Sequence
atgc intronic sequence ATGC exonic sequenceGAGCCAGCTCGTTCAAGATATAAATGATCTAACAGGAGAAGGAAATATTGAAAGTATGCTCTCTGTGGAAATGGGTCTAAAGGAGCTAACTTCTTTAAAGgtttattctcatcctctctggttctggttcatgcgtccctctttcattttctcatggactatacttgttcttttgaag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G13260.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G13260.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: GLYMA10G44630.1 (Glycine max), 5'ss of exon 12
GAGCCAGCTCGTTCAAGATATAAATGATCTAACAGGAGAAGGAAATATTGAAAGTATGCTCTCTGTGGAAATGGGTCTAAAGGAGCTAACTTCTTTAAAGgtttattctcatcctctctggttctggttcatgcgtccctctttcatttt-ctcatggactatacttgttcttttgaag------------
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GAGCAAACTTGTTCCTGACTTAAATGATCTTACTGGAGAAGGAAATATTGAAAGTATGCTTTCAGTTGAAATGGGACTAAAGGAGCTTGCTTCTTTAAAGgttttcttcaaatattttaaggtttcattcacattcctcagttacaagcaattcagtcatctaagttttttttgtcatgttcctctgcaag
upper sequence: AT5G13260.1 (Arabidopsis thaliana), 5'ss of exon 12
lower sequence: Vv01s0244g00070.t01 (Vitis vinifera), 5'ss of exon 12
GAGCCAGCTCGTTCAAGATATAAATGATCTAACAGGAGAAGGAAATATTGAAAGTATGCTCTCTGTGGAAATGGGTCTAAAGGAGCTAACTTCTTTAAAGgtttattctc---atcctc---tctggttctggttcatgcgtccctc----tttcattttctcatggactatacttgttcttttgaag-------------
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GAGCAAACTGGTTCAGGACTTGAATGATCTAACTGGAGATGGAAACATTGAGAGTATGCTTTCAGTTGAAATGGGTTTGAAGGAGCTTGCTTCCTTGAAGgtttccttttttaattctaacatcaaattttgtttcatctacatctaatcatctagttttattatg-atgccatttccttgtgtgtagtttgatttttgaaMapped 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|125269175|gb|EL283260.1|EL283260EST: CTAAAGGAGCTAACTTCTTTAAAG GTTGAAGTTGCCATTACTATTACATTAGCCCAGCTAAGGTTGGCCAATACT
genomic: CTAAAGGAGCTAACTTCTTTAAAGgtttattctc ... tcttttgaagGTTGAAGTTGCCATTACTATTACATTAGCCCAGCTAAGGTTGGCCAATACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGCCAGCTCGTTCAAGATATAAATGATCTAACAGGAGAAGGAAATATTGAAAGTATGCTCTCTGTGGAAATGGGTCTAAAGGAGCTAACTTCTTTAAAGgtttattctcatcctctctggttctggttcatgcgtccctctttcattttctcatggactatacttgttcttttgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT