Sequence
atgc intronic sequence ATGC exonic sequenceTTATCAACCTCCCAATCCTTGGACGATGGCTATACTAGGGTTGCTTGCTGAGATCTATTCAATGCCAAACCTAAAAATGAATCTGAAGTTTGACATAGAGgtatctgatagttcctattgagcatcacgagttattttacatcacttttatttgtgtattttatgtgttgttctcatttcgtctttctcttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G02080.2 |
intron # | 22 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G02080.1 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: GLYMA03G27270.1 (Glycine max), 5'ss of exon 23
TTATCAACCTCCCAATCCTTGGACGATGGCTATACTAGGGTTGCTTGCTGAGATCTATTCAATGCCAAACCTAAAAATGAATCTGAAGTTTGACATAGAGgtatctgatagttcctattgagcatcacgagttattttacatcacttt-----tatttgtgtattttatgtgttgttctcatttcgtct-ttctcttcag
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ATATCAACCTCCTAATCCTTGGACTATGGGCATTTTGGGATTGCTTGCTGAGATTTATTCAATGCCAAACTTGAAAATGAACCTCAAGTTTGACATAGAGgt--tagtttgttttgtttgcttgttggagtgtctttggcataattttgtctctcttccagtcttccacctatttattgcgtaatatttgtgctatacag
upper sequence: AT1G02080.1 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: GLYMA07G14770.1 (Glycine max), 5'ss of exon 23
TTATCAACCTCCCAATCCTTGGACGATGGCTATACTAGGGTTGCTTGCTGAGATCTATTCAATGCCAAACCTAAAAATGAATCTGAAGTTTGACATAGAGgtatctgatagttcctattgagcatcacgagttattttacatcacttttatttgtgtattttatgtgttgttctcatttcgtctttctcttcag
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ATATCAACCTCCTAATCCTTGGACTATGGGCATTTTGGGATTGCTTGCTGAGATTTATTCAATGCCAAACTTGAAAATGAACCTCAAATTTGACATAGAGgt--cagtt--tttttgtttgcttgctggagtgtctttggcataattttgtctcatcgatttatttattgtgtaatctttgtg---ctatacag
upper sequence: AT1G02080.1 (Arabidopsis thaliana), 5'ss of exon 23
lower sequence: GLYMA03G27260.1 (Glycine max), 5'ss of exon 17
TTATCAACCTCCCAATCCTTGGACGATGGCTATACTAGGGTTGCTTGCTGAGATCTATTCAATGCCAAACCTAAAAATGAATCTGAAGTTTGACATAGAGgtatctgatagttcctattgagcatcacgagttattttacatcacttttatttgtgtattttatgtgttgttctcatttcgtctttctcttcag
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ATATGAACCTTCTAATCCTTGGACTAAGGGCATTTTGAGATTGCTTGTTGAAATTTATTCAATGCCAAACCTGAAAATGAACCTCATGTTTGACATAGAGgt---cagtttttttttttctccttgctggagtgtcat-tggcataattatgtctctcatccagctattcgtcgaaatc--ttgtgttatacagMapped 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|116440775|gb|EG483367.1|EG483367EST: AGATCTATTCAATGCCAAACCTAAAAATGAATCTGAAGTTTGACATAGAG GTTTTATTCAAGAACCTTGGTGTTGAAATGAAGGAAGTAGTGCCAACTTCC
genomic: AGATCTATTCAATGCCAAACCTAAAAATGAATCTGAAGTTTGACATAGAGgtatctgata ... ttctcttcagGTTTTATTCAAGAACCTTGGTGTTGAAATGAAGGAAGTAGTGCCAACTTCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTATCAACCTCCCAATCCTTGGACGATGGCTATACTAGGGTTGCTTGCTGAGATCTATTCAATGCCAAACCTAAAAATGAATCTGAAGTTTGACATAGAGgtatctgatagttcctattgagcatcacgagttattttacatcacttttatttgtgtattttatgtgttgttctcatttcgtctttctcttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG