Sequence
atgc intronic sequence ATGC exonic sequence...ttagctgagctgaggttcggtttttgcatctctttgaatcttcgatcatttgagctggagagccttcttaatcttattttgcctttgaactgatatgcagTGGTATATTTGAGATAAACTGCTCAAAGGATATCAAAGTTCAGGGCATTATTGGTCCCTGTGCATCTCTTGAAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os08g36994.1 (Oryza sativa), 3'ss of exon 6
-ttagctgagctgaggt--tcggtttttgcatctctttgaat-cttcgat-catttgagctggagagccttcttaatcttattttgcctttgaactgatatgcagTGGTATATTTGAGATAAACTGCTCAAAGGATATCAAAGTTCAGGGCATTATTGGTCCCTGTGCATCTCTTGAAAAG
|| ||| | | | | || | |||||| | | | | || || | | ||| |||| | || | | | |||| | ||||||||||||||||| || ||||||||||||||| ||||| |||| ||||||||||| || ||| | || || || |||
cttcaatgacataaagaaaaccattgtggcatctaataaactgcatcagcgcaactttatttttgagttttctgattcctgtaca-----taaactactttgcagTGGTATATTTGAAATTAACTGCTCAAAGGATGTCAAAATTCAAGGCATTATTGGACCTTGTACTTCCCTGGAGAAG
upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G22740.1 (Glycine max), 3'ss of exon 4
ttagctgagctgaggttcggtttttgcatctc-tttgaatcttc--gatcatttgagctggagagccttcttaatcttattttgcctttgaactgatat--gcagTGGTATATTTGAGATAAACTGCTCAAAGGATATCAAAGTTCAGGGCATTATTGGTCCCTGTGCATCTCTTGAAAAG
|| | || |||| || || | | || || ||| | | | | | || || | || |||| | | ||||||| |||||||||||||||||||| ||||| | ||||| || || |||||||| || ||||||||||||||||||
-----agacattttaatctcttttaacagctagtatagatgctcctgattgtcatgttttcctttatatatcgacttttattgatcatttaacttcttttcgcagTGGAATATTTGAGATAAACTGCTCTAAGGACTTGAAAGTCCAAGGTATTATTGGCCCTTGTGCATCTCTTGAAAAG
upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G09230.1 (Glycine max), 3'ss of exon 4
ttagctgagctgaggttcggtttttgcatctctttgaatcttcgatcatt-tgagctggagagccttcttaatcttattttgcctttgaactg-atatgcagTGGTATATTTGAGATAAACTGCTCAAAGGATATCAAAGTTCAGGGCATTATTGGTCCCTGTGCATCTCTTGAAAAG
|| | | | | | | | | | ||| | || | | | | | |||||| | | | | || ||||||| |||||||||||||||||||| ||||| | ||||| || || |||||||| || ||||||||||||||||||
--agacatattaaactcttttaacagttagtatagatagccctgattgtcatgttttcctttatatattgacttttatttcttatctaacttctattcgcagTGGAATATTTGAGATAAACTGCTCTAAGGACTTGAAAGTCCAAGGTATTATTGGCCCTTGTGCATCTCTTGAAAAG
upper sequence: Vv15s0045g00540.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT2G21630.1 (Arabidopsis thaliana), 3'ss of exon 3
---ttagctgagctgaggttcggtttttgcatctcttt---gaatcttcgatcatttgagctggagagccttcttaatcttatt-ttgcctttgaactgata------tgcagTGGTATATTTGAGATAAACTGCTCAAAGGATATCAAAGTTCAGGGCATTATTGGTCCCTGTGCATCTCTTGAAAAG
| ||| | || | ||| | | ||| | | ||| | || |||| | | ||| | | || || | | ||| || | | ||||||||||||||| || ||||||||||||||||||||||||||||| |||||||| || || |||||||| ||||||
gtaatggcttacctaactttcatgtatgttttctttatcgaaaataaacagtcttttgtatgctatgttcagcttcagcgagttgtttcttatgatttgtttctctcttacagTGGTATATTTGAAATTAACTGCTCAAAGGATATCAAAGTTCAGGGAATTATTGGCCCTTGCGCATCTCTCGAAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatttgagctggagagccttcttaatcttattttgcctttgaactgatatgcagTGGTATATTTGAGATAAACTGCTCAAAGGATATCAAAGTTCAGGGCATTATTGGTCCCTGTGCATCTCTTGAAAAG
aactgat putative branch site (score: 3)
ttcttaatcttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttagctgagctgaggttcggtttttgcatctctttgaatcttcgatcatttgagctggagagccttcttaatcttattttgcctttgaactgatatgcagTGGTATATTTGAGATAAACTGCTCAAAGGATATCAAAGTTCAGGGCATTATTGGTCCCTGTGCATCTCTTGAAAAG
- - - - - - - - - - - - - catctct
- - - - - - - - - - - - - - - - - - - - - - - - - -gagctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agccttc