Sequence
atgc intronic sequence ATGC exonic sequence...tgtttggacaactctatactgtgttcagttttccaatttgaccttgaatgaattttggatttttccaaaattgacaattatcgttttccttcattgacagATTGTTCGGCTCACCAAGTTTGATTATAGACTTGCGAATAAGTTGGACACAGATCTACAGAAGCTAAGATGTAGAGTGAACTACCATGCTTTAAGGTTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g00100.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os08g44015.1 (Oryza sativa), 3'ss of exon 6
---tgtttggacaactctatactgtgttcagttttccaatttgaccttgaatgaattttggatttttccaaaattgacaattatcgttttccttcattgacagATTGTTCGGCTCACCAAGTTTGATTATAGACTTGCGAATAAGTTGGACACAGATCTACAGAAGCTAAGATGTAGAGTGAACTACCATGCTTTAAGGTTCA
||| ||| | | | || | || | | || | | || | | | | | | || |||| | || ||| |||||||||| || || |||||||||||||| || || | ||||||||||||||| |||||||| ||||| ||||| ||||| |||| || || || |
accaccttgtgtgacttcaaa-taaatttacttcttctgttcagagacactcataataccaataccaggataccttata-tcattactttcacgtagtg-cagGTTGTTCGGCTGACGAAATTTGATTATAGACTAGCAAACAGGTTGGACACAGATCTGCAGAAGCTGAGATGCAGAGTAAACTATCATGGGTTGAGATTTA
upper sequence: Vv18s0001g00100.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA04G02010.1 (Glycine max), 3'ss of exon 6
----tgtttggacaactctatactgtgttcagttttccaatttgaccttgaatgaattttggatttttccaaaattgacaattatcgttttccttcattgacagATTGTTCGGCTCACCAAGTTTGATTATAGACTTGCGAATAAGTTGGACACAGATCTACAGAAGCTAAGATGTAGAGTGAACTACCATGCTTTAAGGTTCA
|| || | || | | || || | ||| | ||||| || | || |||| | | | |||| ||| || || ||| ||||| ||||| ||||||||| || || ||||| || | |||||| ||||| |||||||| ||||||||||| || |||||||||||||| || |
tttaaattctgatagctat---ttctgaccaccatataaatggataactatttgaatgtttg-cttatccaggaaagctatttatttgcttcattttgtggcagGCTGTTCAGCTCAGCAAGTTTGACTACAGGCTTGCTAACAGGTTGGATACAGAATATCAGAAGCTGAGATGTAGAGTTAATTACCATGCTTTAAGATTTA
upper sequence: Vv18s0001g00100.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G02110.1 (Glycine max), 3'ss of exon 5
tgtttggacaactcta--tactgtgttcagttttccaatttgaccttgaatgaattttggatttttccaaaattgacaattatcgttttccttcattgacagATTGTTCGGCTCACCAAGTTTGATTATAGACTTGCGAATAAGTTGGACACAGATCTACAGAAGCTAAGATGTAGAGTGAACTACCATGCTTTAAGGTTCA
||| | || || | | | || | || | | | | | || |||| | | | |||| ||| || || ||| ||||| ||||| ||||||||| || || ||||| || | |||||| || || |||||||| ||||||||||| || |||||||||||||| || |
--tttaaatgctgatagctatttctgaccaccatataaatggataactatttgaatgtttgcttatccaggaaagctatttatttgcttcattttgtggcagGCTGTTCAGCTCAGCAAGTTTGACTACAGGCTTGCAAACAGGTTGGATACGGAATATCAGAAGCTGAGATGTAGAGTTAATTACCATGCTTTAAGATTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatgaattttggatttttccaaaattgacaattatcgttttccttcattgacagATTGTTCGGCTCACCAAGTTTGATTATAGACTTGCGAATAAGTTGGACACAGATCTACAGAAGCTAAGATGTAGAGTGAACTACCATGCTTTAAGGTTCA
aattgac putative branch site (score: 3)
ttatcgttttccttc putative PPT
aaaattgacaattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttggacaactctatactgtgttcagttttccaatttgaccttgaatgaattttggatttttccaaaattgacaattatcgttttccttcattgacagATTGTTCGGCTCACCAAGTTTGATTATAGACTTGCGAATAAGTTGGACACAGATCTACAGAAGCTAAGATGTAGAGTGAACTACCATGCTTTAAGGTTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
tgtttgg
- - - - caactct
- - - - - - - - - -tgtgttc
- - - - - - - - - - - - - - - - - - - - -ccttgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccaaaat