Sequence
atgc intronic sequence ATGC exonic sequence...ctgatttcttcttgtgatgactaatcactatactatctagcctttatcttatgcttttggtttcactttgttgatcatctcccactttcaagttatgcagGCTTCTGCAGAAGCGGACACATTTTTTTGTTTTGTCGAGTTATTAAGCGGATTCAGGGATCATTTCTGTCAGCAACTCGATAACAGTGTTGTTGGTATCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT4G13730.2 (Arabidopsis thaliana), 3'ss of exon 6
-------------------------ctgatttcttcttgtgatgactaatcac----tatactatctagcctttatctt----------atgcttttggtttcactttgttgatcatctcccac-tttcaagttatgcagGCTTCTGCAGAAGCGGACACATTTTTTTGTTTTGTCGAGTTATTAAGCGGATTCAGGGATCATTTCTGTCAGCAACTCGATAACAGTGTTGTTGGTATCC
| ||| ||||| | | | ||| | | ||| || | |||| | | | ||| || ||| | | | | | ||| ||||||||||||| | || ||| | || ||||||| |||||||| || || | || || || | ||| |||||||||| ||||| |||||||||||||| ||||| |
gtaagtacttgtccttgctaatgtaccatttttttcttattttatttgtacacatattgttctacctcttttagttctttttgggtaacacaccactagttctcctcgtttgcttaacactggcattttaagttatgcagGCATACGCTGAATCAGATGCATTTTTCTGTTTTGTTGAATTGATGAGTGGGTTTCGAGATAATTTCTGTCAACAACTAGATAACAGTGTTGTGGGTATAC
upper sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ15182 (Selaginella moellendorffii), 3'ss of exon 6
ctgatttcttcttgtgatgactaatcactatactatctagcctttatcttatgcttttggtttcactttgttgatcatctcccactttcaagttatgcagGCTTCTGCAGAAGCGGACACATTTTTTTGTTTTGTCGAGTTATTAAGCGGATTCAGGGATCATTTCTGTCAGCAACTCGATAACAGTGTTGTTGGTATCC
|| | || ||| | || | ||| ||| | | | | || ||| || | ||| | || || | || | ||||| || ||||| || | | |||| ||||| |||||||||||||||||| | |||||||||| ||| || || |
---------------------------gtaagtcgttta---tttctggaattttgttgttttgttcatacttaaaagctgttgatttgtggtagtaaagGTTCACGCGGAGCCAGATGCGTTTTTCTGCTTTGTAGACCTCCTTAGCGATTTCAGAGATCATTTCTGTCAGCAATTGGATAACAGTGCTGTGGGAATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcttatgcttttggtttcactttgttgatcatctcccactttcaagttatgcagGCTTCTGCAGAAGCGGACACATTTTTTTGTTTTGTCGAGTTATTAAGCGGATTCAGGGATCATTTCTGTCAGCAACTCGATAACAGTGTTGTTGGTATCC
tgttgat putative branch site (score: 4)
aagttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgatttcttcttgtgatgactaatcactatactatctagcctttatcttatgcttttggtttcactttgttgatcatctcccactttcaagttatgcagGCTTCTGCAGAAGCGGACACATTTTTTTGTTTTGTCGAGTTATTAAGCGGATTCAGGGATCATTTCTGTCAGCAACTCGATAACAGTGTTGTTGGTATCC
- - - -cttcttg
- - - - - - - tgatgac
- - - - - - - - - - - - - - - - - - - - - - - -cttatgc