Sequence
atgc intronic sequence ATGC exonic sequencegttggtatatattctactgtatcatcctgcagttacttgaatacagttttagtggataaagttttagcgtctcaacaccttatactttatgttacctttcagATTATTAATTTGACAGAACTTGAACTGAATCGTGTGGATATACGGGTTGGATTATCTGGTGCCCTATACTTCATGGATGGCTCTCCTCAAGCAGTGCGGC
Basic information
species | Arabidopsis thaliana |
transcript | AT3G01780.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G01780.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA16G06580.1 (Glycine max), 3'ss of exon 4
--gttggtatatatt-ctactgtatcatcctgcagttacttgaatacagttttagtggataaagttttagcgtctca-acaccttatactttatgttacctttcagATTATTAATTTGACAGAACTTGAACTGAATCGTGTGGATATACGGGTTGGATTATCTGGTGCCCTATACTTCATGGATGGCTCTCCTCAAGCAGTGCGGC
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atgataaagtatattatttgtttttggcactttttttatttcaa-acaaccattgttccta---tctcagtgtttctcatatattataaatgaaaatg--tttcagGTCTTAAACTTAACTGAGCTTGAATTAAATCGGGTGGATGTACGCGTGGGATTATCAGGTGCATTATATTATATGGATGGCTCTTCTCAAGCTGTGCGGC
upper sequence: AT3G01780.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv14s0171g00280.t01 (Vitis vinifera), 3'ss of exon 4
---gttggtatatattctactgtatcatcctgcagttacttgaatacagttttagtggataaagttttagcgtctcaacaccttatactttatgttacctttcagATTATTAATTTGACAGAACTTGAACTGAATCGTGTGGATATACGGGTTGGATTATCTGGTGCCCTATACTTCATGGATGGCTCTCCTCAAGCAGTGCGGC
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ataataatttaatggtgcttggtatgatga-atagttctctgatttgtgttggaataga---attcagaacttcttgtcatgcta-actgatagacctattgcagGTTTTAAATTTGACTGAACTTGAACTTAATCGGGTGGATATTCGGGTTGGTCTCTCTGGTGCGTTATATTTTATGGATGGGTCTCCTCAAGCAGTACGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttagtggataaagttttagcgtctcaacaccttatactttatgttacctttcagATTATTAATTTGACAGAACTTGAACTGAATCGTGTGGATATACGGGTTGGATTATCTGGTGCCCTATACTTCATGGATGGCTCTCCTCAAGCAGTGCGGC
ttacctttc CT-rich tract
ttatactttatgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtatatattctactgtatcatcctgcagttacttgaatacagttttagtggataaagttttagcgtctcaacaccttatactttatgttacctttcagATTATTAATTTGACAGAACTTGAACTGAATCGTGTGGATATACGGGTTGGATTATCTGGTGCCCTATACTTCATGGATGGCTCTCCTCAAGCAGTGCGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC