Sequence
atgc intronic sequence ATGC exonic sequenceGAAATGGATCGAGGAGCTTGAAACGCAACCTTGGTCCAGAGCTAAGAAAGCAAATGATCAGCCTGGTTTTAACTGGGCACTTAACAAAACAGCTAATCAGgtatgttctttcttcctagttccacagtaaaacagtaacttctcttctctgtaaattggtctcaataagtagttactacacaattggtgaattcaatgaa...
Basic information
species | Arabidopsis thaliana |
transcript | AT4G01220.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G01220.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv13s0019g04760.t01 (Vitis vinifera), 5'ss of exon 3
GAAATGGATCGAGGAGCTTGAAACGCAACCTTGGTCCAGAGCTAAGAAAGCAAATGATCAGCCTGGTTTTAACTGGGCACTTAACAAAACAGCTAATCAGgtatgttctttcttcctagtt-ccacagtaaaacagtaacttctcttctctgt-aaattggtctcaataagtagttactacacaattggtgaattcaatgaa
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AGACTGGATTGAGGAACTTCAAGCTCAGCCATGGTCCAATGCGAAGAAATCAAATGATCAGCCTGCCTTTAACTGGGCACTAAACAGAACTGCAGCACAGgtatgttctgtgcaccttcctgttactgcctttcttgcatttttatgaaccattaaatcattatatattggaagttcatgcatt-tttatgcaattgttga-
upper sequence: AT4G01220.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv15s0046g01630.t01 (Vitis vinifera), 5'ss of exon 3
GAAATGGATCGAGGAGCTTGAAACGCAACCTTGGTCCAGAGCTAAGAAAGCAAATGATCAGCCTGGTTTTAACTGGGCACTTAACAAAACAGCTAATCAGgtatgttctttcttcctagtt-ccacagtaaaac-agtaacttctctt-ctctgtaaattggtct-caataagtagttactacacaattggtgaattcaatgaa
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GAAGTGGATTGAGGAACTTCAAGCTCAGCCATGGTCCAGAGCAAAGAAGTCAAATGATCAGCCTGCTTTTAACTGGGCATTAAACAGGACTGCAGGAGAGgtttgttatgcttgccttcttgctattgcctttccagtatcttctataactcagtatgcagttatgtaccaggaaacttaggcatgttctttttatt--atg--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|86088022|gb|DR383781.1|DR383781EST: CAAATGATCAGCCTGGTTTTAACTGGGCACTTAACAAAACAGCTAATCAG GTGGATATGTACTTGCTTTCGCAGGCAGCTTTCCCAACAGGAGGATTGTAT
genomic: CAAATGATCAGCCTGGTTTTAACTGGGCACTTAACAAAACAGCTAATCAGgtatgttctt ... tgttctacagGTGGATATGTACTTGCTTTCGCAGGCAGCTTTCCCAACAGGAGGATTGTAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAATGGATCGAGGAGCTTGAAACGCAACCTTGGTCCAGAGCTAAGAAAGCAAATGATCAGCCTGGTTTTAACTGGGCACTTAACAAAACAGCTAATCAGgtatgttctttcttcctagttccacagtaaaacagtaacttctcttctctgtaaattggtctcaataagtagttactacacaattggtgaattcaatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tctttctt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctagttcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cagtaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcttctc