Sequence
atgc intronic sequence ATGC exonic sequenceCAAACGTTACAAGTTCGAGCCCATTCACGATGATGAAGAGCTTGGTAGCTCCAATTTCCCCGTCGTCCTCGTACAAATCCCCATGTTCAACGAACGAGAGgtcggttctctgttcattgctctgtttttcctctgtttttctctgtttctcgttaaagttataagtttttcgagaaaagtaatctcagattttacggaag...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G22740.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G22740.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os02g09930.2 (Oryza sativa), 5'ss of exon 1
CAAACGTTACAAGTTCGAGCCCATTCACGATGATGAA---GAGCTTGGTAGCTCCAATTTCCCCGTCGTCCTCGTACAAATCCCCATGTTCAACGAACGAGAGgtcggttctctgttc-------attgctctgtttttcctctgtttttctctgtttctcgttaaagttataagtttttcgagaaaagtaatctcagattttacggaag
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---CCGCTACCGCTGCGACCCCATCCCCGACGACGACCCCGAGCTCGGCACCTCCGCCTTCCCCGTCGTCCTCATCCAGATCCCCATGTTCAACGAGCGCGAGgtaccctctccctcccgccgccattgccgccaccttcccttgcttgctttgctttctctctctcttt-----ttttttgagttcttttgcttcgagatgtggagg--
upper sequence: AT5G22740.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G105631_T01 (Zea mays), 5'ss of exon 1
CAAACGTTACAAGTTCGAGCCCATTCACGATGATGA---AGAGCTTGGTAGCTCCAATTTCCCCGTCGTCCTCGTACAAATCCCCATGTTCAACGAACGAGAGgtcggttctctgttcattgctctgtttttcctctgtttttctctgtttctcgttaaagttataagtttttcg-agaaaagtaatctcagattttacggaag-------------------------------------------------------------
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---CCGCTACCGCTGCGACCCCCTCCCCGAGGACGACCCGGAGCTGGGCTCCTCCGCGTTCCCCGTCGTGCTCGTCCAGATCCCCATGTTCAACGAGCGCGAGgtccgtacccccccgcccgccgccgcattacattgcagcgccatgccgccattgccggccaagcgcccgttgcagcggttttactccggattcgttgggtcactaataaccttggttgccttgcggtggtgccacgggcgggcgggcgtgcgttctctgcagMapped 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|86052418|gb|DR348175.1|DR348175EST: AATTTCCCCGTCGTCCTCGTACAAATCCCCATGTTCAACGAACGAGAG GTTTATAAGCTATCAATAGGAGCGGCGTGTGGACTTTCCTGGCCGTCCGAT
genomic: AATTTCCCCGTCGTCCTCGTACAAATCCCCATGTTCAACGAACGAGAGgtcggttctc ... tgccgtgcagGTTTATAAGCTATCAATAGGAGCGGCGTGTGGACTTTCCTGGCCGTCCGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAAACGTTACAAGTTCGAGCCCATTCACGATGATGAAGAGCTTGGTAGCTCCAATTTCCCCGTCGTCCTCGTACAAATCCCCATGTTCAACGAACGAGAGgtcggttctctgttcattgctctgtttttcctctgtttttctctgtttctcgttaaagttataagtttttcgagaaaagtaatctcagattttacggaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttttcctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tttttctc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaaagta