Sequence
atgc intronic sequence ATGC exonic sequenceACCCAAGCAAGCCAAAGTTAAAGCCACTCCACTGGGACAAAGTACGAGCGAGCTCAGATCGAGCCACTGTTTGGGACCAGCTCAAATCAAGCTCATTCCAgtgggtagcattttttactacatatttgtgccgcatgcatttttgaatttgacgtttttagtgacttttttgatctgatcatgctatatag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G67470.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G67470.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os03g10680.1 (Oryza sativa), 5'ss of exon 1
ACCCAAGCAAGCCAAAGTTAAAGCCACTCCACTGGGACAAAGTACGAGCGAGCTCAGATCGAGCCACTGTTTGGGACCAGCTCAAATCAAGCTCATTCCAgtgggtagcattttttactacatatttgtgccgcatgcatttttgaatttgacgtttttagtgacttttttga--tctgatcatgctatatag
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GCGAGCCCCGGCCGAAGCTGAAGCCGCTGCACTGGGACAAGGTGCGGGCGACCTCCGACCGCGCCATGGTCTGGGACCAGCTGAAGTCAAGCTCATTCCAgttgaga----tttggtccacactactgaatgccgtgattgctacaggtttggtctttgaattacgcgtgtgacgttgaggcgttcctttcag
upper sequence: AT5G67470.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G075921_T02 (Zea mays), 5'ss of exon 1
ACCCAAGCAA--GCCAAAGTTAAAGCCACTCCACTGGGACAAAGTACGAGCGAGCTCAGATCGAGCCACTGTTTGGGACCAGCTCAAATCAAGCTCATTCCAgtgggtagcattttttactacatatttgtgccgcatgcatttttgaatttgacgtttttagtgacttttttgatctgatcatgctatatag
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--GCGAGCCGCGGCCGAAGCTCAAGCCGCTGCACTGGGACAAGGTGCGGGCGACCTCCGACCGCGCCATGGTCTGGGACCAGCTGAAGTCAAGCTCATTCCAgttgagatcttgcttcg-tac-tacatgcgctgttaatggctgggtatcagtggatatacgtga---tgttgaggcatttcttccag----
upper sequence: AT5G67470.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA11G05220.1 (Glycine max), 5'ss of exon 1
ACCCAAGCAAGCCAAAGTTAAAGCCACTCCACTGGGACAAAGTACGAGCGAGCTCAGATCGAGCCACTGTTTGGGACCAGCTCAAATCAAGCTCATTCCAgtgggtagcattttttactacatatttgtgccgcatgcatttttgaatttgacgtttttagtgacttttttgatctgat----catgctatatag---
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ATGGAGCCAAACCAAAACTGAAAGCTCTGCATTGGGATAAAGTGCGTGCGACCTCAGACCGTGCTACTGTGTGGGACCAGATCAAATCAAGCTCCTTTCAgtgagttaaattagtta--acttaactatctcctat-cattttgggactagtggtatcatggtataactgtaaactaatgtttcgttttttttaatag
upper sequence: AT5G67470.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA01G40080.1 (Glycine max), 5'ss of exon 1
ACCCAAGCAAGCCAAAGTTAAAGCCACTCCACTGGGACAAAGTACGAGCGAGCTCAGATCGAGCCACTGTTTGGGACCAGCTCAAATCAAGCTCATTCCAgtgggtagcattttttactacatatttgtgccgcatgcatttttgaatttgacgtttttagtgacttttttgatctgatcatgctatatag----------------------
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ATGGAGCCAAACCAAAATTGAAAGCTCTGCATTGGGATAAAGTGCGTGCGACCTCAGACCGTGCTACTGTGTGGGACCAGATCAAATCAAGCTCCTTTCAgtgagttaaattagttaactatctcctatcattttgggactagtgg-tatggtataactgtaaacttatgt--tttgtttctattttatggcggttttttttttttttaatagMapped 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|125141671|gb|EL179172.1|EL179172EST: AGCTCAGATCGAGCCACTGTTTGGGACCAGCTCAAATCAAGCTCATTCCA ATTGAACGAGGATAGGA
genomic: AGCTCAGATCGAGCCACTGTTTGGGACCAGCTCAAATCAAGCTCATTCCAgtgggtagca ... tgctatatagATTGAACGAGGATAGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACCCAAGCAAGCCAAAGTTAAAGCCACTCCACTGGGACAAAGTACGAGCGAGCTCAGATCGAGCCACTGTTTGGGACCAGCTCAAATCAAGCTCATTCCAgtgggtagcattttttactacatatttgtgccgcatgcatttttgaatttgacgtttttagtgacttttttgatctgatcatgctatatag
- - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA