atgctacgcattatgcatattctggatatgcatctttattcatggctgttgattagtgtgaaaaacttcattatatttgcagCAACTTGTCTCAGAGAAAGATTTGATAGTAAGAGAAGAAGCATGTCGTGTTGGTTTACTTTTTGGTGGTTTTACTGGATCCTATCATGCCCTCCGATGTT
||| | || | || ||| | || |||| | || ||| || ||| | | | || || || | ||| ||||||||||| ||||| |||||| |||||||||| ||||||||||| || |||||||||||||||||||||| |||||||| |||||||| || |||| |
ttatatttgagactggagggagtatgtttagc-ttatctgttttt---atacaaatacaaattggagaacatatgaggttatggctt-ttttgttttgtttccagCAACTTGTTTCAGAAAAAGATCTGATAGTAAGGGAAGAAGCATGCCGCATTGGTTTACTTTTTGGTGGTTTCACTGGATCTTATCATGCTCTTAGATGCT
upper sequence: Vv16s0039g02700.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA20G34070.1 (Glycine max), 3'ss of exon 1
ggttgggggaggggaaagatgctacgcattatgcatattctggatatgcatctttattcatggctgttgat-tagtgtgaaaaacttcattatatttgcagCAACTTGTCTCAGAGAAAGATTTGATAGTAAGAGAAGAAGCATGTCGTGTTGGTTTACTTTTTGGTGGTTTTACTGGATCCTATCATGCCCTCCGATGTT
| | | | ||||| | |||| | || | | || || || | || ||| | || | || ||| | ||| ||||||||||| ||||| |||||| |||||||||| ||||||||||| || ||||| | |||||||||||||| |||||||| |||||||| || |||| |
ctatattgtatatgttagatggttagcatatctgtttttatacaaatacaaattggggaacaaatgatgaggttatggattttattttatt-tgtttccagCAACTTGTTTCAGAAAAAGATCTGATAGTAAGGGAAGAAGCATGCCGCATTGGTCTTCTTTTTGGTGGTTTCACTGGATCTTATCATGCTCTTAGATGCT
upper sequence: Vv16s0039g02700.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G51150.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------------------------------------------------------ggttgggggaggggaaagatgctac-gcattatgcatattctggatatgcatctttattcatggctgttgattagtgtgaaaaac---ttcattatatttgcagCAACTTGTCTCAGAGAAAGATTTGATAGTAAGAGAAGAAGCATGTCGTGTTGGTTTACTTTTTGGTGGTTTTACTGGATCCTATCATGCCCTCCGATGTT
| || | | ||| | | || ||| || || | || | | || ||| || | | | || | | || |||||||||||||| |||||||||||||||||||| || || |||||||||||| ||||| ||||||||||||| |||||||| || ||||||||||| |||| |
gtgaggaattgatgaattggaatttgtttttgtggcaatttctggagatttagagtcttacgagtctctgctttagtgttccatttgatacggttgttttgaaactatggccaatgtgt-tattgacttatcattgtatatgcgattcactcacacgtgaacaatggttgcagCAACTTGTTTCAGAGAAAGATTTGATAGTTAGGGAGGAAGCATGTCGTATTGGTCTACTTTTTGGTGGCTTTACTGGCTCGTATCATGCCCTTAGATGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgcatctttattcatggctgttgattagtgtgaaaaacttcattatatttgcagCAACTTGTCTCAGAGAAAGATTTGATAGTAAGAGAAGAAGCATGTCGTGTTGGTTTACTTTTTGGTGGTTTTACTGGATCCTATCATGCCCTCCGATGTT
tgttgat putative branch site (score: 4)
aaaaacttcattatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggttgggggaggggaaagatgctacgcattatgcatattctggatatgcatctttattcatggctgttgattagtgtgaaaaacttcattatatttgcagCAACTTGTCTCAGAGAAAGATTTGATAGTAAGAGAAGAAGCATGTCGTGTTGGTTTACTTTTTGGTGGTTTTACTGGATCCTATCATGCCCTCCGATGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - -ggggagg
- - - - - - ggaaaga
- - - - - - - - - - -ctacgca
- - - - - - - - - - - - - - -tatgcat
- - - - - - - - - - - - - - - - - - - - - gatatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaaaaa