DreINT0073761 @ danRer10
Intron Retention
Gene
ENSDARG00000008979 | golga1
Description
golgin A1 [Source:ZFIN;Acc:ZDB-GENE-040426-1237]
Coordinates
chr8:41466784-41467196:-
Coord C1 exon
chr8:41467137-41467196
Coord A exon
chr8:41467045-41467136
Coord C2 exon
chr8:41466784-41467044
Length
92 bp
Sequences
Splice sites
5' ss Seq
CTGGTGTGT
5' ss Score
4.96
3' ss Seq
CCCTCATATTTGTGTAACAGAAG
3' ss Score
6.98
Exon sequences
Seq C1 exon
ACAATAAAGCAGCTACAGCAGAGGCTTGCAGAACTGAAAAGGACACTACAGAAAGAACTG
Seq A exon
GTGTGTGTTTTTATTCACATTGATTGTATCAACCTAATTCAACAGTCCATGTCAGCTCACAGTAAACATTTCCCCTCATATTTGTGTAACAG
Seq C2 exon
AAGCTGAAACCAGATCCTGACTCTGAGATGAAGGAAAGACTTCAGGATGGGAGACAGGAGAGATCTGCAGAAAAGACCGTCTTGGAGACACCGATGCCCACCGCAGCTCCAAGCCCAGCTCCAGGACTCAATCAAACCCCAGGCCCAATTACCCCCAACACCACCGTCACCAACAGTTCAGACATCACAGACACCAGAGAAATCAACTTCGAGTACCTCAAACACGTGGTGCTGAAGTTCATGTCATCCAGAGAGGCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000008979:ENSDART00000098578:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.762 A=NA C2=0.713
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0146515=GRIP=PU(46.7=24.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGAGGCTTGCAGAACTGAA
R:
TGATTGAGTCCTGGAGCTGGG
Band lengths:
177-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]