Sequence
atgc intronic sequence ATGC exonic sequencegttaccaacaaaaagcttagagcattatacacatccttttttgttttttaactctctttagacaaaaccttcggctttagatgaaaacataaccaaaaagacagatctccattatgaatcaacttgaatatttcacttgtcgtctaaggcctattaataacctgatgttgaatatatcagATTCCTCTAGCTCGATACTTGCCAACATGGAGAGGAAATGTTATAGATGTGGAAATGGAGATGAATCCAGGTCGTGTTCTAGGTATGTCACTGTCCGTAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G17350.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G17350.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G04830.1 (Glycine max), 3'ss of exon 5
gttaccaacaaaaagcttagagcattatacacatccttttttgttttttaactctctttagacaaaaccttcggctttagatgaaaacataaccaaaaagacagatctccattatgaatcaacttgaatattt---cacttgtcgtctaaggcctattaataacctgatgttgaatatatcagATTCCTCTAGCTCGATACTTGCCAACATGGAGAGGAAATGTTATAGATGTGGAAATGGAGATGAATCCAGGTCGTGTTCTAGGTATGTCACTGTCCGTAA
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-----------------------------------------------------------------------------agtgggataaggtttttgctgctgctgttgtttgtacctagttgatttctatatcaacatattgggtgtcatatgcttattaatttc-----attgattg-gccagATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAATGTTATAGATGCACAAATCGAAATGAATCCATCCCGTGTTTTGGGCATGTCTCTATCTGTCA
upper sequence: AT1G17350.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA16G01410.2 (Glycine max), 3'ss of exon 5
gttaccaacaaaaagcttagagcattatacacatccttttttgttttttaactctctttagacaaaaccttcggctttagatgaaaacataaccaaaaagacagatctccattatgaatcaacttgaatatttcacttgtcgtctaaggcctattaataacctgatgttgaatatatcagATTCCTCTAGCTCGATACTTGCCAACATGGAGAGGAAATGTTATAGATGTGGAAATGGAGATGAATCCAGGTCGTGTTCTAGGTATGTCACTGTCCGTAA
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-----------------------------------------------------------------------------agtaggataaggcttttgatgctattgttgtttgtacctagttgatttctatatca-acatattgggtgtcatatgcttatgaattt-cattgattg-gccagATTCCTCTAGCTCGATATTTACCTACTTGGAGAGGGAACGTTATAGATGCACAAATCGAAATGAATCCATCCCGTGTTTTAGGCATGTCTCTATCTGTCA
upper sequence: AT1G17350.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv09s0002g00680.t01 (Vitis vinifera), 3'ss of exon 6
gttaccaacaaaaagcttagagcattatacacatccttttttgttttttaactctctttagacaaaaccttcggctttagatgaaaacataaccaaaaagacagatctccattatgaatcaacttgaatatttcacttgtcgtctaaggcctattaataacctgatgttgaatatatcagATTCCTCTAGCTCGATACTTGCCAACATGGAGAGGAAATGTTATAGATGTGGAAATGGAGATGAATCCAGGTCGTGTTCTAGGTATGTCACTGTCCGTAA
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----------------------------------------------------------ttga-gagttattctgcgttgc-------catgatctaga--acttgtttttttggtgaatgaat----atatcttttctgtgtttgaaaacctg--aacag--tggtgtct----tttcagATTCCTCTTGCTCATTACCTACCAACATGGAGAGGAAATGTTATAGATGCAGAGATAGAAATGAATCCATCGCGTATCGTCGGTATGTCTCTGTCTGTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaatatttcacttgtcgtctaaggcctattaataacctgatgttgaatatatcagATTCCTCTAGCTCGATACTTGCCAACATGGAGAGGAAATGTTATAGATGTGGAAATGGAGATGAATCCAGGTCGTGTTCTAGGTATGTCACTGTCCGTAA
tattaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttaccaacaaaaagcttagagcattatacacatccttttttgttttttaactctctttagacaaaaccttcggctttagatgaaaacataaccaaaaagacagatctccattatgaatcaacttgaatatttcacttgtcgtctaaggcctattaataacctgatgttgaatatatcagATTCCTCTAGCTCGATACTTGCCAACATGGAGAGGAAATGTTATAGATGTGGAAATGGAGATGAATCCAGGTCGTGTTCTAGGTATGTCACTGTCCGTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG