Sequence
atgc intronic sequence ATGC exonic sequenceCAATCAAATTTTGACGGTTGTTCTTGAAGTGCTCGATGACGAAGATTTTTCAATCAAAGAGCTTGCTCTTTCATTGATTTCTGAAATGCTAAAGAGCCAGgtttgttccttacgtagactcgtcaatcaatcatctctaacacattaagcgtgggtctgtgaaattacaaacaccttttcttacatgtatatatcttgcttattaatttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G20190.1 |
intron # | 16 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G20190.1 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: GLYMA03G32710.1 (Glycine max), 5'ss of exon 16
CAATCAAATTTTGACGGTTGTTCTTGAAGTGCTCGATGACGAAGATTTTTCAATCAAAGAGCTTGCTCTTTCATTGATTTCTGAAATGCTAAAGAGCCAGgtt--tgttccttacgtagactcgtcaatcaatcatctctaacacattaagcgtgggtctgtgaaattacaaacaccttttcttacatgtatata----tcttgcttattaatttcag------------------------------------------------------
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CAATCAGATTTTGACAGTTGTGCTTGAGGTGCTGGATGATTCAGATTCCTCAGTCAAAGAGCTTGCTCTTTCACTGATAGTTGAAATGCTTAAAAACCAGgttcctactccttttgtcccattttagttttggggattatgctcttgatcatgtcaatgcttacaattgtgcatattttctttttgtagcataaggcattattggaaattaaatttatatcataaagatttttctgattttaaaatttaacttctacttttattgttcacag
upper sequence: AT2G20190.1 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: GLYMA19G35460.1 (Glycine max), 5'ss of exon 16
CAATCAAATTTTGACGGTTGTTCTTGAAGTGCTCGATGACGAAGATTTTTCAATCAAAGAGCTTGCTCTTTCATTGATTTCTGAAATGCTAAAGAGCCAGgtt--tgttccttacgtagactcgtcaatcaatcatctctaacacattaagcgtgggtctgtgaaattacaaacaccttttcttacatgtatatatct-tgcttattaatttcag----------------------
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CAATCAGATTTTGACAGTAGTGCTTGAGGTGCTGGATGATTCAGATTCCTCAGTCAAAGAGCTTGCTCTTTCACTGATAGTTGAAATGCTTAAAAACCAGgttcctactccttttgttccatttttgttttggggattatgctcttgattacgtcagtacctacaattgtgcatatctttcctcagtcaaagatctttctgattttaaaatttaacttctacttttattgttcacag
upper sequence: AT2G20190.1 (Arabidopsis thaliana), 5'ss of exon 16
lower sequence: GLYMA13G19230.1 (Glycine max), 5'ss of exon 16
CAATCAAATTTTGACGGTTGTTCTTGAAGTGCTCGATGACGAAGATTTTTCAATCAAAGAGCTTGCTCTTTCATTGATTTCTGAAATGCTAAAGAGCCAGgtttgttccttacgtagactcgtcaatcaatcatctctaacacattaagcgtgggtctgtgaaattacaaacaccttttcttacatgtatatatcttgcttattaatttcag-------------------------------
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CAATCAGATTTTGACAGTTGTGCTTGAGGTGCTGGATGATTCAGATTCCTCAATCAGAGAGCTTGCTCTGTCTCTGATAGTTGAAATGCTGAAAAACCAGgttcgtactcctttttgtgctattttttgttggataatgcccttgttcatatcagtacttgcaactgcacatatgccccct--catataagctttttgagacataataagagaccgtttaattgttgtgtttattgtttccagMapped 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|125208294|gb|EL223248.1|EL223248EST: CAATCAAAGAGCTTGCTCTTTCATTGATTTCTGAAATGCTAAAGAGCCAG AAAGATGCCATGGAAGACTCTGTTGAAATAGTGATCGAAAAGCT
genomic: CAATCAAAGAGCTTGCTCTTTCATTGATTTCTGAAATGCTAAAGAGCCAGgtttgttcct ... ttaatttcagAAAGATGCCATGGAAGACTCTGTTGAAATAGTGATCGAAAAGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CAATCAAATTTTGACGGTTGTTCTTGAAGTGCTCGATGACGAAGATTTTTCAATCAAAGAGCTTGCTCTTTCATTGATTTCTGAAATGCTAAAGAGCCAGgtttgttccttacgtagactcgtcaatcaatcatctctaacacattaagcgtgggtctgtgaaattacaaacaccttttcttacatgtatatatcttgcttattaatttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT