Sequence
atgc intronic sequence ATGC exonic sequencegtacgtacgacctcatcatcatcatcatcaacaactacttttttatatatagtattatttgatttatatgaatttgtgaccttttttttggttatgatgatctaaatctttttcttcttttttctataatttttttttggtttgtggattcgtttgttgcagCTAAAGCATCGTTTGGAGAACAAGAATGGTACTTCTTTAGTCCACGAGATCGGAAGTATCCAAACGGAGCAAGACCAAACAGAGCGGCGACTTCAGGTTA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G15510.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G15510.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv19s0014g03300.t01 (Vitis vinifera), 3'ss of exon 1
gtacgtacgacctcatcatcatcatcatcaacaactacttttttatatatagtattatttgatttatatgaatttgtgaccttttttttggttatgatgatctaaatctttttcttcttttttctataatttttttttggtttgtggattcgtttgttgcagCTAAAGCATCGTTTGGAGAACAAGAATGGTACTTCTTTAGTCCACGAGATCGGAAGTATCCAAACGGAGCAAGACCAAACAGAGCGGCGACTTCAGGTTA
| ||| || | | | ||| |||| || || | | || |||||||| | || | || | || | || | | || || || | ||||||| || ||||||||||| |||||||||||||| || || |||| |||||||| |||||||| || | || || ||||||||||||| |||||
-------------------------------------gtaacttacatcaaaccccagctaatt---atga--ttaagattatgtgattatgtatgatgaattgtatgtaaaag----gttagaaagaaagccatgctgatatttga--tcaattct--cagCTAAGGCCAGTTTTGGAGAACAGGAATGGTACTTCTTCAGCCCTAGAGACCGGAAGTACCCAAACGGGGCTCGGCCTAATCGAGCGGCGACTTCTGGTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttttcttcttttttctataatttttttttggtttgtggattcgtttgttgcagCTAAAGCATCGTTTGGAGAACAAGAATGGTACTTCTTTAGTCCACGAGATCGGAAGTATCCAAACGGAGCAAGACCAAACAGAGCGGCGACTTCAGGTTA
ttcgttt CT-rich tract
ttcttttttctataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtacgacctcatcatcatcatcatcaacaactacttttttatatatagtattatttgatttatatgaatttgtgaccttttttttggttatgatgatctaaatctttttcttcttttttctataatttttttttggtttgtggattcgtttgttgcagCTAAAGCATCGTTTGGAGAACAAGAATGGTACTTCTTTAGTCCACGAGATCGGAAGTATCCAAACGGAGCAAGACCAAACAGAGCGGCGACTTCAGGTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA