Sequence
atgc intronic sequence ATGC exonic sequencegtgagtcttattagtttctgctctttattgacttgatggcaaaaatgtggttttgattgtttggcttgtgttaatgaacagGTAAGAATGAGGTGAGGTCTAGGGCCTTGACGGAAGAGCATGCCAGAGACAGCTTTGAGAATCTTCTCTTTAGCGTTTGTCGATTCAGAGAGCTCACAGG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G21370.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G21370.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv18s0001g15670.t01 (Vitis vinifera), 3'ss of exon 2
-----gtgagtcttattagtttctgctctttattgacttgatggcaaaa--atgtggttt----tgattgtttggc--------ttgtgttaatga--acagGTAAGAATGAGG---TGAGGTCTAGGGCCTTGACGGAAGAGCATGCCAGAGACAGCTTTGAGAATCTTCTCTTTAGCGTTTGTCGATTCAGAGAGCTCACAGG
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cttttctcaattgtat--gttaaaattcaattcccacatgagagctaagtcattttatttcttctgattgttttacctttcgcattgtaattatggttatagGCAAGCAAGAAGCTGTCAGATGGAAGGCACTAACAGAAGAGCATGCAAGAGACAGCTTCGAGAATCTTCTCTTTAGTGTGTGTCGGTTCCGGGAGCTTAC--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgacttgatggcaaaaatgtggttttgattgtttggcttgtgttaatgaacagGTAAGAATGAGGTGAGGTCTAGGGCCTTGACGGAAGAGCATGCCAGAGACAGCTTTGAGAATCTTCTCTTTAGCGTTTGTCGATTCAGAGAGCTCACAGG
aaaaatgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtcttattagtttctgctctttattgacttgatggcaaaaatgtggttttgattgtttggcttgtgttaatgaacagGTAAGAATGAGGTGAGGTCTAGGGCCTTGACGGAAGAGCATGCCAGAGACAGCTTTGAGAATCTTCTCTTTAGCGTTTGTCGATTCAGAGAGCTCACAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA