Sequence
atgc intronic sequence ATGC exonic sequenceAATGGTAAACAAATGGTGCAAGAAGGAGCTTTAACTGCTCTTGCTTCAGTGGCTGATTCATCACAGgtatttgtaaagaagttgtgttgcatctattgttttccctacatgcaactcttgatctaagtctaacataatctaaatttgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G19820.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G19820.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os03g49420.2 (Oryza sativa), 5'ss of exon 3
AATGGTAAACAAATGGTGCAAGAAGGAGCTTTAACTGCTCTTGCTTCAGTGGCTGATTCATCACAGgtatttgtaaagaagttgtgttgcatctattgttttccctacatgcaactcttgatctaagtctaacataatctaaatttgtag
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ACTGGAAACCAAATGGTGCAAGAAGGTGCTTTAACTGCTTTAGCATCAGCTGCAGATTCTTCTCAGgtac-----aagaggaaatatt---tttgaaggttttcgggccagca-ttcttgctcaaagttttgca-atcttattgtttcag
upper sequence: AT5G19820.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA08G12120.1 (Glycine max), 5'ss of exon 4
AATGGTAAACAAATGGTGCAAGAAGGAGCTTTAACTGCTCTTGCTTCAGTGGCTGATTCATCACAGgtatttgtaaagaagttgtgttgcatctattgttttccctacatgcaactcttgatc--taagtctaacataatctaaatttgtag
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AATGGTAAGCAGATGGTGCAAGAAGGTGCCTTAACTGCTTTGGCATCAGTTGCTGATTCTTCTCAGgtattttgtgaacttctttgttcaatcaac-atatgcaatttatttt-cttttgatcactcatttaattattatgttctttcttag
upper sequence: AT5G19820.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA05G28950.2 (Glycine max), 5'ss of exon 6
AATGGTAAACAAATGGTGCAAGAAGGAGCTTTAACTGCTCTTGCTTCAGTGGCTGATTCATCACAGgtatttgtaaagaagttgtgttgcatctat-----tgttttccctacatgcaactcttgatctaagtctaacataatctaaatttgtag
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AATGGTAAGCAGATGGTGCAAGAAGGTGCCTTAACTGCTTTGGCATCAGTTGCTGATTCTTCTCAGgtattttgttaacttctttgttcaatcaacatttataatttattttcttttgatcactcatttaa--ttattatggtctttcttag---
upper sequence: AT5G19820.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv06s0004g00500.t01 (Vitis vinifera), 5'ss of exon 4
AATGGTAAACAAATGGTGCAAGAAGGAGCTTTAACTGCTCTTGCTTCAGTGGCTGATTCATCACAGgtatt-tgtaaag-aagttgtgttgcatctattgttttccctacatgcaactcttgatctaagtctaacataatctaa-atttgtag
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AATGGAAAACAAATGGTGCAAGAGGGGGCCTTGACTGCTTTAGCGTCTGTTGCTGATTCATCTCAGgtattatatattttaaaatatgcttccattatggttttct-tataaatgagc---------agcctaacacttttgagtatcaatagMapped 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|164078274|gb|ES196878.1|ES196878EST: GCAAGAAGGAGCTTTAACTGCTCTTGCTTCAGTGGCTGATTCATCACAG GAACACTT-CAAAAGTACTATGATACTGTCATGCCTTATCTCAAAA
genomic: GCAAGAAGGAGCTTTAACTGCTCTTGCTTCAGTGGCTGATTCATCACAGgtatttgtaa ... aaatttgtagGAACACTTTCAAAAGTACTATGATACTGTCATGCCTTATCTCAAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATGGTAAACAAATGGTGCAAGAAGGAGCTTTAACTGCTCTTGCTTCAGTGGCTGATTCATCACAGgtatttgtaaagaagttgtgttgcatctattgttttccctacatgcaactcttgatctaagtctaacataatctaaatttgtag
- - - - - - - - GCAAGA
- - - - - - - - - AAGAAG
- - - - - - - - - - - AAGGAG
- - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT