Sequence
atgc intronic sequence ATGC exonic sequenceGCATGATTTTCAGTTCTTTAACATTCAGAGGCTGACTGAGCTGTATGAAAAAGAAGTGCGATACCTTATGgtgggaataacaagtttatcaacatgttatgtaatttatgcagcttttgtgtctgattagttctgaatagcaatttgtttcactctggtttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G18620.1 |
intron # | 18 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G18620.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA17G02640.1 (Glycine max), 5'ss of exon 18
GCATGATTTTCAGTTCTTTAACATTCAGAGGCTGACTGAGCTGTATGAAAAAGAAGTGCGATACCTTATGgtgggaataacaagtttatcaacatgttatgtaattt---atgcagctt-ttgtgtctgattagttctg--aatagcaatttgtttcactctggtttcag
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GCATGACTTCCAGTTTTTCAACACACACAGGCTGAGTGAGCTGTATGAAAAGGAAGTTCGATACCTCATGgtaggtaacctaaacttactga----ttaaacaatttcaggtttagcttattcaatgtgataaatgctgctgctaatatgctgttttaaaaaaat--cag
upper sequence: AT5G18620.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA07G38050.2 (Glycine max), 5'ss of exon 18
GCATGATTTTCAGTTCTTTAACATTCAGAGGCTGACTGAGCTGTATGAAAAAGAAGTGCGATACCTTATGgtgggaataacaagtttatcaacatgttatgtaattt---atgcagctt-ttgtgtctgattagttctgaatagcaatttgtttcactctggtttcag
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GCATGACTTCCAGTTTTTCAACACACACAGGCTGAGTGAGCTGTATGAAAAGGAAGTTCGCTACCTCATGgtgggtaacctaaacttactga----ttaaacaattccaggtttagcttattcaatgtgtatagatgctgctgctaatatactgtttaaaaaaatcag
upper sequence: AT5G18620.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv05s0020g01780.t01 (Vitis vinifera), 5'ss of exon 18
GCATGATTTTCAGTTCTTTAACATTCAGAGGCTGACTGAGCTGTATGAAAAAGAAGTGCGATACCTTATGgtgggaa--------taacaagtttatcaac----atgttatgtaatttatgcagcttttgtgtctgattagttctgaatagcaatttgtttcactctggtttcag--
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GCATGATTTCCAATTCTTTAACACACAAAGGCTGAATGAGTTGTATGAGAAAGAAGTGCGGTACCTCATGgtgtgtaatctttcttgccatgtcttgctgctttggtgatccataacctactttgtatgcacactttattcatttttgtttctattttttttt--ttaaatttcacagMapped 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|125026253|gb|EL098522.1|EL098522EST: GTATGAAAAAGAAGTGCGATACCTTATG CAAGCACATCAGAAAGCTCAAATGAAAGACACAATTGAGGTTGATGAACCT
genomic: GTATGAAAAAGAAGTGCGATACCTTATGgtgggaataa ... ctggtttcagCAAGCACATCAGAAAACTCAAATGAAAGACACAATTGAGGTTGATGAACCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCATGATTTTCAGTTCTTTAACATTCAGAGGCTGACTGAGCTGTATGAAAAAGAAGTGCGATACCTTATGgtgggaataacaagtttatcaacatgttatgtaatttatgcagcttttgtgtctgattagttctgaatagcaatttgtttcactctggtttcag
- - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT