Sequence
atgc intronic sequence ATGC exonic sequenceAGAAGCCTCTAGAGGGATTTCATATAGTTGTTGATGCTGGAAATGGAGCTGGAGGATTTTTTGCTgtaagtccaatgcttatgtttcttactttcagttgtagataggacttgaaactgaattgtctgtccaggcagttcgttgtttagacctgtctggagttgattttttcttaatctgaaacctgacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G17530.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G17530.3 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA20G32030.1 (Glycine max), 5'ss of exon 7
AGAAGCCTCTAGAGGGATTTCATATAGTTGTTGATGCTGGAAATGGAGCTGGAGGATTTTTTGCTgtaagtccaatgcttatgtttcttactttca--gttgtagataggacttgaaactgaattgtctgtccaggc-agttcgttgtttagacctgtctggagttgattttttcttaatctgaaacctgacag
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AGAAACCATTGGGGGGTTTCCATATAGTTGTTGATGCAGGCAATGGAGCAGGAGGCTTTTTTGCTgtaag-ctacctttaatctcctcaactttcattgttctcttgataaccatcaagtataatgcattttcacttgaaatatctatataaaagattgtggacac----------------------------
upper sequence: AT5G17530.3 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA10G35490.2 (Glycine max), 5'ss of exon 7
AGAAGCCTCTAGAGGGATTTCATATAGTTGTTGATGCTGGAAATGGAGCTGGAGGATTTTTTGCTgtaagtccaatgcttatgtttcttactttca--gttgtagataggacttgaaactgaattgtctgtccaggc-agttcgttgtttagacctgtctggagttgattttttcttaatctgaaacctgacag
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AGAAACCATTGGAGGGTTTCCATATAGTTGTTGATGCAGGCAATGGAGCAGGAGGCTTTTTTGCAgtaag-ctgcctttaatctcctcaactttcattgttctcttgataactatcaagtatgatgcattttcacttgaaatatctatataaaagattgtggacac----------------------------
upper sequence: AT5G17530.3 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv13s0019g04370.t01 (Vitis vinifera), 5'ss of exon 8
AGAAGCCTCTAGAGGGATTTCATATAGTTGTTGATGCTGGAAATGGAGCTGGAGGATTTTTTGCTgtaagtccaatgcttatgtttcttactttcagttgtagataggacttgaaactgaattgtctgtccaggcagttcgttgtttagacctgtctggagttgattttttcttaatctgaaacctgacag
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AGAGGCCATTGGAGGGGTTGCATATAGTTGTTGATGCAGGGAATGGAGCAGGAGGATTTTTTGCTgtaggtttcat--tcacactctttacttcaacatttt--tagcattttttcctcaggtgt------aaggatataactgtaggaaattttctgaaagc-attttttaatat---------------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|116424752|gb|EG467344.1|EG467344EST: GATTTCATATAGTTGTTGATGCTGGAAATGGAGCTGGAGGATTTTTTGCT GCCAAGGTGCTTGAGCCTTTAGGAGCAATTACTTCTGGCAGTCAATTTCTG
genomic: GATTTCATATAGTTGTTGATGCTGGAAATGGAGCTGGAGGATTTTTTGCTgtaagtccaa ... aacctgacagGCCAAGGTGCTTGAGCCTTTAGGAGCAATTACTTCTGGCAGTCAATTTCTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAAGCCTCTAGAGGGATTTCATATAGTTGTTGATGCTGGAAATGGAGCTGGAGGATTTTTTGCTgtaagtccaatgcttatgtttcttactttcagttgtagataggacttgaaactgaattgtctgtccaggcagttcgttgtttagacctgtctggagttgattttttcttaatctgaaacctgacag
- - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT