DreINT0073760 @ danRer10
Intron Retention
Gene
ENSDARG00000008979 | golga1
Description
golgin A1 [Source:ZFIN;Acc:ZDB-GENE-040426-1237]
Coordinates
chr8:41467137-41467752:-
Coord C1 exon
chr8:41467597-41467752
Coord A exon
chr8:41467197-41467596
Coord C2 exon
chr8:41467137-41467196
Length
400 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TTTATTTATTTTTTTACCAGACA
3' ss Score
7.25
Exon sequences
Seq C1 exon
GTGTCTGATCTGGAGAGTGAGGTGTTGAGTTTAACAGCACATTCACATGCAGATGAGTGTGAAGGTGAGCAGAATGGGACAGTTACTGTAAGTGATCTCGACCAGTTACAAAAGGTCAATAAAGACCTGGAGCAACAACTGGCTGAAAAAAACAAG
Seq A exon
GTGAGGGCAAAGAGTTGTTGGGTCAGTGTCGTTGTCTAAGTTTAATAATACATGGTAAATCACTTAGCATGTGACTTAACATGTAAATCACTCGTGATTGATGCTTCTTCTGTGTCTGGTGTGAACACAGCATTATTTGTATGGTAGTAATTCCACATGCAATCCTTTTCTTTTATACTTTTTAAAATTTTATCCAATATGATAAATAAATAATTTTATAATTCTATTAGAAATAGTTCTTTTTTGTGGGTTTTAATATAATTAAATAAAGCAGTTCCTATAAATAAAAAATATTATTATTTTATAGTTTATTATTATAAATTATTATTGTTTCTAAAAATGATTGCTCTAATTATTAAAGAATTATTATTATTATTAATTTTATTTATTTTTTTACCAG
Seq C2 exon
ACAATAAAGCAGCTACAGCAGAGGCTTGCAGAACTGAAAAGGACACTACAGAAAGAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000008979:ENSDART00000098578:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.923 A=NA C2=0.762
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCTGATCTGGAGAGTGAGGT
R:
CAGTTCTTTCTGTAGTGTCCTTTTCA
Band lengths:
215-615
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]