Sequence
atgc intronic sequence ATGC exonic sequence...attttgtattttgctaaagcatgaattaattaatatcccaatataaaatggaaagagtagtatttgcttaattaattgattcatgtgatatatgcttcagGTGGATTATCTACTTGGAGGCAACCCGTTGAAGATGTCATACATGGTTGGTTATGGTCTGAAATATCCACGTCGGATTCACCACCGTGGCTCATCTCTCC
Basic information
species | Arabidopsis thaliana |
transcript | AT1G02800.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G02800.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA02G01990.1 (Glycine max), 3'ss of exon 7
-----attttgtattttgctaaagcatgaattaattaatatcccaatataaaatggaaagagtagtatttgcttaattaattgattcatgtgatatatgcttcagGTGGATTATCTACTTGGAGGCAACCCGTTGAAGATGTCATACATGGTTGGTTATGGTCTGAAATATCCACGTCGGATTCACCACCGTGGCTCATCTCTCC
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tcaatatattttaatctattaaaatgtg--ttgcttgatttcctattcttg--ttaattgaacttgattttttttttaaaataaaaataaaaatgtat-tttcagGTGGATTACTTGCTTGGAGACAACCCATTGAAGATGTCATACATGGTGGGGTATGGTCCACGGTACCCACGAAGGATACACCATAGGGGCTCATCTCTAC
upper sequence: AT1G02800.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA10G02130.1 (Glycine max), 3'ss of exon 7
-------attttgtattttgctaaagcatgaattaattaatatcccaatataaaatggaaagagtagtatttgcttaattaattgattcatgtgatatatgcttcagGTGGATTATCTACTTGGAGGCAACCCGTTGAAGATGTCATACATGGTTGGTTATGGTCTGAAATATCCACGTCGGATTCACCACCGTGGCTCATCTCTCC
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taaacaaagaatgtaaaagagtgccaccagaaa-aagtgttgttagatttcctattcttgttagttgaacttgattttttttttaatttttgtaat------tttagGTGGATTACTTGCTTGGAGACAACCCGTTGAAGATGTCGTACATGGTGGGGTATGGTCCACGGTACCCACGAAGGATACACCATAGGGGATCATCTCTACMapped 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|164047388|gb|ES159565.1|ES159565EST: TGGCTCCGTCGTCACCCCTGCCCGCCTCCGTCTCCATCGCAAAGAAACAG GTGGATTATCTACTTGGAGGCAACCCGTTGAAGATGTCATACATGG
genomic: TGGCTCCGTCGTCACCCCTGCCCGCCTCCG-CTCCATCGCAAAGAAACAGgtttgtttca ... tatgcttcagGTGGATTATCTACTTGGAGGCAACCCGTTGAAGATGTCATACATGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatggaaagagtagtatttgcttaattaattgattcatgtgatatatgcttcagGTGGATTATCTACTTGGAGGCAACCCGTTGAAGATGTCATACATGGTTGGTTATGGTCTGAAATATCCACGTCGGATTCACCACCGTGGCTCATCTCTCC
tatttgcttaattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attttgtattttgctaaagcatgaattaattaatatcccaatataaaatggaaagagtagtatttgcttaattaattgattcatgtgatatatgcttcagGTGGATTATCTACTTGGAGGCAACCCGTTGAAGATGTCATACATGGTTGGTTATGGTCTGAAATATCCACGTCGGATTCACCACCGTGGCTCATCTCTCC
- - - - - - -ctaaagc
- - - - - - - - - - - - - - - - - - cccaata
- - - - - - - - - - - - - - - - - - - - - - - - - gaaagag