Sequence
atgc intronic sequence ATGC exonic sequenceCTAAAGCATATGGAAGAGTTGATGTTGATGGCTCTAGATATCTTCTTGGTGACCATGCTGGAATGATTCATCTGCTTGTTATAACGCACGAGAAAGAAAAgtgagtgtgcatgtgtgcttactcttacatccatccatattcgaaataattaaaagctctttagaacttatttactttgtatttgtgtctgaag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G05420.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G05420.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GLYMA05G30530.1 (Glycine max), 5'ss of exon 10
CTAAAGCATATGGAAGAGTTGATGTTGATGGCTCTAGATATCTTCTTGGTGACCATGCTGGAATGATTCATCTGCTTGTTATAACGCACGAGAAAGAAAAgtgagtgtgcatgtgtgcttactcttacatccatccatattcgaaataattaaaagc-tctttagaacttatttactttgtatttgtgtctgaag----------------------------------------
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CAAAAGCCTATGGAAGAGTTGATCCTGATGGTTCTAGATATTTACTTGGTGACCATACAGGGTTGCTTAGCCTACTTGTAATAACCCATGAGAAAGAAAAgtatgtgatctctcattctcgtcatca-gtatat---tgtttgaataaacaatgtgtatttttataaaaaaaacacaatggaccactattttaactgttgaatcttatggtttgtcatttacatttattttgtag
upper sequence: AT4G05420.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 10
CTAAAGCATATGGAAGAGTTGATGTTGATGGCTCTAGATATCTTCTTGGTGACCATGCTGGAATGATTCATCTGCTTGTTATAACGCACGAGAAAGAAAAgtgagtgtgcatgtgtgctt-------actctta-catccatccatattc-----gaaataattaaaagctctttagaacttatttactttgtatttgtgtctgaag----------------------------------------------
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CAAAGGCCTATGGGAGGGTTGATGCTGATGGTTCTAGATACTTACTTGGGGATCATGCGGGGCTTCTTCACCTACTTGTTATAACCCATGAGAAAGAAAAgtgagtgaccatttgttcttttatcctatttttatcatctaactacttgccctggaaaatcagtgctgggtttataaaataaagaagaaacttacttaagaccagatggaatgtgtatcacttttctgagggtcatttgtatttatcatgtagMapped 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|116456285|gb|EG498877.1|EG498877EST: GACCATGCTGGAATGATTCATCTGCTTGTTATAACGCACGAGAAAGAAAA GGTCACTGGCCTAAAAATTGAGCTTTTGGGTGAAACATCTATTGCATCGAC
genomic: GACCATGCTGGAATGATTCATCTGCTTGTTATAACGCACGAGAAAGAAAAgtgagtgtgc ... gtgtctgaagGGTCACTGGCCTAAAAATTGAGCTTTTGGGTGAAACATCTATTGCATCGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTAAAGCATATGGAAGAGTTGATGTTGATGGCTCTAGATATCTTCTTGGTGACCATGCTGGAATGATTCATCTGCTTGTTATAACGCACGAGAAAGAAAAgtgagtgtgcatgtgtgcttactcttacatccatccatattcgaaataattaaaagctctttagaacttatttactttgtatttgtgtctgaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA