Sequence
atgc intronic sequence ATGC exonic sequence...ccttgtcactcatttgttgtggctaattagacgttttttttttgttttaaatgtggaggaccaatatatatactcgaattaatttgttactttacttcagGTCTATGTTGAAATTACTAGATGTGTTGGTGCAACTTGATCATCTTAAGAATGCGAAAGCAAGCATACCTAATGATTTCTCTTGGTATAAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os03g05020.1 (Oryza sativa), 3'ss of exon 6
--ccttgtcactcatttgttgtggctaattagacgttttttttttgttttaaatgtggaggaccaatatatatactcgaattaatt-tgttactttacttcagGTCTATGTTGAAATTACTAGATGTGTTGGTGCAACTTGATCATCTTAAGAATGCGAAAGCAAGCATACCTAATGATTTCTCTTGGTATAAGAG
| | | | || | | | | || | | | || | ||| || || || | || || | | | | ||| || | | |||||||||| |||| || || ||||| | ||||| |||||||||||||||||||| |||||||| ||||| |||||||| || ||||| |||||
agcagcgcaattaatatcacaaccttgttcaaac-tcagtagtcagtatataatctgccagat-gatgt-taccttcatgtcactcattttatttcaatccagGTCTATGCTGAAGTTGCTTGATGTCCTTGTGCAGCTTGATCATCTTAAGAATGCAAAAGCAAGTATACCAAATGATTTTTCATGGTACAAGAG
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G103599_T01 (Zea mays), 3'ss of exon 6
--ccttgtcactcatttgttgtggctaattagacgttttttttttgttttaaatgtggaggaccaatatatatactcgaattaatttgttactttacttcagGTCTATGTTGAAATTACTAGATGTGTTGGTGCAACTTGATCATCTTAAGAATGCGAAAGCAAGCATACCTAATGATTTCTCTTGGTATAAGAG
||| | | || ||| ||| | | ||| | | | | | | | || | | || || | ||| || | |||||||||| | || || || || || | |||| ||||||||||| |||||||| |||||||||||||| |||||||| || ||||| |||||
ttttgtgttcttgaggtggtgttgctgctcgtatcgggtttcctctctaactttcttgggaataaaggcttttcttcttctttttgtgtcgctca--tgcagGTCTATGCTTAAGTTGCTTGACGTCCTACTGCAGCTTGATCATCTCAAGAATGCAAAAGCAAGCATACCAAATGATTTTTCATGGTACAAGAG
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G43970.1 (Glycine max), 3'ss of exon 6
ccttgtcactcatttgttgtggctaattagacgtttt-ttttttgttttaaatgtggagg--accaatatatatactcgaattaatttgttactttacttcagGTCTATGTTGAAATTACTAGATGTGTTGGTGCAACTTGATCATCTTAAGAATGCGAAAGCAAGCATACCTAATGATTTCTCTTGGTATAAGAG
| ||| | | ||| | |||| ||| | ||||| | | | | | ||| |||| |||||| ||| ||| ||||||||||||||| || || ||||| ||||||||||||||||||||||| ||||| || || |||||||||||||| || || |||||||| ||
-----------gtgcgttataatgatttatgctttttgtttctggtttttgttattattgttgttgttttgtatttattaatttctttgtt-cttgactgcagGTCTATGTTGAAGTTGCTTGATGTTTTGGTGCAACTTGATCATCTTAAAAATGCTAAGGCTAGCATACCTAATGACTTTTCATGGTATAAAAG
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G41350.1 (Glycine max), 3'ss of exon 6
ccttgtcactcatttgttgtggctaattagacgttttttttttgttttaaatgtggaggaccaatatatatactcgaattaatttgttactttacttcagGTCTATGTTGAAATTACTAGATGTGTTGGTGCAACTTGATCATCTTAAGAATGCGAAAGCAAGCATACCTAATGATTTCTCTTGGTATAAGAG
| |||| | | ||| | ||| || || ||||| | | | | | | | | | | || | |||| ||| ||| ||||||||||||||| || || ||||| ||||||||||||||||||||||| ||||| || || |||||||||||||| || || |||||||| ||
-----------gtgtgttataatgatttatgcttttgttgttggtttttgttattgttg-ttgttttgtgttttttattttctctgtt-cttgactgcagGTCTATGTTGAAGTTGCTTGATGTTTTGGTGCAACTTGATCATCTTAAAAATGCTAAGGCTAGCATACCTAATGACTTTTCATGGTATAAAAG
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G18410.2 (Arabidopsis thaliana), 3'ss of exon 7
---ccttgtcactcatttgttgtggctaattagacgttttttttttgttttaaatgtggaggaccaatatatatactcgaattaatttgttactttacttcagGTCTATGTTGAAATTACTAGATGTGTTGGTGCAACTTGATCATCTTAAGAATGCGAAAGCAAGCATACCTAATGATTTCTCTTGGTATAAGAG
|| | |||| | | ||||| | | | | || | || || | | | | |||||| | || | | |||||| | | ||||| ||| | || || || || || ||||| || || ||||||||||| ||||| ||||| ||||| ||||||||||||||||||||||||||
gtgggttataactcttattttgtgttttgtattagatccttggatgatt--aactttc-----ctcgtgtatatagtttaactgtgattttacttaatat-agGTCAATGCTAAAGTTGCTTGACGTCTTGGTTCAGCTGGATCATCTTAAAAATGCTAAAGCTAGCATTCCTAATGATTTCTCTTGGTATAAGAG
upper sequence: Vv04s0043g00740.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: PP1S7_387V6.1 (Physcomitrella patens), 3'ss of exon 6
ccttgtcactcattt-gttgtggctaattagacgtttttttt---ttgttttaaatgtggaggaccaatatatatactcgaattaatttg-ttactttacttcagGTCTATGTTGAAATTACTAGATGTGTTGGTGCAACTTGATCATCTTAAGAATGCGAAAGCAAGCATACCTAATGATTTCTCTTGGTATAAGAG
|| | || | | | || | || | | | || || |||| | | ||| | || | | | ||| | |||| |||| | ||| || || || ||| | | | || || |||||| | ||||||||||| || ||||| |||||||| |||||||||||||||||
----gttgcccactcagctctgcatgatcaaatgagttcgttgaaccattttccgt-tatgtcacctaaattttgagaacagttatctgaactactggttggcagGGCCATGCTGCGGTTGCTTGATATCCTCCTTCAGCTAGATCATTTGAAGAATGCGAAGGCTAGCATTCCTAATGACTTCTCTTGGTATAAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaaatgtggaggaccaatatatatactcgaattaatttgttactttacttcagGTCTATGTTGAAATTACTAGATGTGTTGGTGCAACTTGATCATCTTAAGAATGCGAAAGCAAGCATACCTAATGATTTCTCTTGGTATAAGAG
aattaat putative branch site (score: 3)
ctttacttc putative PPT
aatatatatactcgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccttgtcactcatttgttgtggctaattagacgttttttttttgttttaaatgtggaggaccaatatatatactcgaattaatttgttactttacttcagGTCTATGTTGAAATTACTAGATGTGTTGGTGCAACTTGATCATCTTAAGAATGCGAAAGCAAGCATACCTAATGATTTCTCTTGGTATAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - cactcat
- - - - - - - tgttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -accaata