Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgagacattatctctgtcttttgtcttctaatacacactagatgcaataccattgataacttaattgtacaatgtctctcttcctctctcaacatgcagGACTCGCCCGGAAAGAGGATTTCCCATACATTACTTACTACTGTCCTCACTGTCGAGCTCTGAACAAGCCGAAACATTCAGAAGAGCATTCACTTATTGC
Basic information
species | Arabidopsis thaliana |
transcript | AT2G24330.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G24330.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv00s0215g00090.t01 (Vitis vinifera), 3'ss of exon 5
---gtgagtgagacattatctctgtcttttgtcttctaatacacactaga-tgcaataccattgataacttaattgtacaatgtctctcttcctctctcaacatgcagGACTCGCCCGGAAAGAGGATTTCCCATACATTACTTACTACTGTCCTCACTGTCGAGCTCTGAACAAGCCGAAACATTCAGAAGAGCATTCACTTATTGC
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tgaagtagttatgtcctgtcttcgtttttgttaattttgttttttgaagagttgagtaccactactgaagtagttttgtcctgtctttgttttt--------gtgcagGACTTGCCCGGAAGGAGGATTTCCCATATGTAACTTATTACTGCCCACACTGTCATGCCCTGAATCAATCAAAGCAAGCAGAAGAGCATGCTTCTCGTTC
upper sequence: AT2G24330.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv00s0432g00020.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------------gtgagtgagacattatctctgtcttttgtcttctaatacacactagatgcaataccattgataacttaattgtacaatgtctctcttcctctctcaa------------------------catgcagGACTCGCCCGGAAAGAGGATTTCCCATACATTACTTACTACTGTCCTCACTGTCGAGCTCTGAACAAGCCGAAACATTCAGAAGAGCATTCACTTATTGC
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gtaagtggagtgaggacctcatccttannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntgaagtagttttgtcctgtttttgtttttgtgcagGACTTGCCCGGAAGGAGGATTTCCCATATGTAACTTATTACTGCCCACACTGTCATGCCCTGAATCAATCAAAGCAAGCAGAAGAGCATGCTTCTCGTTCMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|124842614|gb|EH927051.1|EH927051EST: TCCAAGTCAGTCATATGCACTCATCTGTGGAAACTGCCGTATGCATAACG GACTCGCCCGGAAAGAGGATTTCCCATACA
genomic: TCCAAGTCAGTCATATGCACTCATCTGTGGAAACTGCCGTATGCATAACGgtgagtgaga ... caacatgcagGACTCGCCCGGAAAGAGGATTTCCCATACA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caataccattgataacttaattgtacaatgtctctcttcctctctcaacatgcagGACTCGCCCGGAAAGAGGATTTCCCATACATTACTTACTACTGTCCTCACTGTCGAGCTCTGAACAAGCCGAAACATTCAGAAGAGCATTCACTTATTGC
caatgtctctcttcct CT-rich tract
attgataacttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgagacattatctctgtcttttgtcttctaatacacactagatgcaataccattgataacttaattgtacaatgtctctcttcctctctcaacatgcagGACTCGCCCGGAAAGAGGATTTCCCATACATTACTTACTACTGTCCTCACTGTCGAGCTCTGAACAAGCCGAAACATTCAGAAGAGCATTCACTTATTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA