Sequence
atgc intronic sequence ATGC exonic sequenceTCTCTCTGTGGTTGATAGCTACAAGCTGTTGAAGCAAGGTCAAGACTTGACGGAGAAAGAGACTTTCCTCTCATGTGCTCTTGGTTGGTGCATTGAATGGgtaattcctcttttacttctcttcttatctttcatctcaatgctcattttgtatttgcttgcatttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G17190.2 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G17190.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os01g50760.1 (Oryza sativa), 5'ss of exon 2
TCTCTCTGTGGTTGATAGCTACAAGCTGTTGAAGCAAGGTCAAGACTTGACGGAGAAAGAGACTTTCCTCTCATGTGCTCTTGGTTGGTGCATTGAATGGgtaattcctcttttacttctcttcttatctttcatctcaatgctcattttg--tatttgcttgcatttgcag---------------------------
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GATCTCTGTCATTGATAGTTTCAAGATGTTGAAGGGCACTGATGTTCTGAATAAGGAGGAGACATTTCTTGCCTGCACCCTTGGTTGGTGCATTGAATGGgtaatgttttctccaaatgctatcttgtaggatgtttgttagccaagtgaagttatatgctaagtgtggcaccactgatggttctgcataattttgcag
upper sequence: AT4G17190.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: LOC_Os05g46580.1 (Oryza sativa), 5'ss of exon 3
TCTCTCTGTGGTTGATAGCTACAAGCTGTTGAAGCAAGGTCAAGACTTGACGGAGAAAGAGACTTTCCTCTCATGTGCTCTTGGTTGGTGCATTGAATGGgtaattcctcttttacttctcttcttatctt---------tcatctcaa--tgctcattttgtatttgc--ttgcatttgcag
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TCTCTCTGTGGTCGATAGCTATAAGCTGTTGAAGGGCACCAATGTTCTAAGTCAGGAAGACATGTTTCTCGCGAGCACTCTTGGTTGGTGCGTTGAATGGgtaatgctttaacctcaactttccgaataatgggtgcaaatcaactaaaattgctcctctaagctttactgttgtctatgtag
upper sequence: AT4G17190.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA09G01820.3 (Glycine max), 5'ss of exon 3
TCTCTCTGTGGTTGATAGCTACAAGCTGTTGAAGCAAGGTCAAGACTTGACGGAGAAAGAGACTTTCCTCTCATGTGCTCTTGGTTGGTGCATTGAATGGgta-----attcct--cttttacttctcttctt--atctttcatctcaatgctcatt-ttgtatttgcttgcatttgcag-----------------------------------------
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ACTGTCAGTCATTGACAGCTACAGATTGTTGAAAGAAGGACAGGCATTAAATGATGACGAAATTTTCCTTGCTAGTGCTCTTGGTTGGTGTATTGAATGGgtatggaagttgaaagcttatgcttttcttgtttgaatgattatactagttctaatcgtttcagatgtttactgtgatggcattggggtatcttatgatcgtcttttgatgggttttgcag
upper sequence: AT4G17190.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA15G12780.1 (Glycine max), 5'ss of exon 3
TCTCTCTGTGGTTGATAGCTACAAGCTGTTGAAGCAAGGTCAAGACTTGACGGAGAAAGAGACTTTCCTCTCATGTGCTCTTGGTTGGTGCATTGAATGGgta--attcct-----cttttacttctcttctt--atctttcatctcaatgctcatt-ttgtatttgcttgcatttgcag-------------------------------------------
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ACTGTCAGTAATTGATAGCTACAGATTGTTAAAAGAAGGACAGGCATTAAATGATGACGAAATTTTTCATGCCAGTGCTCTTGGTTGGTGTATTGAATGGgtatggctgttgaaagcttttgcctttcttgtttgaatgattaaactagttctaatcgtttcagatgtttactgtgatggcattgggggggatcttatgattgtctgttgatgggttttgcagMapped 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|164182207|gb|ES088130.1|ES088130EST: AGACTTTCCTCTCATGTGCTCTTGGTTGGTGCATTGAATGG CTTCAAGCTTATTTCCTTGTGCTTGATGACATCATGGACAACTCTGTC
genomic: AGACTTTCCTCTCATGTGCTCTTGGTTGGTGCATTGAATGGgtaattcctc ... gcatttgcagCTTCAAGCTTATTTCCTTGTGCTTGATGACATCATGGACAACTCTGTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTCTCTGTGGTTGATAGCTACAAGCTGTTGAAGCAAGGTCAAGACTTGACGGAGAAAGAGACTTTCCTCTCATGTGCTCTTGGTTGGTGCATTGAATGGgtaattcctcttttacttctcttcttatctttcatctcaatgctcattttgtatttgcttgcatttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA