Sequence
atgc intronic sequence ATGC exonic sequenceCGATCGAAGATGAACATTTTCAGATTAGCTGGTGATATGACTCACCTAGCCAGTGTTCTTGTCTTGCTTCTCAAGATCCACACCATCAAATCCTGCGCTGgtatgtacatttcctcaattcgtttctgaaatttagctgaaatgcgattagattaggctaattctcgatgtttgttcgatttgcttgacgttgacatttg...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G25040.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G25040.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os04g30800.2 (Oryza sativa), 5'ss of exon 1
-CGATCGAAGATGAACATTTTCAGATTAGCTGGTGATATGACTCACCTAGCCAGTGTTCTTGTCTTGCTTCTCAAGATCCACACCATCAAATCCTGCGCTGgtatgta--catttcctcaattcgtttctgaaatttagctgaaatgcgattagattaggctaattctcgat-gtttgttcgatttgcttgacgttgacatttg
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GCGGGCGA-GATGAACGCCTTCAGGCTCGCCGGGGACATGACGCACATCATGAGCGTCCTCGTCCTCCTGCTCAAGATCCACACCATCAAGTCTTGCGCTGgtgagtgactgatcagccgactggcgcctgc--ttaagatgcatttttttttactgtattgagtcctggattggttgccagcagctcaagaaaggtagagtt-
upper sequence: AT3G25040.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: LOC_Os04g30800.1 (Oryza sativa), 5'ss of exon 1
CGATCGAAGATGAACATTTTCAGATTAGCTGGTGATATGACTCACCTAGCCAGTGTTCTTGTCTTGCTTCTCAAGATCCACACCATCAAATCCTGCGCTGgtatgtacat--ttcctcaattcgtttctgaaatttagctgaaatgcgattagattaggctaattctcgat-gtttgttcgatttgcttgacgttgacatttg
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-GGGCGA-GATGAACGCCTTCAGGCTCGCCGGGGACATGACGCACATCATGAGCGTCCTCGTCCTCCTGCTCAAGATCCACACCATCAAGTCTTGCGCTGgtgagtgactgatcagccgactggcgcctgc--ttaagatgcatttttttttactgtattgagtcctggattggttgccagcagctcaagaaaggtagagtt-
upper sequence: AT3G25040.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA08G46570.1 (Glycine max), 5'ss of exon 1
CGATCGAAGATGAACATTTTCAGATTAGCTGGTGATATGACTCACCTAGCCAGTGTTCTTGTCTTGCTTCTCAAGATCCACACCATCAAATCCTGCGCTGgtatgtacatttcct--caat-tcgtttctgaaatttagctgaaatgcgattagattaggctaattctcgatgtttgttcgatttgcttgacgttgacatttg-
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TAAGAAAAGATGAATATTTTCAGGTTAGCCGGGGACATGACCCATTTGGCCAGCGTCCTCGTCCTTCTTCTCAAGATCCACACCATCAAATCCTGCGCCGgtcggtaccttcctttccaatctcaacattcatcgctcgctctgttttgtttcgttgaggata--tgtcgtagattttc--attgtaataatgctgacgtgtgt
upper sequence: AT3G25040.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: Vv05s0029g00180.t01 (Vitis vinifera), 5'ss of exon 1
CGATCGAAGATGAACATTTTCAGATTAGCTGGTGATATGACTCACCTAGCCAGTGTTCTTGTCTTGCTTCTCAAGATCCACACCATCAAATCCTGCGCTGgtatgtacatttcctcaattcgtttctgaaatttagctgaaatgcgattagattaggctaattctcgatgtttgttcgatttgcttgacgttgacatttg--
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AAAGGGAAAATGAACATTTTCAGATTAGCAGGGGACATGACCCATCTGGCCAGTGTCCTGGTTTTGCTTCTCAAAATTCACACCATCAAATCATGCGCAGgtcactactctctctcatttgttcaattttttcttatttatttatcattttgctgtttctttttcctattgtgtctcggat--ctctacattgattcgccacMapped 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|164141110|gb|ES065491.1|ES065491EST: GTCTTGCTTCTCAAGATCCACACCATCAAATCCTGCGCTG GTGTTTCATTGAAGACTCAAGAACTCTATGCCATTGTCTTTGCAACGCGTT
genomic: GTCTTGCTTCTCAAGATCCACACCATCAAATCCTGCGCTGgtatgtacat ... atctttgcagGTGTTTCATTGAAGACTCAAGAACTCTATGCCATTGTCTTTGCGACGCGTT
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 |
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CGATCGAAGATGAACATTTTCAGATTAGCTGGTGATATGACTCACCTAGCCAGTGTTCTTGTCTTGCTTCTCAAGATCCACACCATCAAATCCTGCGCTGgtatgtacatttcctcaattcgtttctgaaatttagctgaaatgcgattagattaggctaattctcgatgtttgttcgatttgcttgacgttgacatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agctgaaa