Sequence
atgc intronic sequence ATGC exonic sequenceTTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATGgtaatctgaagaacactcccttctcattatgttgagcaattgaacgtagggaaatatcaaaaaatgttttgttgctctgtgtatatctgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G36860.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G36860.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA11G06650.2 (Glycine max), 5'ss of exon 7
TTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATGgtaatctgaagaacactcccttctcattatgttgagcaattgaa-cgtagggaaatatcaaaaaatgttttgttgctctgtgtatatctgtag
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GTTGTTAACAGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAGgtattcagccattaacatgatccagaaaagtttatatatttgtttcatggtgccaagttggacaaaatttctgggtttttgacag--------
upper sequence: AT4G36860.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA01G38640.1 (Glycine max), 5'ss of exon 10
TTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATGgtaatctgaagaacactcccttctcattatgttgagcaattgaacgtagggaaatatcaaaaaatgttttgttgctctgtgtatatctgtag
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GTTGTTAACAGGATCAATCCTAGCTCATGAGATGATGCATGCATGGCTTAGGCTTAAAGgtattcagccattaacatgatgcagaaagtttatatttttgtttcatggtgccaagttggacaaaatttctggattttatacag--------
upper sequence: AT4G36860.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv04s0023g01030.t01 (Vitis vinifera), 5'ss of exon 12
TTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATGgta----atctg---aagaacactcccttc--tcattatgttgagcaattgaacgtagggaaatatcaaaaa---atgtttt------gttgctctgtgtatatctgtag------------------------------------------
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GTTGCTGACTGGGTCGATCCTGGCTCACGAGATGATGCATGCATGGCTCCGACTGAAAGgtactttatctgttcagtgacaaatgttgcattgacaatagtttctatttaagttctctgaaatatgattaatccatgttcttcaaatattgcacttcctgtgtttccattcataatgagaagctagaaattaataaccaagtgtttggcag
upper sequence: AT4G36860.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: Vv04s0023g01040.t01 (Vitis vinifera), 5'ss of exon 15
TTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATGgtaatctgaagaacactcccttctcattatgttgagcaattgaacgtagggaaatatcaaaaaatgttttgttgctctgtgtatatctgtag--------------------------------------------------------------
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ATTGCTGACCGGGACGATCCTGGCTCACGAGATGATGCATGCATGGCTCAAACTGAAAGgtacttatccgttcagtgacaaat-attgcgttga-caattgtttctattcaagccctctgaaatgtg--attaatctatgttcttcaaatgttgcacttcctgttttccattcataatgagaagctagaaattaataaccaagtgtttggcagMapped 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|86086879|gb|DR382638.1|DR382638EST: CGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATG GGTATCCAAATCTTAGACCAG
genomic: CGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATGgtaatctgaa ... atatctgtagGGTATCCAAATCTTAGACCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTGTTAACCGGGTCAATCCTTGCTCATGAGATGATGCATGCATGGCTTCGACTAAATGgtaatctgaagaacactcccttctcattatgttgagcaattgaacgtagggaaatatcaaaaaatgttttgttgctctgtgtatatctgtag
- - - - - - - - - - - - - - GAGATG