Sequence
atgc intronic sequence ATGC exonic sequenceCGATTTATTTCAACCTGGAGATAGAAAAGGAGCGATAATTGACAGTGGTACAACCTTGGCCTATCTTCCAGAGATAATCTATGAACCATTGGTGAAGAAGgtacagttcaagaaaatatccagttcctttaagaaattgaactgcagggtctcataaatctggttcttttattag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G05840.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G05840.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA18G51920.1 (Glycine max), 5'ss of exon 5
-CGATTTATTTCAACCTGGAGATAGAAAAGGAGCGATAATTGACAGTGGTACAACCTTGGCCTATCTTCCAGAGATAATCTATGAACCATTGGTGAAGAAGgtaca----gttcaagaaaatatccagttcct----ttaagaaattgaactgcagggtctcataaatctggttcttttattag
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CAGATACATCAACACAAGGAGACAGAAAAGGGACAATAATTGACAGTGGTACAACCTTGGCCTATCTGCCTGAAGGAATTTATGAGCCGCTAGTATATAAggtacataaaagtcttaaattttgcaaattactaaatttctaaatttacattgcag--ttgtctgaattgctttctcttgtta-
upper sequence: AT1G05840.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA08G29040.1 (Glycine max), 5'ss of exon 5
CGATTTATTTCAACCTGGAGATAGAAAAGGAGCGATAATTGACAGTGGTACAACCTTGGCCTATCTTCCAGAGATAATCTATGAACCATTGGTGAAGAAGgtaca----gttcaagaaaatatccagttcct---ttaagaaattga-actgcagggtctcataaatctggttcttttattag-------
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AGATACATCAGCACAAGGAGACAGAAAAGGGACAATAATTGACAGTGGTACAACCCTGGCCTATCTGCCTGAAGGAATTTATGAGCCGCTAGTATATAAGgtatataaaagtcttaaattttgcaaatttctaaattactaaatttacattacagtttattgtacagctgtctgaattgctttctcttagMapped 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|86085590|gb|DR381349.1|DR381349EST: CCATTGGTGAAGAAG ATAACCTCGCAGGAGCCTGCTCTAAAAGTTCACATAGTGGATAAAGATTAT
genomic: CCATTGGTGAAGAAGgtacagttca ... cttttattagATAACCTCGCAGGAGCCTGCTCTAAAAGTTCACATAGTGGATAAAGATTAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGATTTATTTCAACCTGGAGATAGAAAAGGAGCGATAATTGACAGTGGTACAACCTTGGCCTATCTTCCAGAGATAATCTATGAACCATTGGTGAAGAAGgtacagttcaagaaaatatccagttcctttaagaaattgaactgcagggtctcataaatctggttcttttattag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG