Sequence
atgc intronic sequence ATGC exonic sequenceTGCTACACAGAAAGTTCAAAATGATCTGATAGAGATGCTGCATATTCCTAAATGCGTCAAATTTGTGAGCAGTGTTAACAGGCCAAATCTCTTTTACTCGgtacgctttagtaatgatttttattagtatacttttctcatgctgtagacagtttgtaggcttgaacatgaaccagtaaattgtcttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G31360.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G31360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os11g48090.3 (Oryza sativa), 5'ss of exon 7
TGCTACACAGAAAGTTCAAAATGATCTGATAGAGATGCTGCATATTCCTAAATGCGTCAAATTTGTGAGCAGTGTTAACAGGCCAAATCTCTTTTACTCGgtacgctttagtaatgatttttatt--agtatacttttctcatgctgtagacagtttgtaggcttgaacatgaaccagtaaatt---gtcttgcag-------
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TGCGACAAATAAAGTGCAAATTGATTTGATAGAGATGCTTCATATCCCTAGATGTGTCAAGTTTGTCAGCACAATTAACAGGCCCAACCTTTTCTATAAAgtatgccttt-tctcaatttcaaatcgaggaaaatccatccataccacagat--tttgccaaattcaaagaataccacaaaatttgggaagtgccaattaata
upper sequence: AT1G31360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA09G34860.1 (Glycine max), 5'ss of exon 6
TGCTACACAGAAAGTTCAAAATGATCTGATAGAGATGCTGCATATTCCTAAATGCGTCAAATTTGTGAGCAGTGTTAACAGGCCAAATCTCTTTTACTCGgtacgctt--tagtaatgatttttattagtatacttttctcatgctgtagacagtttgtaggcttgaacatgaaccagtaaattgtcttgcag--------------------------------------------
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TGCTACTCAGAGGGTCCAAAATGATCTGATAGAGATGTTGCATATTCCTAGATGTGTCAAATTCGTCAGCACTGTCAATAGGCCAAACTTGTTTTATATGgtatatttgtaattaatatctattaacagaattttttactttttatattgatgctcccccctcctccaaggaagttatacccttggctttaatgacaagtttaaaggaattgcataatttcgtattttatactgcag
upper sequence: AT1G31360.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv02s0087g00070.t01 (Vitis vinifera), 5'ss of exon 6
TGCTACACAGAAAGTTCAAAATGATCTGATAGAGATGCTGCATATTCCTAAATGCGTCAAATTTGTGAGCAGTGTTAACAGGCCAAATCTCTTTTACTCGgtacg--ctttagtaatgatttttattagta-tacttttctcatgctgtagacagtttgtaggcttgaacatgaaccagtaaattgtcttgcag
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AGCAACGAAGAAGGTCCAAAATGATCTTATGGAAATGCTGCATATCCCGAAATGCATTAAATTTGTCAGCACAGTGAATCGGCCAAATCTTTTTTACATGgtgtagtttttggtaacttatgtttttagtcctaacatttgcttgctg--gatgatctg-agtggtagtcatg---tagttcctcgtattgcagMapped 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|164140204|gb|ES065481.1|ES065481EST: AATGCGTCAAATTTGTGAGCAGTGTTAACAGGCCAAATCTCTTTTACTCG GTCCGAGAAAAGTCGGCAGTTGGTAAATTAGTGGTTGAT
genomic: AATGCGTCAAATTTGTGAGCAGTGTTAACAGGCCAAATCTCTTTTACTCGgtacgcttta ... tgtcttgcagGTCCGAGAAAAGTCGGCAGTTGGTAAATTAGTGGTTGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCTACACAGAAAGTTCAAAATGATCTGATAGAGATGCTGCATATTCCTAAATGCGTCAAATTTGTGAGCAGTGTTAACAGGCCAAATCTCTTTTACTCGgtacgctttagtaatgatttttattagtatacttttctcatgctgtagacagtttgtaggcttgaacatgaaccagtaaattgtcttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG