Sequence
atgc intronic sequence ATGC exonic sequence...taatcatcaactattggagtcaattgtgctcttcatcatggtgctgattgatataatgcattttgtcattgcatctgaaaattattggtcgttgttgcagGAAGCCGAGCTTGCTCGGGAGAAGACCAATGGGTACAAGTTGGACAGGGCGCATATATTTGCTGTAAATATGTTTGATGACTTTGACAGGTTCATGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g07070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os10g41960.1 (Oryza sativa), 3'ss of exon 2
taatcatcaactattggagtcaattgtgctcttcatcatggtgctgattgata----taatgcattttgtcattgcatctgaaaattattggtcgttgttgcagGAAGCCGAGCTTGCTCGGGAGAAGACCAATGGGTACAAGTTGGACAGGGCGCATATATTTGCTGTAAATATGTTTGATGACTTTGACAGGTTCATGAAAG
||| || | || || | | ||| | | || | ||| || || | ||| ||| || | || || | | || | |||||||| ||||||||| |||| ||||| |||||||||||| | |||| | | || || ||||| || || ||||||||||||||||||| || ||||||||
-aataggaaattgaacgactctgtcggatgtttcgtttttatgttcatttttaagtctagtagggtttaagtttgtatt---actttgtttgacattatgtcagGAAGCTGAGCTTGCTAGGGAAAAGACAAATGGGTACAAGCTCGACAAGTCTCACATCTTTGCAGTTAACATGTTTGATGACTTTGACAAGTACATGAAAG
upper sequence: Vv04s0008g07070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G27640.1 (Arabidopsis thaliana), 3'ss of exon 3
--------------------------------------------------------------------------taatcatcaactattggagtcaattgtgctcttcatcatggtgctgattgata-taatgcattttgtcattgcatctgaaaattattggtcgttgttgcagGAAGCCGAGCTTGCTCGGGAGAAGACCAATGGGTACAAGTTGGACAGGGCGCATATATTTGCTGTAAATATGTTTGATGACTTTGACAGGTTCATGAAAG
||| | | | | || | | | | | ||| | || || | | |||| | | | ||| ||| ||| | ||||||||||| | ||| ||| ||| | |||| ||||||||||||| | | || || ||||||||||| ||||| ||||| ||||||||||| ||||| |
gttatttatctacttgattagcttaatctctgttttgttggattctgaagcaataatgtcggcgtcatatgtttcaatactttatttctcttgttagaaaggagcccaaactaggttgttcttaatggttgagtatttcctaagagtttctctcaatgtctggggctctttgcagGAAGCACAAAACGCTAAGGAAAAGTCTCATGGCTACAAGTTGGACAAGTCTCACATCTTTGCTGTAAACATGTTCGATGATTTTGACAGGTTGATGAATG
upper sequence: Vv04s0008g07070.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G25780.1 (Arabidopsis thaliana), 3'ss of exon 2
-------------------------------------taatcatcaactattgg--agtcaattgtg----ctcttcatc--atggtgctgattgatataatgcattttgtcattgcatctgaaaattattggtcgttgttgcagGAAGCCGAGCTTGCTCGGGAGAAGACCAATGGGTACAAGTTGGACAGGGCGCATATATTTGCTGTAAATATGTTTGATGACTTTGACAGGTTCATGAAAG
| | | | | ||| | |||||||| | | | || || | | || || | || ||||| | | | | | ||| | || | || ||||||| | ||| ||| ||| | |||| ||||||||||||| | | || ||||||||||| |||||||| ||||| || || ||||| ||||| |
gttgtttatctactcgcagcttaaagcttaatctctctgtttagttagttttgcttaagcaattgtgtaggcacagaactagattgttttcaatggta-agtgtattttctaagagtttgtctcaat-gtctgtgctgtttttagGAAGCACAAAACGCTAAGGAAAAGTCTCATGGCTACAAGTTGGACAAGTCTCACATATTTGCTGTTAATATGTTCGATGATTTCGATAGGTTGATGAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattgatataatgcattttgtcattgcatctgaaaattattggtcgttgttgcagGAAGCCGAGCTTGCTCGGGAGAAGACCAATGGGTACAAGTTGGACAGGGCGCATATATTTGCTGTAAATATGTTTGATGACTTTGACAGGTTCATGAAAG
atataatgcatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taatcatcaactattggagtcaattgtgctcttcatcatggtgctgattgatataatgcattttgtcattgcatctgaaaattattggtcgttgttgcagGAAGCCGAGCTTGCTCGGGAGAAGACCAATGGGTACAAGTTGGACAGGGCGCATATATTTGCTGTAAATATGTTTGATGACTTTGACAGGTTCATGAAAG
- - catcaac
- - - - - - - - - - - - - - - - -catcatg
- - - - - - - - - - - - - - - - - - - - -tgctgat
- - - - - - - - - - - - - - - - - - - - - - - - - - -taatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaatta