Sequence
atgc intronic sequence ATGC exonic sequenceATTTGGCAGAGATTGCAAAGTTTTTGGGGATTACACCAACTGTAGACATTGAAGCCATTCAAgtaagtttgtttcaagtagccttactggatttatgcatttacctgtatttgctcaagttccataatttgtcaaagtgcaagcatgggttccacttttcaattttcttttgttttgcaaatctttcaaacttttag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G17620.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G17620.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA03G07390.1 (Glycine max), 5'ss of exon 4
ATTTGGCAGAGATTGCAAAGTTTTTGGGGATTACACCAACTGTAGACATTGAAGCCATTCAAgtaagtttgtttcaagta-gccttactggatttatgcatttacctgtatttgctcaagttccataatttgtcaaagtgcaagcatgggttccacttttcaattttcttttgttttgcaaatctttcaaacttttag
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ATTTGGCAGAGATTGCTAAGTTTCTGGGTATTACAACAACTGTAGATACAGATGCCATTCAGgttagtcacaattgattgtgtcttgctcttactgtggataacaatgtacttatt---gctcttttctttgcta---ttctgatctcagctatatccttctgtgtca------------------------------
upper sequence: AT5G17620.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA01G29280.1 (Glycine max), 5'ss of exon 4
ATTTGGCAGAGATTGCAAAGTTTTTGGGGATTACACCAACTGTAGACATTGAAGCCATTCAAgtaagtttgtttcaagta-gccttactggatttatgcatttacctgtatttgctcaagttccataatttgtcaaagtgcaagcatgggttccacttttcaattttcttttgttttgcaaatctttcaaacttttag
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ATTTAGCAGAGATTGCTAAGTTTTTGGGTATTACAACAACCGTAGATACAGATGCCATCCAGgttagtcacaattgattgtgtcttgctcttactgtggataacaatgcacatgtgctcttttctttgctattctgatctctcagctagctattcccttctg------------------------------------Mapped 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|19874623|gb|AU235454.1|AU235454EST: TTGCAAAGTTTTTGGGGATTACACCAACTGTAGACATTGAAGCCATTCAA GGACATGGAACCTATGAAGATCGGATGGAAATGCTNCGCAATATTGT
genomic: TTGCAAAGTTTTTGGGGATTACACCAACTGTAGACATTGAAGCCATTCAAgtaagtttgt ... aaacttttagGGACATGGAACCTATGAAGATCGGATGGAAATGCTTCGCAATATTGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATTTGGCAGAGATTGCAAAGTTTTTGGGGATTACACCAACTGTAGACATTGAAGCCATTCAAgtaagtttgtttcaagtagccttactggatttatgcatttacctgtatttgctcaagttccataatttgtcaaagtgcaagcatgggttccacttttcaattttcttttgttttgcaaatctttcaaacttttag
- - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - TGAAGC