Sequence
atgc intronic sequence ATGC exonic sequenceTTTTCGACTTGAGCGGTATCCTCACTGTGTTTTTCTGTGGTATTGTGATGTCCCATTACACATGGCACAATGTAACGGAGAGCTCAAGAATAACAACAAAgtatgcaaactttagtttctccgccttttgctgagattaacactttctacctcccaatgattatcttatgatttttttcgatgaaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G27150.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G27150.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os07g47100.2 (Oryza sativa), 5'ss of exon 9
TTTTCGACTTGAGCGGTATCCTCACTGTGTTTTTCTGTGGTATTGTGATGTCCCATTACACATGGCACAATGTAACGGAGAGCTCAAGAATAACAACAAAgtatgcaa--actttagtttctccgccttttgctga--gattaac---actttctacct--cccaatgattatcttatgatttttttcgatgaaacag-----
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TGCTAGATTTGAGCGGCATTCTCACCGTATTCTTCTGTGGTATTGTAATGTCACATTACACTTGGCATAACGTCACAGAGAGTTCAAGAGTTACAACAAAgtaaattataattctcattccatattctactgtttaatgattagcttcagttcgtagaaaaactaaacaaaacttactggtttgttttgtcctttcacctcag
upper sequence: AT5G27150.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os11g42790.1 (Oryza sativa), 5'ss of exon 8
TTTTCGACTTGAGCGGTATCCTCACTGTGTTTTTCTGTGGTATTGTGATGTCCCATTACACATGGCACAATGTAACGGAGAGCTCAAGAATAACAACAAAgtatgcaaactttagtttctccgccttttgctgagattaacactttctacctcccaa--tgattatcttatgatttttttcgatgaaacag---------------------------------------
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TGCTTGATTTGAGTGGTATTCTTACGGTGTTCTTCTGTGGTATTGTAATGTCGCACTATACCTGGCATAATGTAACAGAGAGTTCCAGGGTCACAACCAAgtaagtatctttatggtttgtttcagcaaacttattattccattttcatttttttaacttgatgatttcaaatatgtatttcctgaaattgtgtatcacactgatgcttctctaattgtatactctatag
upper sequence: AT5G27150.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G027851_T03 (Zea mays), 5'ss of exon 7
TTTTCGACTTGAGCGGTATCCTCACTGTGTTTTTCTGTGGTATTGTGATGTCCCATTACACATGGCACAATGTAACGGAGAGCTCAAGAATAACAACAAAgtatgcaaacttta--gtttctccgcc--------ttttgctgagattaacactttctacctcccaatgattatcttatga-tttttttcgatgaaacag
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TGCTAGATCTGAGTGGCATTCTTACCGTATTCTTCTGCGGCATCGTGATGTCGCATTACACCTGGCACAATGTGACAGAGAGCTCAAGAGTCACAACCAAgtaattattccttgtcattttttcgctagtaatgtttctgttctgcttaataaa--cgaatgctgactgaattccttttgggcctttttcattcacttag
upper sequence: AT5G27150.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G311165_T01 (Zea mays), 5'ss of exon 9
TTTTCGACTTGAGCGGTATCCTCACTGTGTTTTTCTGTGGTATTGTGATGTCCCATTACACATGGCACAATGTAACGGAGAGCTCAAGAATAACAACAAAgtatgcaaactt-tagtttctcc---gccttttgctgagattaacactttctacctcccaatgattatcttatgatttttttcgatgaaacag--
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TGCTCGATTTGAGTGGCATTCTCACTGTGTTTTTCTGTGGTATCGTAATGTCACACTATACTTGGCAAAATGTAACAGAAAGTTCGAGGGTCACAACCAAgtaagtagcttcataccttctgtatggacatttgcttttgatcatgcattct--ttggtaatgcttatgctaatgtactattggatggatcacag
upper sequence: AT5G27150.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G311165_T06 (Zea mays), 5'ss of exon 7
-------------------------TTTTCGACTTGAGCGGTATCCTCACTGTGTTTTTCTGTGGTATTGTG----ATGTCCCATTACACATGGCACAATGTAACGGAGAGCTCAAGAATAACAACAAAgtatgcaaactttagtttctccgccttttgctgagattaacactttctacctcccaatgattatcttatgatttttttcgatgaaacag---------------------------------
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GCATTCAACCGATCATGAAGTTTCCATTATGATGCTAATGGCTTATTTATCTTACATGCTAGCTGAAgtgagcaccctgtacttttaacctctgca-gacattttgcattttttaaaagcaa--acatagc-tgtaaattgttattaacgggttgctttttta--ttgtaagttgctcgatttgagtggcattctcactgtgtttttctgtggtatcgtaatgtcacactatacttggcaaaatgtaacag
upper sequence: AT5G27150.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: EFJ05720 (Selaginella moellendorffii), 5'ss of exon 8
TTTTCGACTTGAGCGGTATCCTCACTGTGTTTTTCTGTGGTATTGTGATGTCCCATTACACATGGCACAATGTAACGGAGAGCTCAAGAATAACAACAAAgtatgcaaactttagtttctccgccttttgctgagattaacactttctacctcccaatgattatcttatgatttttttcgatgaaacag
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TGTTCTACCTGAGTGGGATCCTCACAGTCTTCTTTTGTGGCATTGTTATGTCACATTATACATGGCACAACGTCACGGAGAGCTCAAGAATCACAACCAAgtacagtgac----aaatctgtatcttatgttttaacttattcctgcag----------------------------------------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|125297332|gb|EL311417.1|EL311417EST: TCCCATTACACATGGCACAATGTAACGGAGAGCTCAAGAATAACAACAAA GCATACCTTTGCAACTTTGTCATTTCTTGCGGAGACATTTATTTT
genomic: TCCCATTACACATGGCACAATGTAACGGAGAGCTCAAGAATAACAACAAAgtatgcaaac ... gatgaaacagGCATACCTTTGCAACTTTGTCATTTCTTGCGGAGACATTTATTTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTTCGACTTGAGCGGTATCCTCACTGTGTTTTTCTGTGGTATTGTGATGTCCCATTACACATGGCACAATGTAACGGAGAGCTCAAGAATAACAACAAAgtatgcaaactttagtttctccgccttttgctgagattaacactttctacctcccaatgattatcttatgatttttttcgatgaaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA