Sequence
atgc intronic sequence ATGC exonic sequence...attgtaaaaagttaattagttgtgtgtgtgcgtgtgcgtgtgtgtttattgatattcaagtcattaagggtggaataattttaaaaataattattgacagGGTCTGAAAACTGCCATCATTGAGGGAGATGTGGTGGGTGGAACATGTGTAAACAGAGGTTGTGTTCCTTCTAAAGCTCTTCTGGCTGTAAGTGGTCGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g01210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 1
attgtaaaaagttaattagttgtgtgtgtgcgtgtgcgtgtgtgtttattgatattcaa-----gtcattaagggtggaataattttaaaaataattattgacagGGTCTGAAAACTGCCATCATTGAGGGAGATGTGGTGGGTGGAACATGTGTAAACAGAGGTTGTGTTCCTTCTAAAGCTCTTCTGGCTGTAAGTGGTCGAA
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-----ataagattgcagagttataaatgtaataacctgttcgttattactagtccactactgctgtctcaatgtgttaagtgttaactggcccaaatttgtgcagGGTTTGAAAACTGCAATTATTGAGGGAGATGTTGTAGGTGGGACTTGTGTAAACAGAGGTTGTGTCCCATCAAAAGCACTTCTTGCTGTCAGCGGTCGCA
upper sequence: Vv05s0077g01210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g23610.2 (Oryza sativa), 3'ss of exon 1
----attgtaaaaagttaattagttgtgtgtgtgcgtgtgcgtgtgtgtttattgatattcaagtcattaagggtggaataattttaaaaataattattgacagGGTCTGAAAACTGCCATCATTGAGGGAGATGTGGTGGGTGGAACATGTGTAAACAGAGGTTGTGTTCCTTCTAAAGCTCTTCTGGCTGTAAGTGGTCGAA
||| | | | | | | || || ||| || || ||| |||| | | ||||| | ||| || | || |||||||||||||||||||| |||||||| ||||| || ||||| || ||||| ||||||||||||||||| || || || ||||| ||||| || ||||| |
ccatattttggatactgagctttttctggac-tgcaaacaattgaactattgaagat-ttcaggaagcattgtaatgaatatgtgaaaatgtactcat--gcagGGTCTGAAAACTGCCATAATTGAGGGGGATGTTGTAGGTGGGACTTGTGTGAACAGAGGTTGTGTTCCGTCGAAGGCACTTCTTGCTGTCAGCGGTCGGA
upper sequence: Vv05s0077g01210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G145595_T02 (Zea mays), 3'ss of exon 1
----attgtaaaaagttaattagttgtgtgtgtgcgtgtgcgtgtgtgtttattgatattcaagtcattaagggtggaataattttaaaaataattattgac--agGGTCTGAAAACTGCCATCATTGAGGGAGATGTGGTGGGTGGAACATGTGTAAACAGAGGTTGTGTTCCTTCTAAAGCTCTTCTGGCTGTAAGTGGTCGAA
| | || | || | | || | || || | | |||||||| || | ||| ||||| ||| ||| | | ||||| ||||||||||||| ||||||||||| || ||||||||||| ||||| |||||||| |||||||| || || ||||| || |||||||||||| | |
ccatgtgttttgaacatggacctttatctatgc-tgccagcaattgaactcac--atattcaataagtttt---tttaatgatttttgaaaaaatgtctcatgtagGGTTTGAAAACTGCCATAATTGAGGGAGACGTCGTGGGTGGAACTTGTGTCAACAGAGGCTGTGTTCCGTCAAAGGCTCTCCTTGCTGTAAGTGGTAGGA
upper sequence: Vv05s0077g01210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 1
-attgtaaaaagttaattagttgtgtgtgtgcgtgtgcgtgtgtgtttattgatattcaagtcat-taagggtggaataattttaaaaataattattgacagGGTCTGAAAACTGCCATCATTGAGGGAGATGTGGTGGGTGGAACATGTGTAAACAGAGGTTGTGTTCCTTCTAAAGCTCTTCTGGCTGTAAGTGGTCGAA
| | | || | | | | | | | | | | || | | || | | | | | | | | || || ||||| | ||||| || || |||||||||||||| |||||||| || |||||||||||||| ||||| || || ||||| ||||| ||||| || |||||||
caaagaagaatgatgccaaacattaaccataccaataaatttctaagagtttgcactgcttctatattgatcttgtttcactctgctctaatttgtt--cagGGCTTAAAAACAGCAATAATTGAGGGAGATGTTGTGGGTGGGACTTGTGTAAACAGAGGCTGTGTCCCATCGAAAGCGCTTCTTGCTGTCAGCGGTCGAA
upper sequence: Vv05s0077g01210.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S35_94V6.1 (Physcomitrella patens), 3'ss of exon 1
-------------------attgtaaaaagttaattagttgtgtgtgtgcgtgt-gcgtgtgtgtttattgatattcaagt--------cattaagggtggaataattttaaaa---ataattattg-acagGGTCTGAAAACTGCCATCATTGAGGGAGATGTGGTGGGTGGAACATGTGTAAACAGAGGTTGTGTTCCTTCTAAAGCTCTTCTGGCTGTAAGTGGTCGAA
| | | ||| | | || | | |||| | | | || || | | | | ||| | |||| || | | | ||| | |||| |||| || || ||||| ||||||||||| ||||| ||||| || || ||| |||| ||||| ||||| |||||||| ||||||| ||||| || |
gtgcgctggtttgatccagactttgctctgtttgtggggtgcctctcattgtgtcacattccttgttgctgctgcacgaatggacgtggtattcaacgtgggattggtgcatgatgggcaatgacaatgtagGGGTTGAAGACGGCAATCATCGAGGGAGATGTAGTGGGCGGAACTTGCGTGAACCGAGGGTGTGTACCTTCGAAAGCTCTCTTGGCTGTGAGTGGACGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattgatattcaagtcattaagggtggaataattttaaaaataattattgacagGGTCTGAAAACTGCCATCATTGAGGGAGATGTGGTGGGTGGAACATGTGTAAACAGAGGTTGTGTTCCTTCTAAAGCTCTTCTGGCTGTAAGTGGTCGAA
tattgat putative branch site (score: 3)
tggaataattttaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attgtaaaaagttaattagttgtgtgtgtgcgtgtgcgtgtgtgtttattgatattcaagtcattaagggtggaataattttaaaaataattattgacagGGTCTGAAAACTGCCATCATTGAGGGAGATGTGGTGGGTGGAACATGTGTAAACAGAGGTTGTGTTCCTTCTAAAGCTCTTCTGGCTGTAAGTGGTCGAA
- -gtaaaaa
- - - - - - - - - - -gtgtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tcaagtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaataa