Sequence
atgc intronic sequence ATGC exonic sequence...aacaggatttttaggtaaaattgcattttaaaactgattaaataactgatgttaaattttgtgatattgattgaattttcctgtaattgacattttttagGTTGTGGGGTGCTCAGACTCAAAGATCATTGCAGAACTTTGAAATTGGTGGCGAGAGTGAGCGAATGCCTGAGCCGATTATTCGGGCTTTTGGGATCCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0060g01690.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G47510.2 (Arabidopsis thaliana), 3'ss of exon 2
------aacaggatttttaggtaaaattgcattttaaaactgattaaataactgatgttaaattttgtgatattgattgaattttcctgtaattgacattttttagGTTGTGGGGTGCTCAGACTCAAAGATCATTGCAGAACTTTGAAATTGGTGGCGAGAGTGAGCGAATGCCTGAGCCGATTATTCGGGCTTTTGGGATCCTT
| ||| |||| | || | | ||||| || || || | ||| || | | | || || | || | ||| | | || |||||||| || ||||| || ||||| |||||||||| ||||| ||||| ||| | |||||||||||||| || ||| | || |||||||| || |
gttcgggatctgatctttacgcaacgtcgaattttct--cttatc------ctcgagggaaacgtt-tcacagtgttttatttgttgtgtg---------tctcagATTGTGGGGAGCCCAGACGCAGAGATCGCTGCAGAACTTCGAAATCGGTGGTGAGCGCGAGCGAATGCCTGAACCAATTGTCCGCGCTTTTGGCGTCTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgatgttaaattttgtgatattgattgaattttcctgtaattgacattttttagGTTGTGGGGTGCTCAGACTCAAAGATCATTGCAGAACTTTGAAATTGGTGGCGAGAGTGAGCGAATGCCTGAGCCGATTATTCGGGCTTTTGGGATCCTT
aattgac putative branch site (score: 3)
catttttt CT-rich tract
ttaaattttgtgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aacaggatttttaggtaaaattgcattttaaaactgattaaataactgatgttaaattttgtgatattgattgaattttcctgtaattgacattttttagGTTGTGGGGTGCTCAGACTCAAAGATCATTGCAGAACTTTGAAATTGGTGGCGAGAGTGAGCGAATGCCTGAGCCGATTATTCGGGCTTTTGGGATCCTT
aacagga
- - - - - - -ggtaaaa
- - - - - - - - - - - - - - - aaactga
- - - - - - - - - - - - - - - - - - - -aaataac