Sequence
atgc intronic sequence ATGC exonic sequenceGTCCAACTTATGCACTGAAATCATTGAGTACACTAGTCCAACAGAAACTGCTGTGTGCAATCTTGCATCTATTGCTTTACCCAGATTTGTAAGGGAGAAGgtgagagggagactggttttttaaaatttgctttctctttattactcaatgtatagctctaacattcttcatctcacaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G21790.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G21790.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os06g07210.1 (Oryza sativa), 5'ss of exon 9
GTCCAACTTATGCACTGAAATCATTGAGTACACTAGTCCAACAGAAACTGCTGTGTGCAATCTTGCATCTATTGCTTTACCCAGATTTGTAAGGGAGAAGgtgagagggagactggttttttaaaatttgctttctctttattactcaatgtatagctctaacattcttcatctcacaacag--------
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TTCAAACTTATGCACTGAGATAATTGAGTACACAAGCCCTACTGAAACTGCTGTCTGCAATCTGGCATCTATTGCTTTACCACGTTTTGTAAGGGAAAAGgta----------tatcttgttagtgctttggctgatttcaaccctaaatgttgtatgtttacatgtctgatcataagattctgttgcag
upper sequence: AT2G21790.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os02g56100.1 (Oryza sativa), 5'ss of exon 9
GTCCAACTTATGCACTGAAATCATTGAGTACACTAGTCCAACAGAAACTGCTGTGTGCAATCTTGCATCTATTGCTTTACCCAGATTTGTAAGGGAGAAGgtgagagggagactggttttttaaaatttgctttctctttattactcaatgtatagctctaacattcttcatctcacaacag------------
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TTCAAACTTGTGCACGGAGATTATTGAGTTCACAAGTCCCACTGAAACTGCTGTGTGCAATCTAGCATCGATTGGTTTACCGCGTTTTGTAAGGGAAAAGgtatgca---------ctatgcagtactggctgtataatttttgatttgt-tgtaggttgaaatttctgtatctcacgacacaaatttgttcag
upper sequence: AT2G21790.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G340527_T01 (Zea mays), 5'ss of exon 9
GTCCAACTTATGCACTGAAATCATTGAGTACACTAGTCCAACAGAAACTGCTGTGTGCAATCTTGCATCTATTGCTTTACCCAGATTTGTAAGGGAGAAGgtgagagggagactggttt---tttaaaatttgctttctctttattactc-aatgtatagctctaacattcttcatctcacaacag
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GTCAAACTTGTGCACTGAGATAATTGAGTTTACAAGCCCTACTGAAACTGCTGTCTGCAACCTAGCATCTATTGCTTTACCTCGTTTTGTTCGGGAAAAGgt-atatcttgtcagtcctaaagctcaagtcaatcatgaaggttttattctgatgcaccatataaacttgctttacag--------Mapped 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|124757129|gb|EH847259.1|EH847259EST: CTTTACCCAGATTTGTAAGGGAGAAG GGTGTCCCATTAGACTCTCATCCACCTAAGCTCGCTGGCAGTCTGGACTCA
genomic: CTTTACCCAGATTTGTAAGGGAGAAGgtgagaggga ... ctcacaacagGGTGTCCCATTAGACTCTCATCCACCTAAGCTCGCTGGCAGTCTGGACTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCCAACTTATGCACTGAAATCATTGAGTACACTAGTCCAACAGAAACTGCTGTGTGCAATCTTGCATCTATTGCTTTACCCAGATTTGTAAGGGAGAAGgtgagagggagactggttttttaaaatttgctttctctttattactcaatgtatagctctaacattcttcatctcacaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA