Sequence
atgc intronic sequence ATGC exonic sequencegtatacgcctgggcctgatttctcttctaactcctcatgaaaccatttcttatatatatttatcgaaatgcacaaaaagctaactgcatatctttctacaaatatcagAAAAAGCTTGAGGAAACTGAGCACTCATTGTTTGATCTTGAAGAGAAATACAGACAGGCGAATGCAACCATTAAAGAGAAGGAATTTGTGATATCTAATC
Basic information
species | Arabidopsis thaliana |
transcript | AT3G45850.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G45850.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA12G07910.1 (Glycine max), 3'ss of exon 10
--gtatacgcctgggcctgatttctcttctaactcctcatgaaaccatttcttatatata--tttatcgaaatgcacaaaaagctaactgcatatctttctacaaatatcagAAAAAGCTTGAGGAAACTGAGCACTCATTGTTTGATCTTGAAGAGAAATACAGACAGGCGAATGCAACCATTAAAGAGAAGGAATTTGTGATATCTAATC
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gtaaaaaagttcataataggtggctgtacctaattgatttttatttattttgaacttctgacctggttcaagagttaaatttacttacggcatatgct-------atctcagAAAAGTCTTGAAGAAACTGAGCGGTCATTATTTGATCTTGAGGAGAAACACACACAAGCAAATGCAACTATTATGGAAAAGGAATTTCTAATATCGAATC
upper sequence: AT3G45850.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA11G15520.2 (Glycine max), 3'ss of exon 10
gtatacgcctgggcctgatttctcttctaactcctcatgaaaccatttcttatatatatttatcgaaatgcacaaaaagctaactgcatat-ctttctacaa-atatcagAAAAAGCTTGAGGAAACTGAGCACTCATTGTTTGATCTTGAAGAGAAATACAGACAGGCGAATGCAACCATTAAAGAGAAGGAATTTGTGATATCTAATC
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--gtaaaaaaagttcttaataggtggctgtacctaattgtttttatttattttgaacatctgacctggttca---agagttaaatttatttacggcatatgctatctcagAAAAGTCTTGAAGAAACTGAGCAGTCATTATTTGATCTTGAGGAAAAGCACACACAAGCAAATGCAACAATTAAGGAAAAGGAATTTCTAATATCGAATC
upper sequence: AT3G45850.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA15G04830.1 (Glycine max), 3'ss of exon 10
--gtatacgcctgggcctgatttctcttctaactcctcatgaaaccat--ttcttatatatatttatcgaaatgcacaaaaagctaactgcatatctttctac--aaatatcagAAAAAGCTTGAGGAAACTGAGCACTCATTGTTTGATCTTGAAGAGAAATACAGACAGGCGAATGCAACCATTAAAGAGAAGGAATTTGTGATATCTAATC
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gtaaaagtggccatgcttaactgcttcattctttcgttctggacttttgatcctttcaggaatttaactgtttatatcctaacataaacttacacctgacatctgtattttcagAAAAGTCTAGAAGAAACTGAGCAGTCATTGTTTGATCTTGAGGAAAGGCACAAACAAGCAAATGCAACAATTAAGGAAAAGGAATTTTTGATATTAAATC
upper sequence: AT3G45850.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA13G40580.1 (Glycine max), 3'ss of exon 11
gtatacgcctgggcctgatttctcttctaactcctcatgaaaccatttcttatatatatttatcgaaatgcacaaaaagctaactgcatatctttctacaaatatcagAAAAAGCTTGAGGAAACTGAGCACTCATTGTTTGATCTTGAAGAGAAATACAGACAGGCGAATGCAACCATTAAAGAGAAGGAATTTGTGATATCTAATC
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--gtaaaagtggccacgctctttcattctggactt--ttgatccgttccagaattaaactgtttatatcctaacataaacttacacctgacatctgttt---tttcagAAAAGTCTAGAAGAAACTGAGCAGTCATTGTTTGATCTTGAGGAAAGGCACAAACAAGCAAATGCAACAATCAAGGAAAAGGAATTTTTGATATCAAATC
upper sequence: AT3G45850.2 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv06s0004g03810.t01 (Vitis vinifera), 3'ss of exon 11
----------gtatacgc-ctgggcctgatttctcttctaactcc---tcatgaaaccatttcttatatatatttatcgaaatgcacaaaaagctaactgcatatctttctacaaatatcagAAAAAGCTTGAGGAAACTGAGCACTCATTGTTTGATCTTGAAGAGAAATACAGACAGGCGAATGCAACCATTAAAGAGAAGGAATTTGTGATATCTAATC
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gtctcgcaccttacttccattgaaatggatgcaccttttttctttgaaccattgaaccatgcacctcatttttctgattctatgttatgcaa--taaccgagcatcttattgta--cctcagAAAAAGCTCGAGGAGACTGAACATACATTGTTTGATCTCGAAGAAAGACACAGACAGGCAAATGCAACAATTAAAGAAAAGGAGTATCTGATCTCTAATCMapped 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|125295684|gb|EL309769.1|EL309769EST: TCAGCAGATTTTAACTGCAGAGTTGAGTGAGAAACTTGAAAAAACTGAAG AAAAAGCTTGAGGAAACTGAGC
genomic: TCAGCAGATTTTAACTGCAGAGTTGAGTGAGAAACTTGAAAAAACTGA-Ggtatacgcct ... caaatatcagAAAAAGCTTGAGGAAACTGAGC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatatttatcgaaatgcacaaaaagctaactgcatatctttctacaaatatcagAAAAAGCTTGAGGAAACTGAGCACTCATTGTTTGATCTTGAAGAGAAATACAGACAGGCGAATGCAACCATTAAAGAGAAGGAATTTGTGATATCTAATC
agctaac putative branch site (score: 2)
tctttctac putative PPT
tacaaatat TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatacgcctgggcctgatttctcttctaactcctcatgaaaccatttcttatatatatttatcgaaatgcacaaaaagctaactgcatatctttctacaaatatcagAAAAAGCTTGAGGAAACTGAGCACTCATTGTTTGATCTTGAAGAGAAATACAGACAGGCGAATGCAACCATTAAAGAGAAGGAATTTGTGATATCTAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA