Sequence
atgc intronic sequence ATGC exonic sequencegtacacaccttaaaccatatttaactttgatacagaatatatctttgttagtaacattgatatatgaattgcagGTGGACTTAACCGGCGGGTACTATGACGCAGGAGACAACGTCAAGTTCAATTTACCAATGGCGTTTACCACCACAATGCTCTCATGGAGCGCACTGGAAT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G71380.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G71380.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA04G12290.1 (Glycine max), 3'ss of exon 1
------------------gtacacacct--taaaccat--atttaactttgatacagaatatatctttgtta-gtaacattgatata---tgaattgcagGTGGACTTAACCGGCGGGTACTATGACGCAGGAGACAACGTCAAGTTCAATTTACCAATGGCGTTTACCACCACAATGCTCTCATGGAGCGCACTGGAAT
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agaaaagagaaggaataaatataaaactaacaaactaacaacttttcgataaaaaagaaaatgcatcagttacattacatagccaaactttgtatggcagGTGGATTTAAGTGGAGGGTACTATGACGCAGGAGACAATGTGAAATTCAACTTTCCAATGGCCTACACCACTACCATGCTGTCATGGGCCACAATTGAAT
upper sequence: AT1G71380.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA06G48140.1 (Glycine max), 3'ss of exon 1
---------------------gtacacaccttaaaccatatttaact---ttgatacagaatatatctttgttagta-acattgata-tatgaattgcagGTGGACTTAACCGGCGGGTACTATGACGCAGGAGACAACGTCAAGTTCAATTTACCAATGGCGTTTACCACCACAATGCTCTCATGGAGCGCACTGGAAT
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aaaattctaaaactttttataaaagaaatcatcacttacattccatccaattgaacaaggaagtgtcttacatacaacatatcgaaactttgtatggcagGTGGATTTAAGTGGAGGGTACTATGATGCAGGAGACAATGTGAAATTCAACTTTCCAATGGCCTACACCACCAGCATGCTGTCATGGGCCACAATTGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaactttgatacagaatatatctttgttagtaacattgatatatgaattgcagGTGGACTTAACCGGCGGGTACTATGACGCAGGAGACAACGTCAAGTTCAATTTACCAATGGCGTTTACCACCACAATGCTCTCATGGAGCGCACTGGAAT
aatatatctttgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacacaccttaaaccatatttaactttgatacagaatatatctttgttagtaacattgatatatgaattgcagGTGGACTTAACCGGCGGGTACTATGACGCAGGAGACAACGTCAAGTTCAATTTACCAATGGCGTTTACCACCACAATGCTCTCATGGAGCGCACTGGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA