Sequence
atgc intronic sequence ATGC exonic sequenceAGAGAGCAAGGGATACAAGAAATTCAGCAGCAAATTGGCGAGGTGCACGAGATCTTCAAAGACTTGGCAGTGTTGGTGCACGATCAAGGAAACATGATAGgtaaaactgattccaactcttgttatgctaaaactctcacttatgtcttcaaaacctaagacgtaagacctatttttgtgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G17730.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G17730.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA16G13410.1 (Glycine max), 5'ss of exon 5
AGAGAGCAAGGGATACAAGAAATTCAGCAGCAAATTGGCGAGGTGCACGAGATCTTCAAAGACTTGGCAGTGTTGGTGCACGATCAAGGAAACATGATAGgtaaaactgattccaactcttgttatgct-----aaaactctcacttatgtcttcaaaacctaagacgtaagacctatttttgtgtag-------------
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AGGGAGCAAGGCATTCAAGAAATACAGCAGCAAATTGGTGAAGTTAATGAGATCTTCAAAGATCTTGCTGTACTTGTCCATGAGCAAGGAGCCATGATTGgtaa--tttattccattcccttttgttcttcctggttacttgtatctttattttactgtacctgctcacattacctagtgccactaaatttcattttgtag
upper sequence: AT4G17730.2 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv02s0012g01850.t01 (Vitis vinifera), 5'ss of exon 5
AGAGAGCAAGGGATACAAGAAATTCAGCAGCAAATTGGCGAGGTGCACGAGATCTTCAAAGACTTGGCAGTGTTGGTGCACGATCAAGGAAACATGATAGgtaaaactgattccaactcttgttatgctaaaactctcacttatgtcttcaaaacctaagacg-taagacctatttttgtgtag--------
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AGGGAGCAGGGAATACAAGAAATCCAGCACCAAATTGGCGAGGTGAATGAGATTTTCAAAGATCTTGCTGTGCTGGTCCATGAGCAAGGAGTTATGATTGgta--actcat-ctgactctc-ttgt-ctagagtt--cgctattccctttctgattcaggctgctgactctcatttcaatttctcttttcagMapped 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|86080247|gb|DR376004.1|DR376004EST: GATCTTCAAAGACTTGGCAGTGTTGGTGCACGATCAAGGAAACATGATAG ATGATATTGGTACTCACATCGATAACTCTTACGCTGCAACTGCCCAAGGAA
genomic: GATCTTCAAAGACTTGGCAGTGTTGGTGCACGATCAAGGAAACATGATAGgtaaaactga ... ttttgtgtagATGATATTGGTACTCACATCGATAACTCTTACGCTGCAACTGCCCAAGGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAGAGCAAGGGATACAAGAAATTCAGCAGCAAATTGGCGAGGTGCACGAGATCTTCAAAGACTTGGCAGTGTTGGTGCACGATCAAGGAAACATGATAGgtaaaactgattccaactcttgttatgctaaaactctcacttatgtcttcaaaacctaagacgtaagacctatttttgtgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA