Sequence
atgc intronic sequence ATGC exonic sequenceGCTTAAACCAGGAGAGAACCCAAGACCAAGGCCTAAAGATCGCCAAATGATCCAAGATCGTGTCAAAGAGCTGCGTGAAATAATACCAAACGGTGCAAAAgtaagtgaaaaacttatctgttcttggcaaattaaacaatccctaagaaaggttattactaacaaagagtacatgtggtttttatttaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G27230.2 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G27230.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os01g64560.2 (Oryza sativa), 5'ss of exon 6
GCTTAAACCAGGAGAGAACCCAAGACCAAGGCCTAAAGATCGCCAAATGATCCAAGATCGTGTCAAAGAGCTGCGTGAAATAATACCAAACGGTGCAAAAgtaagtga---aaaacttatctgttc-----ttggcaaattaaacaatccctaagaaaggttattactaacaaagagtacatgtggtttttatttaacag
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ATCTAGACCAGGGGAGAGTGCAAGACCGAGGCCTAAAGATCGGCAAATGATTCAAGACCGTATAAAGGAGCTTCGTGAAATAGTACCTAACAGTGCAAAGgtaacagcaccaacacatagatacccctatattgacctttaaaataaaacacattatttatcat-atttttggtacttagatttctgtttgattaaacag
upper sequence: AT2G27230.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA12G09990.1 (Glycine max), 5'ss of exon 1
GCTTAAACCAGGAGAGAACCCAAGACCAAGGCCTAAAGATCGCCAAATGATCCAAGATCGTGTCAAAGAGCTGCGTGAAATAATACCAAACGGTGCAAAAgtaagtgaaaaacttatctgttcttggcaaattaaacaatccctaagaaaggttat-tactaacaaagagtacatgtggtttttatttaacag--------------
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ACTTAAACCAGGAGAGAACCCTAGGCCTAGGCCTAAAGATCGCCAAATGATTCAAGATCGTGTGAAAGAGTTGCGGGAAATTGTGCCAAATGGAGCAAAAgtatgt---agcctttcttgtgctttcctatatct-cagtcctgaacatatatttcacattgggatactgactttattttctttaatctcttattacaattcaacag
upper sequence: AT2G27230.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA11G18290.1 (Glycine max), 5'ss of exon 7
GCTTAAACCAGGAGAGAACCCAAGACCAAGGCCTAAAGATCGCCAAATGATCCAAGATCGTGTCAAAGAGCTGCGTGAAATAATACCAAACGGTGCAAAAgtaagt-gaaaaacttatctgttcttggcaaattaaac---aatccctaagaaaggtt--attactaacaaagagt----acatgtggtttttatttaacag
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ACTTAAACCTGGAGAGAACCCTAGGCCTCGGCCTAAAGATCGCCAAATGATTCAAGATCGTGTAAAAGAGTTGCGGGAAATTGTGCCAAATGGAGCAAAAgtatatagcttttcttgtgcttttcctacatctcagtcctgaacttatatttaacatttgaatactaactattttctttaatctcttgttacaattcaacag
upper sequence: AT2G27230.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv06s0009g00440.t01 (Vitis vinifera), 5'ss of exon 6
GCTTAAACCAGGAGAGAACCCAAGACCAAGGCCTAAAGATCGCCAAATGATCCAAGATCGTGTCAAAGAGCTGCGTGAAATAATACCAAACGGTGCAAAAgtaagtgaaaaacttatctgttcttggcaaatt-----aaacaatcc-ctaagaaaggttattactaacaaagagta-catgtggtttttatttaacag
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GTTTAAACCTGGCGAGAATCCCCGACCTAGGCCAAAAGATCGCCAAATGATCCAAGATCGTGTGAAAGAGTTACGCGAAATTGTACCAAATGGGGCAAAGgtaactcatctttcttcctttcttcctcacttttttgaggacattttactatattgagatactgattatgtcctctaatctactgatgtggtttaacagMapped 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|164050575|gb|ES200962.1|ES200962EST: ATCGTGTCAAAGAGCTGCGTGAAATAATACCAAACGGTGCAAAA TGTAGCATTGATGCACTCC
genomic: ATCGTGTCAAAGAGCTGCGTGAAATAATACCAAACGGTGCAAAAgtaagtgaaa ... tatttaacagTGTAGCATTGATGCACTCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCTTAAACCAGGAGAGAACCCAAGACCAAGGCCTAAAGATCGCCAAATGATCCAAGATCGTGTCAAAGAGCTGCGTGAAATAATACCAAACGGTGCAAAAgtaagtgaaaaacttatctgttcttggcaaattaaacaatccctaagaaaggttattactaacaaagagtacatgtggtttttatttaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC