Sequence
atgc intronic sequence ATGC exonic sequencegtatgatcaatctgctctttatggctctcttccatattatgaatgattcactgagaagtttggttcttgaattagtagAGAGAGGCGAGCAATTGGACTGGGATTCACGCGTAAATATCATCATAGGAGCTGCGAAAGGGTTATCATATTTGCATCATGATTGTTCTCCTCGGATTAT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G31420.2 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G31420.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA01G35390.1 (Glycine max), 3'ss of exon 10
--------gtatgatc-------aatctgctcttt--atggctctcttccatattatgaatgattcactgaga-agtttggttcttga---att-agtagAGAGAGGCGAGCAATTGGACTGGGATTCACGCGTAAATATCATCATAGGAGCTGCGAAAGGGTTATCATATTTGCATCATGATTGTTCTCCTCGGATTAT
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cagaagatgtattttccttttaaaatttacatcttcaatgtatcgtgtctttgcttaaatcaatttggggggataatgatgtttgtgatgcattgaacagAAAGAGCTGAGCAACTAGACTGGGATTCACGCTTGAATATAATCATGGGAGCTGCAAAAGGGCTTGCCTACTTGCACCATGATTGTTCCCCCAGGATCAT
upper sequence: AT1G31420.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv02s0087g00170.t01 (Vitis vinifera), 3'ss of exon 11
--------------gtatgatcaatctgctctttatggctctcttccatattatgaatg----attcactgagaagt--ttggttcttgaat-tagtagAGAGAGGC--GAGCAATTGGACTGGGATTCACGCGTAAATATCATCATAGGAGCTGCGAAAGGGTTATCATATTTGCATCATGATTGTTCTCCTCGGATTAT
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tttccctttataattttggaatgacgtaatctata-agttttttgttttagaatagatcctatattctttgtataataatgacttcttatgtgtgacacagAGAGATCAGAGCAACTAGACTGGGATGCACGCTTGAATATTATCATGGGAGCTGCAAAAGGACTAGCCTACCTGCATCATGATTGTTCCCCTCGGATTATMapped 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|124990646|gb|EL062915.1|EL062915EST: GGTGGTAGCCTTGATGAAGCACTTCATG AGAGAGGCGAGCAATTGGACTGGGATTCACGCGTAAATATCATCATAGGAG
genomic: GGTGGTAGCCTTGATGAAGCACTTCATGgtatgatcaa ... gaattagtagAGAGAGGCGAGCAATTGGACTGGGATTCACGCGTAAATATCATCATAGGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctctcttccatattatgaatgattcactgagaagtttggttcttgaattagtagAGAGAGGCGAGCAATTGGACTGGGATTCACGCGTAAATATCATCATAGGAGCTGCGAAAGGGTTATCATATTTGCATCATGATTGTTCTCCTCGGATTAT
atattatgaatgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgatcaatctgctctttatggctctcttccatattatgaatgattcactgagaagtttggttcttgaattagtagAGAGAGGCGAGCAATTGGACTGGGATTCACGCGTAAATATCATCATAGGAGCTGCGAAAGGGTTATCATATTTGCATCATGATTGTTCTCCTCGGATTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC