Sequence
atgc intronic sequence ATGC exonic sequenceAGATGGAGCTGAGCTTTCTACAAGAGATTTGCAGAAGATGGTTCAAGCATTGCCACAGTACAGTGAACAAATTGACAAGCTCTCTCTCCACGTAGAGgtagttccatacttgtacaattctctccttttcttttcttgttgcgtccacctccacttcaacttttggtagtgctactcacaattactctattaatatg...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G12360.1 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os02g25580.2 (Oryza sativa), 5'ss of exon 9
AGATGGAGCTGAGCTTTCTACAAGAGATTTGCAGAAGATGGTTCAAGCATTGCCACAGTACAGTGAACAAATTGACAAGCTCTCTCTCCACGTAGAGgtagttccatacttgtacaattctctccttttcttttct--tgttgcgtccacctccacttcaacttttggtagtgctactcacaattactctattaatatg
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AACTGGGGGAGAGATATCCAATAGAGATTTGCAAAAAATGGTTCAAGCTCTTCCACAGTACAGCGATCAAATTGAGAAGCTTTCTCTTCATGTTGAGgttggttatattttctttgtttagcttaaaaaattccctactttttcactattttccttctcaagaattgtttgt-ctgctcatg-ttattccaaaatggtg
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os04g18030.3 (Oryza sativa), 5'ss of exon 15
AGATGGAGCTGAGCTTTCTACAAGAGATTTGCAGAAGATGGTTCAAGCATTGCCACAGTACAGTGAACAAATTGACAAGCTCTCTCTCCACGTAGAGgtagttccatacttgtacaattctctccttttcttttcttgttgcgtccacctccacttcaacttttggtagtgctactcacaattactctattaatatg-
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AAATGGTGGAGATTTATCAACCAAAGAGTTGCAAAAAATGGTTCAAGCTCTTCCGCAGTACAGTGATCAAATTGACAAGCTTGCGCTTCATGTTGAGgttagtagttacattccctgccttgtccgcctgtcaatatgcaatgatcactgccaatatgtgatctaccaatgcc-tgcttattcttcattttagtttgg
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G012942_T01 (Zea mays), 5'ss of exon 13
AGATGGAGCTGAGCTTTCTACAAGAGATTTGCAGAAGATGGTTCAAGCATTGCCACAGTACAGTGAACAAATTGACAAGCTCTCTCTCCACGTAGAGgt-agttccatacttgtacaattctctccttttctt-ttcttgttgcgtccacctccacttcaacttttggtagtgctactcacaattactctattaatatg
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ATCTGGTGGAGAGTTATCTACCAAGCAGTTGCAGAAAATGGTTCAAGCTCTTCCACAATACAGTGATCAAATTGACAAGCTCACCCTTCATGTTGAGgttagtagttttgttttacatgacatgcatctgcaaactcaacaaactaacaaagacaatatttcttataactgttctatctact-tcagtagatttgtct-
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GRMZM2G052880_T01 (Zea mays), 5'ss of exon 13
AGATGGAGCTGAGCTTTCTACAAGAGATTTGCAGAAGATGGTTCAAGCATTGCCACAGTACAGTGAACAAATTGACAAGCTCTCTCTCCACGTAGAGgt-agttccatact-tgtacaattctctccttttcttttcttg-ttgcgtccacctccacttcaacttttggtagtgctactcacaatt-actctattaatatg
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AACCGATGGAGAATTATCGACAAGAGATTTACAAAAAATGGTTCAGGCTCTTCCACAGTACAGTGATCAAATTGATAAGCTTTCCCTGCATGTTGAGgttggttttatattgtttgcgacgaactttaaattcattgttgcttgtctagtgttgcactacattgctcataagtcaaacatggacttgaatggattga----
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA11G03230.1 (Glycine max), 5'ss of exon 13
AGATGGAGCTGAGCTTTCTACAAGAGATTTGCAGAAGATGGTTCAAGCATTGCCACAGTACAGTGAACAAATTGACAAGCTCTCTCTCCACGTAGAGgt-agttccatacttgtacaattctctccttttcttttc-ttgttgcgtccacctccacttcaacttttggtagtgctactcacaatt--actctattaatatg
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AAGTAGCAGTGAAATGTCAACAAGGGACATACAAAAGATGGTTCAAGCACTTCCACAGTACAGTGAACAAATTGACAAGCTCTCCCTCCATGTAGAGgttagttcttttgtaatgcaacttgtttttcttataatcactatattatatgatatggtttgcacaaataaatgtgctatctacactctgaagctgccta----
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA17G14450.1 (Glycine max), 5'ss of exon 13
AGATGGAGCTGAGCTTTCTACAAGAGATTTGCAGAAGATGGTTCAAGCATTGCCACAGTACAGTGAACAAATTGACAAGCTCTCTCTCCACGTAGAGgt-agttccatacttgtacaattctctccttttcttttcttgttgcgtccacctccacttcaact-tttggtagtgcta--ctcacaattactctattaatatg
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AGGTAGTGGTGAAATGTCAACAAGGGACTTGCAGAAGATGGTTCAAGCACTTCCACAATACAGCGAACAAATTGACAAGCTCTCCCTCCATGTAGAGgttagttctgcaatggaa----tcttgatgcccccccccccaaaaaaaaaactaaaaaggaaattgtatgatattatttgctttaaaaaaagggtgctatcttt
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA05G03970.1 (Glycine max), 5'ss of exon 14
AGATGGAGCTGAGCTTTCTACAAGAGATTTGCAGAAGATGGTTCAAGCATTGCCACAGTACAGTGAACAAATTGACAAGCTCTCTCTCCACGTAGAGgt-agttccatacttgtacaattctctccttttcttttcttgttgcgtccac-ctccacttcaacttttggtagtgctactcacaattactctattaatatg
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AGGTAGTGGTGAAATGTCGACAAGGGACTTACAAAAGATGGTTCAAGCACTTCCACAATACAGTGAACAAATTGACAAGCTCTCCCTCCATGTAGAGgttagttctatagattttctataaacattttaaatttttacactctggtaataccatattttaattgcatgtaggattagttgggcat-ttgtttgagttt-
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA01G42140.1 (Glycine max), 5'ss of exon 9
AGATGGAGCTGAGCTTTCTACAAGAGATTTGCAGAAGATGGTTCAAGCATTGCCACAGTACAGTGAACAAATTGACAAGCTCTCTCTCCACGTAGAGgt-agttccatacttgtacaattctctccttttcttttcttgttgcgtccacc-tccacttcaacttttggtagtgctactcacaattactctattaatatg
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TAGTAGCAGTGAAATGTCTACAAGGGACATACAAACCATCGTTCAAGCACTTCCACAGTACAGTGAACAAATTGATAAGCTCTCCCTCCATGTAGAGgttagttcttttgtaatgcaattttgatacaacttgtttttcttataataattatatgatatggtttgcacaaataaatgtgctatctacactctgaagc--
upper sequence: AT1G12360.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv13s0019g05000.t01 (Vitis vinifera), 5'ss of exon 13
AGATGGAGCTGAGCTTTCTACAAGAGATTTGCAGAAGATGGTTCAAGCATTGCCACAGTACAGTGAACAAATTGACAAGCTCTCTCTCCACGTAGAGgt-agttccatacttgt---acaattctctccttttcttttcttgttgcgtccacctccacttcaacttttggtagtgctactcacaattactctattaatatg
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AGGTGGTGGTGAATTGTCTACAAGGGACTTGCAAAAGATGGTTCAAGCTTTGCCACAATATAGTGAGCAAATTGAGAAGCTTTCCCTCCATGTTGAGgttagtttctttttttttttactagcatcgtattttccaaattaaatgtgttgaa--acagttctagtttcaatcgtttgacttggcat-gccacattttggt-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|124920584|gb|EH994285.1|EH994285EST: CTCTCTCTCCACGTAGAG ATTGCTAGAAAACTCAACGACCTTATCAGAGAGCAAGGACTTCGGGAGCTT
genomic: CTCTCTCTCCACGTAGAGgtagttccat ... ctttttgcagATTGCTAGAAAACTCAACGACCTTATCAGAGAGCAAGGACTTCGGGAGCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGATGGAGCTGAGCTTTCTACAAGAGATTTGCAGAAGATGGTTCAAGCATTGCCACAGTACAGTGAACAAATTGACAAGCTCTCTCTCCACGTAGAGgtagttccatacttgtacaattctctccttttcttttcttgttgcgtccacctccacttcaacttttggtagtgctactcacaattactctattaatatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tccacctc