Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgtttcccacccacttgttcttttgctgtttctttcatttcaaagattaaaaaaaattccatcaaaagatcttaaatactgtattcttaccgactgtcttccagGGCACTGTGACGTACTATCTGATACTGGACAATCGTTTCCGTGCCTCTAGTGGTTATCTCGGGGCTGAGTTTCAAGAGACCATG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G01090.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G01090.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G26180.1 (Glycine max), 3'ss of exon 7
gtatgtgtttcccacccacttgttcttttgctgtttctttcatttcaaagattaaaaaaaattccatcaaaagatcttaaatactgtattcttaccgactgtcttccagGGCACTGTGACGTACTATCTGATACTGGACAATCGTTTCCGTGCCTCTAGTGGTTATCTCGGGGCTGAGTTTCAAGAGACCATG
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-----------------gtttgtgcctttgat---tttctccttctata-------------tctgtcaga------taaatcccttacttccatcca-tgtatttcagGGTACTGTGGCATACTATTTGTTATTGGACAACCGATTCCGTGTTTCCAGTGGCTATCTTGGAGCTGAGTTTCAAGAGACCATG
upper sequence: AT3G01090.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA13G05700.1 (Glycine max), 3'ss of exon 7
gtatgtgtttcccacccacttgttcttttgctgtttctttcatttcaaagattaaaaaaaattccatcaaaagatcttaaatactgtattcttaccgactgtcttccagGGCACTGTGACGTACTATCTGATACTGGACAATCGTTTCCGTGCCTCTAGTGGTTATCTCGGGGCTGAGTTTCAAGAGACCATG
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---------------------gtttgtgatcttttattttcacctcaagtgta---------cctgccagattgtctca----------tctcactgtctgtatttcagGGTACTGTAACATACTATTTGTTATTGGACAACCGGTTTCGTGTTTCTAGTGGTTATCTTGGAGCTGAATTTCAAGAGACAATG
upper sequence: AT3G01090.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA18G49770.1 (Glycine max), 3'ss of exon 8
gtatgtgtttcccacccacttgttcttttgctgtttctttcatttcaaagattaaaaaaaattccatcaaaagatcttaaatactgtattcttaccgactgtcttccagGGCACTGTGACGTACTATCTGATACTGGACAATCGTTTCCGTGCCTCTAGTGGTTATCTCGGGGCTGAGTTTCAAGAGACCATG
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----------------------------gtttgtgcctttgattttgtctttctata-----tctgccagataatc-------ccttactaccatcca-tatatttcagGGTACTGTGGCATACTATTTGTTATTGGACAACCGATTTCGTGTTTCCAGTGGCTATCTTGGAGCTGAGTTTCAAGAGACCATGMapped 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|164159123|gb|ES128604.1|ES128604EST: CGAATCGCTCCGCAACCGAACCCAGAATGAT GGCACTGTGACGTACTATCTGATACTGGACAATCGTTTCCGTGCCTCTAGT
genomic: CGAATCGCTCCGCAACCGAACCCAGAATGATgtatgtgttt ... tgtcttccagGGCACTGTGACGTACTATCTGATACTGGACAATCGTTTCCGTGCCTCTAGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaaaattccatcaaaagatcttaaatactgtattcttaccgactgtcttccagGGCACTGTGACGTACTATCTGATACTGGACAATCGTTTCCGTGCCTCTAGTGGTTATCTCGGGGCTGAGTTTCAAGAGACCATG
ttcttac putative branch site (score: 2)
ctgtcttcc putative PPT
aaaagatcttaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgtttcccacccacttgttcttttgctgtttctttcatttcaaagattaaaaaaaattccatcaaaagatcttaaatactgtattcttaccgactgtcttccagGGCACTGTGACGTACTATCTGATACTGGACAATCGTTTCCGTGCCTCTAGTGGTTATCTCGGGGCTGAGTTTCAAGAGACCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA