Sequence
atgc intronic sequence ATGC exonic sequencegtcagagatttgttggaaagtagtttgttttctaggggaaggaaagcatatgtttgaatacttactcggaaaattgatgtgagtgtagGTAGTAGCTACGCTGGGGGACAGTGGGCAGCTGGTGATGAACCACTGTACTATATTGTTTCGCCAAAGGATGTTGTGATTGCCAAACCCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G08190.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G08190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA11G19660.2 (Glycine max), 3'ss of exon 5
---------gtcagagatttgttggaaagtagtttgttttctaggggaaggaaagcatatgtttgaatacttactcggaaaattg-----atgtgagtgtagGTAGTAGCTACGCTGGGGGACAGTGGGCAGCTGGTGATGAACCACTGTACTATATTGTTTCGCCAAAGGATGTTGTGATTGCCAAACCCAG
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agctccttcctaatatacaccttagtaa-tatattatttcttgacatatatttttcatgtatg-gaatggtcctgcgtaatattgttttcattcaaatgtagGTAGCAGTTATGCTGGGGGTCAGTGGGCTGCAGGTGATGAACCACTTTACTATATTGTATCTCTGAAGGATGTAGTTATTGCCAAACCAAG
upper sequence: AT1G08190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA12G08840.1 (Glycine max), 3'ss of exon 5
-----gtcagagatttgttggaaagtagtttgtt-ttctaggggaaggaaagcatatgtttg-aatacttactcggaaaattg-----atgtgagtgtagGTAGTAGCTACGCTGGGGGACAGTGGGCAGCTGGTGATGAACCACTGTACTATATTGTTTCGCCAAAGGATGTTGTGATTGCCAAACCCAG
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agctcctttctaatatacaccttagtaatatattatttcttgacatgtattttttatgtatggaatggtccttcataatattggtttcattcaaatgtagGTAGCAGTTATGCTGGGGGTCAGTGGGCTGCAGGTGATGAACCACTTTACTATATTGTATCTCTGAAGGATGTAGTTATTGCCAAACCAAG
upper sequence: AT1G08190.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv06s0061g00940.t01 (Vitis vinifera), 3'ss of exon 5
gtcagagatttgttggaaagtagttt--gttttctaggggaaggaaagcatatgtttgaatacttactcggaaaattg-atgtgagtgtagGTAGTAGCTACGCTGGGGGACAGTGGGCAGCTGGTGATGAACCACTGTACTATATTGTTTCGCCAAAGGATGTTGTGATTGCCAAACCCAG
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-gtaaacatattttgctttcaaacttcagtcttgtgcatgaacagataattaactctgaaatcattgtatcacttttacatttgaatatagGTAGTAGCTATGCTGGTGGTCAGTGGGCAGCTGGAGATGAACCATTGTATTATATTGTATCGCCGAAGGATGTAGTTATTGCAAAACCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aggggaaggaaagcatatgtttgaatacttactcggaaaattgatgtgagtgtagGTAGTAGCTACGCTGGGGGACAGTGGGCAGCTGGTGATGAACCACTGTACTATATTGTTTCGCCAAAGGATGTTGTGATTGCCAAACCCAG
aaaattgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagagatttgttggaaagtagtttgttttctaggggaaggaaagcatatgtttgaatacttactcggaaaattgatgtgagtgtagGTAGTAGCTACGCTGGGGGACAGTGGGCAGCTGGTGATGAACCACTGTACTATATTGTTTCGCCAAAGGATGTTGTGATTGCCAAACCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG