Sequence
atgc intronic sequence ATGC exonic sequenceGTCATTTGGTTCTGGACTGGAATTTGTTTGGTCATCCGAGGGGGAGTGTGCGGTTAGAGAAAGCTCATCAAAGATTAAAATATTTAGCAAAAATTTCCAGgtttctaaatctttttctctctgatctaagccgttctgttcaaccctgtatctatggttgttggaagtattattgatactggtcatggagatagctatattcggatctggctcattcagaaaatacattttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G52360.2 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GRMZM2G095348_T03 (Zea mays), 5'ss of exon 12
GTCATTTGGTTCTGGACTGGAATTTGTTTGGTCATCCGAGGGGGAGTGTGCGGTTAGAGAAAGCTCATCAAAGATTAAAATATTTAGCAAAAATTTCCAGgt-ttctaaatctttttctctctgatctaagccgttctgttcaaccctgtatctatggttgttggaagtattattgatactggtcatggagatagctatattcggatctggctcattcagaaaatacattttcag
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GTCATTTGGATCTGCACTGGAATTTGTTTGGTCATCAGAAGGAGAATATGCAATTAGGGAAAGTACATCAAGAATAAAGATTTTCAGTAAATCATTTCAGgtattctagtttagtttattgtttctct------ctctatcagatgcaa-gtttctcatttcttccataattacgtaaaccttacctctggtttggcatctgtaaac----------------------------
upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GRMZM2G000645_T01 (Zea mays), 5'ss of exon 12
GTCATTTGGTTCTGGACTGGAATTTGTTTGGTCATCCGAGGGGGAGTGTGCGGTTAGAGAAAGCTCATCAAAGATTAAAATATTTAGCAAAAATTTCCAGgtttctaaatctttttctctctgatctaagccgttctgttcaaccctgtatctatggtt--gttggaagtattattgatactggtcatggagatagctatat-tcggatctggctcattcagaaaatacattttcag
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ATCATTTGGGTCTGCACTGGAATTTGTTTGGTCATCAGAAGGAGAATATGCAATTAGGGAAAGTACATCAAGAATAAAGATTTTCAATAAATCGTTTCAGgtacatgg-----------tctgctttagtttattgttttt--ctatatattaattgcttaatcagatgcaaatttctcatttcttccatagttacctaaacattgcctctgg------------------------
upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA13G43680.2 (Glycine max), 5'ss of exon 12
GTCATTTGGTTCTGGACTGGAATTTGTTTGGTCATCCGAGGGGGAGTGTGCGGTTAGAGAAAGCTCATCAAAGATTAAAATATTTAGCAAAAATTTCCAGgtttctaaatcttttt---ctctctgatctaagccgttctgttcaaccctgtatctatggttgttgga--agta--ttattgatactggtcatggagatagctatattcggatctggctcattcagaaaatacattttcag
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GTCATTTGGTTCAGCACTGGAATTTGTTTGGTCTTCTGAGGGAGAATATGCTGTCAGAGAAAGTACATCAAAGATTAAAATTTTCAGCAAAAATTTCCAGgtttgtacttttttttaaacttcatttcctctctaatcttgtgtgatcttgt-tctttgtgtaatgaaccaacaagttcttgctatttcttaaaaggaaaa----------------------------------------
upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA15G01680.1 (Glycine max), 5'ss of exon 12
GTCATTTGGTTCTGGACTGGAATTTGTTTGGTCATCCGAGGGGGAGTGTGCGGTTAGAGAAAGCTCATCAAAGATTAAAATATTTAGCAAAAATTTCCAGgtttctaaatctttt---tctctctgatctaagccgttctgttcaaccctgtatctatggttgttgga--agta--ttattgatactggtcatggagatagctatattcggatctggctcattcagaaaatacattttcag
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GTCATTTGGTTCAGCACTGGAATTTGTTTGGTCTTCTGAGGGAGAATATGCTGTCAGAGAAAGTACATCAAAGATTAAAATTTTCAGCAAAAATTTCCAGgtttgtacttttttaaaaactttgtttcctctctaatctcgtgcaatcttgt-tctgtgtgtaatgaaccaacaagttcttgctatttcttaaaaggaaaa----------------------------------------
upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA08G22140.1 (Glycine max), 5'ss of exon 12
GTCATTTGGTTCTGGACTGGAATTTGTTTGGTCATCCGAGGGGGAGTGTGCGGTTAGAGAAAGCTCATCAAAGATTAAAATATTTAGCAAAAATTTCCAGgtttctaaatctttttctctctgatctaagccgttctgttcaaccctgtatctatggttgttggaagtattattgatactggtcatggagatagctatattcggatctggctcattcagaaaatacattttcag
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ATCATTTGGTTCAGCACTGGAATTTGTTTGGTCTTCAGATGGGGAGTATGCTGTAAGAGAAAGTACATCGAAGGTTAAAATTTTCAGCAAAAATTTCCAGgtt-----gtgcttcactttcagtt---actcttatcattttatactttgtctta---tgacgaaagtgatggtgaca--------------acctacaattctaaataatttgttaaaaggata---------
upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA07G03890.1 (Glycine max), 5'ss of exon 12
GTCATTTGGTTCTGGACTGGAATTTGTTTGGTCATCCGAGGGGGAGTGTGCGGTTAGAGAAAGCTCATCAAAGATTAAAATATTTAGCAAAAATTTCCAGgtttctaaatctttttctctctgatctaagccgttctgttcaaccctgtatctatggttgttggaagtattattgatactggtcatggagatagctatattcggatctggctcattcagaaaatacattttcag
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ATCATTTGGTTCAGCTCTGGAATTTGTTTGGTCTTCAGATGGGGAGTATGCTGTAAGAGAAAGTACATCGAAGGTCAAAATTTTCAGCAAAAATTTCCAGgttgt---gcttcattatcagttactcttatcattttat---actttgtattaa-----gacgaaagtgatggtgaca--gcctacaaa----------ttctaaa-taatttgttaaaaggat----------
upper sequence: AT1G52360.2 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA07G03890.2 (Glycine max), 5'ss of exon 1
GTCATTTGGTTCTGGACTGGAATTTGTTTGGTCATCCGAGGGGGAGTGTGCGGTTAGAGAAAGCTCATCAAAGATTAAAATATTTAGCAAAAATTTCCAGgtttctaaatctttttctctctgatctaagccgttctgttcaaccctgtatctatggttgttggaagtattattgatactggtcatggagatagctatattcggatctggctcattcagaaaatacattttcag
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-------------------------GTTTGGTCTTCAGATGGGGAGTATGCTGTAAGAGAAAGTACATCGAAGGTCAAAATTTTCAGCAAAAATTTCCAGgttgt---gcttcattatcagttactcttatcattttat---actttgtattaa-----gacgaaagtgatggtgacag----cctacaaatt-ctaaat--------aatttgttaaaaggat----------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|19878420|gb|AU239251.1|AU239251EST: CGGTTAGAGAAAGCTCATCAAAGATTAAAATATTTAGCAAAAATTTCCAG GAAAAGAGGAGTATCCGCCCTACTTTTTCAGCTGAGAAGATCTTTGGAGGA
genomic: CGGTTAGAGAAAGCTCATCAAAGATTAAAATATTTAGCAAAAATTTCCAGgtttctaaat ... acattttcagGAAAAGAGGAGTATCCGCCCTACTTTTTCAGCTGAGAAGATCTTTGGAGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCATTTGGTTCTGGACTGGAATTTGTTTGGTCATCCGAGGGGGAGTGTGCGGTTAGAGAAAGCTCATCAAAGATTAAAATATTTAGCAAAAATTTCCAGgtttctaaatctttttctctctgatctaagccgttctgttcaaccctgtatctatggttgttggaagtattattgatactggtcatggagatagctatattcggatctggctcattcagaaaatacattttcag
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