Sequence
atgc intronic sequence ATGC exonic sequence...tttcttgttgctttcttcccaacttaccacttgactttatccctcttttcacttggcatatcggttgctgattgtgatctatcttctctttttttgtcagATTGTTTGCAGTTGTGGATGATATATTCTGCTTGTTTCAAGGACATATTGAGAATGTTGCTCTTCTTAAGCAACAGTATGGGTTAAACAAAACAACAAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0036g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G38840.1 (Glycine max), 3'ss of exon 1
tttcttgttgc---tttcttcccaacttaccacttgactttatccctcttttcacttggcatatcggttgctgattgtgatctatcttctctttttttgtcagATTGTTTGCAGTTGTGGATGATATATTCTGCTTGTTTCAAGGACATATTGAGAATGTTGCTCTTCTTAAGCAACAGTATGGGTTAAACAAAACAACAAAT
||| || | || | | | | | | | || | || | ||| | | | ||| || | || |||| | ||| ||| |||||||||| |||||||| || ||||| ||||||||||| ||| |||||||||||||| ||||||||||| ||||| || ||||||||| ||| |
ttttatgaaggaaattagatgctataaaagcctataaagttgttaaagattactcttttc---ttgaaaatcaattaatatgttggttgtcttatgttggcagGCTGTTTGCAGTCGTGGATGACATTTTCTGTTTGTTTCAAGGTCATCTTGAGAATGTTGCTAACCTTAAGCAACAATATGGATTGAACAAAACAGCAACT
upper sequence: Vv14s0036g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA20G28930.1 (Glycine max), 3'ss of exon 1
--tttcttgttgctttcttcccaacttaccact-tgactttatccctcttttcacttggcatatcggttgctgattgtgatctatcttctctttttttgtcagATTGTTTGCAGTTGTGGATGATATATTCTGCTTGTTTCAAGGACATATTGAGAATGTTGCTCTTCTTAAGCAACAGTATGGGTTAAACAAAACAACAAAT
| || || | | || | ||| | | || | |||| | | | | | || | | || | || | ||||||| |||||||||||||||| || || ||||| ||||||||||| || ||||||||||||| ||||||||||| ||||| || ||||||||| ||| |
tataatctgatgttatgaaagaaattagatactataaagttggtaaagatagtacttttc---ttgaaaatcaactaatatgtttgttttgttatgttgtcagGCTGTTTGCAGTTGTGGACGACATTTTCTGTTTGTTTCAAGGTCACCTTGAGAATGTTGCCAACCTTAAGCAACAATATGGATTGAACAAAACAGCAACT
upper sequence: Vv14s0036g00050.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G22850.1 (Arabidopsis thaliana), 3'ss of exon 1
-----tttcttgttgctttcttcccaacttaccacttgactttatccctcttttcacttggcatatcggttgctgattgtgatctatcttctctttttttgtcagATTGTTTGCAGTTGTGGATGATATATTCTGCTTGTTTCAAGGACATATTGAGAATGTTGCTCTTCTTAAGCAACAGTATGGGTTAAACAAAACAACAAAT
| |||||| | || || | ||| | | | | | | | ||| | || | | || || | | | | | |||||||||||| || ||||||||||| |||||| | || ||||||||||| ||||| ||| | ||||||||||||| ||||| ||| ||||||| | |
atatctactttgttgtgatgtttaaaatgtgttga--aactggaaggatgtgattagataa-gtggtggtgattttttcaaaacaattttgtgtgtgt--gacagATTGTTTGCTGTGGTGGATGATATGTTCTGCATATTCCAAGGACATATAGAGAACGTTCCAATTCTTAAGCAACAATATGGACTAACCAAAACAGCTACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcacttggcatatcggttgctgattgtgatctatcttctctttttttgtcagATTGTTTGCAGTTGTGGATGATATATTCTGCTTGTTTCAAGGACATATTGAGAATGTTGCTCTTCTTAAGCAACAGTATGGGTTAAACAAAACAACAAAT
tgctgat putative branch site (score: 3)
tctatcttctcttttt putative PPT
tcttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttcttgttgctttcttcccaacttaccacttgactttatccctcttttcacttggcatatcggttgctgattgtgatctatcttctctttttttgtcagATTGTTTGCAGTTGTGGATGATATATTCTGCTTGTTTCAAGGACATATTGAGAATGTTGCTCTTCTTAAGCAACAGTATGGGTTAAACAAAACAACAAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - -tgttgct
- - - - - - -tcttccc
- - - - - - - - - - - - - ccacttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgctgat