Sequence
atgc intronic sequence ATGC exonic sequencegtacgttttcaatcttaaattttattttttggttagatgtagaaatttatgatcctgatggctaccttacacttaaaagtcaaaaatttattgcagCTTCCTCCAGAATGGACCGACCAATTCGAATCAGGCATTCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G53900.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G53900.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G132251_T01 (Zea mays), 3'ss of exon 4
gtacgttttcaatcttaaattttattttttggttagatgtagaaat--ttatgatcctgatggctaccttac---acttaaaagtcaaaaatt--tattgcagCTTCCTCCAGAATGGACCGACCAATTCGAATCAGGCATTCAG
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---cgcctgtcaccaagaatcaaacgccacgaaacaacgcagtaataacctttattcctgcgccgctcttacccaattcccctgtcggcttttgctgttgcagCTTCCTCCGGAATGGACCGACCAGTTCGCATCAGGCATCCAG
upper sequence: AT5G53900.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA13G34980.1 (Glycine max), 3'ss of exon 4
gtacgttttcaatcttaaattttattttttg--gttagatgtagaaatttatgatcctgat-ggctacctta--cacttaaaagtcaaaaatttattgcagCTTCCTCCAGAATGGACCGACCAATTCGAATCAGGCATTCAG
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-ccagtgttgtgttttgtttttttctggtggttattatgtgtagctgttttgtttgatgattgattgactcaaccaccttttgtgatgcaattaattgcagCTTCCTCCTGAATGGACAGACCAGTTTGAGTCAGGCATTCAG
upper sequence: AT5G53900.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA12G35490.2 (Glycine max), 3'ss of exon 3
gtacgttttcaatcttaaattttattttttggttagatgtagaaatttatgatcctgatggctaccttac---acttaaaagtcaaaa----atttattgcagCTTCCTCCAGAATGGACCGACCAATTCGAATCAGGCATTCAG
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--ccagtgttgtgctttgtttttttctggtggttat-tatgtgtgtctgtttgtttgatgattgattgactcaacctcctttttgtgatgccattaattgcagCTTCCTCCTGAATGGACAGACCAGTTTGAGTCAGGCATTCAG
upper sequence: AT5G53900.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G36190.1 (Glycine max), 3'ss of exon 4
-------gtacgttttcaatcttaaattttattttttggttagatgtagaaatttatgatcctgatggct-accttacacttaaaagtcaaaaatttattgcagCTTCCTCCAGAATGGACCGACCAATTCGAATCAGGCATTCAG
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ccaagtttagcaaagttagcattaaatttt--ctattggttatgtgtagctatttagtgattgattgtctcaacctcctctttctgat--gttatttattgcagCTTCCTCCTGAATGGATAGATCAGTTTGAGTCAGGCATTCAG
upper sequence: AT5G53900.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA12G27400.1 (Glycine max), 3'ss of exon 4
-------gtacgttttcaatcttaaattttattttttggttagatgtagaaatttatgatcctgatggct-accttacacttaaaagtcaaaaatttattgcagCTTCCTCCAGAATGGACCGACCAATTCGAATCAGGCATTCAG
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tagcaaagtcagcattcaattt--agccttttctattggttatgtgtagctatatggtgattgattgtctcaacctcctctttctgat--gttatttattgcagCTTCCTCCTGAATGGATAGATCAGTTTGAGTCAGGCATTCAG
upper sequence: AT5G53900.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv19s0014g02320.t01 (Vitis vinifera), 3'ss of exon 4
-------------------------------------------------------------------------------------gtacgttttcaatctt----aaattt-tattttttggttagatgtagaaatttatgatcc--tgatggct-accttacacttaaaagtcaa--aaatttattgcagCTTCCTCCAGAATGGACCGACCAATTCGAATCAGGCATTCAG
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gtaagtaggagaacctcaaacacaaacgttctcttttgattgggtatttgataaaactaattaccattgtgtgggcaaatagtgggtgatttgataaatttggagaaatgggttctttttggcatcatgtcgtggtctattatatgttaatgattgatgatgttcttagcttttggttgaattaattgcagCTTCCTCCTGAATGGACCGATCAGTTTGAGTCAGGCATTCAGMapped 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|124881202|gb|EH960104.1|EH960104EST: TTACTGGCAAAGTTCTTTTGATGCT CTTCCTCCAGAATGGACCGACCAATTCGAATCAGGCATTCAG
genomic: TTACTGGCAAAGTTCTTTTGATGCTgtacgttttc ... tttattgcagCTTCCTCCAGAATGGACCGACCAATTCGAATCAGGCATTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaaatttatgatcctgatggctaccttacacttaaaagtcaaaaatttattgcagCTTCCTCCAGAATGGACCGACCAATTCGAATCAGGCATTCAG
accttac putative branch site (score: 3)
acttaaaagtcaaaaa TA-rich tract