Sequence
atgc intronic sequence ATGC exonic sequence...tgtgttggcacctctctaacaattgcctttacctatgccatatgactattgagaaagaccaataatttgtactgaaaaatggtcatacctgttcctttagGTTCTGCTATTGGATTTCGATTGGATAGTCTCCTTAAACTCACTGATACACGAGCCCGGAACAACAAGATGACTCTCATGAATTATCTTTGTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g06530.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os02g55150.2 (Oryza sativa), 3'ss of exon 5
tgtgttggcacctctctaacaattgcctttacctatgccatatgact-attgagaaagaccaataatttgtactgaaaaatggtcata----cctgttcctttagGTTCTGCTATTGGATTTCGATTGGATAGTCTCCTTAAACTCACTGATACACGAGCCCGGAACAACAAGATGACTCTCATGAATTATCTTTGTAAG
| | || ||| || || | | ||| | | || | ||| || || | | | ||| | |||||| || ||| || ||| |||||||| |||||||||| || |||||||||| ||||| || || || || || | ||||||||||||| ||||| | || |||
----ctattatgtcctgaaccatcatctctcttaaccacatgaaattgatagcgaactgttgattatatccttcatatttttctcacaaacacctgttt-ttcagGGTCGGCTGTTGGATTTAGATTGGATAGCCTTCTTAAACTCATTGATATTCGGGCACGTAATAATAGGATGACTCTCATGCATTATTTATGCAAG
upper sequence: Vv04s0008g06530.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G178996_T01 (Zea mays), 3'ss of exon 3
tgtgttggcacctctctaacaattgcctttacctat--gccatatgactattgagaaagaccaataatttgtactgaaaaatggtcatacctgttcctttagGTTCTGCTATTGGATTTCGATTGGATAGTCTCCTTAAACTCACTGATACACGAGCCCGGAACAACAAGATGACTCTCATGAATTATCTTTGTAAG
| | |||| || | | | || | | || || | | | | ||| ||| | || | | || || |||| | ||| |||||||| ||||||||||||| ||||| |||| ||||| |||||| || || || | ||||||||||||| ||||||| || |||
caagacgtagcctcatgaaatttcatagcagaatgttggctctttcac-atatatatatatatatattttagttttttttatacatgtgtccattt-ttcagGTGCAGCTGTTGGATTTAGATTGGATAGTCTTCTTAAGCTCAGTGATATACGAGCACGTAATAATAGGATGACTCTCATGCATTATCTATGCAAG
upper sequence: Vv04s0008g06530.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA17G33930.1 (Glycine max), 3'ss of exon 11
tgtgttggcacctctctaacaattgcctttacctatgccatatgactattgagaaagaccaataatttgtactgaaaaatggtca---tacctg-ttcctttagGTTCTGCTATTGGATTTCGATTGGATAGTCTCCTTAAACTCACTGATACACGAGCCCGGAACAACAAGATGACTCTCATGAATTATCTTTGTAAG
||| || || | | | | | | | || ||| | | |||| || || | | | || | || | || || || | ||||||| ||| | || |||||||||||||||||||||||||||||||||||||||||| | ||||||||||||||||| ||| ||||||||||||||
tgt-ttaacatttattct-cggtcttcataaattaaattttattggaaat-agaaccactg-tagtcttgattgctttcttgttaatttatatgattattgtagGTTCGGCTGTGGGGTTTCGATTGGATAGTCTCCTTAAACTCACTGATACACGAGCCAGAAACAACAAGATGACTCTTATGCATTATCTTTGTAAG
upper sequence: Vv04s0008g06530.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: AT2G25050.1 (Arabidopsis thaliana), 3'ss of exon 10
-----------tgtgttggcacctctctaacaattgcc---tttacct----atgccatatgactattgagaaagaccaataatttgtactgaaaaatggtcatacctgttcctt---------tagGTTCTGCTATTGGATTTCGATTGGATAGTCTCCTTAAACTCACTGATACACGAGCCCGGAACAACAAGATGACTCTCATGAATTATCTTTGTAAG
| | || | || ||| | | |||| || | | || | | |||| |||| | | | | || | || ||| ||| || ||||| |||||||| |||||||||| || ||||||||||| || || |||| |||| ||||||||||| ||| | ||||| ||||||
gtgagcatatatctattaccgttagactgccaaatacagtatttatctcaaagagagacattggttctattcaagaatttgaattcgcttctgcatttttttttatatatttcttctcttttgacagGCTCAGCTATCGGATTTCGCCTGGATAGTCTTCTGAAACTCACTGACACTAGATCCCGTAACAGTAAGATGACTCTGATGCACTATCTCTGTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctattgagaaagaccaataatttgtactgaaaaatggtcatacctgttcctttagGTTCTGCTATTGGATTTCGATTGGATAGTCTCCTTAAACTCACTGATACACGAGCCCGGAACAACAAGATGACTCTCATGAATTATCTTTGTAAG
cctgttccttt CT-rich tract
aataatttgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtgttggcacctctctaacaattgcctttacctatgccatatgactattgagaaagaccaataatttgtactgaaaaatggtcatacctgttcctttagGTTCTGCTATTGGATTTCGATTGGATAGTCTCCTTAAACTCACTGATACACGAGCCCGGAACAACAAGATGACTCTCATGAATTATCTTTGTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
-gtgttgg
- - - - - cctctct
- - - - - - - - - - - -tgccttt
- - - - - - - - - - - - - - - - ctatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - -agaccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catacct