DreINT0066858 @ danRer10
Intron Retention
Gene
ENSDARG00000020596 | fam73a
Description
family with sequence similarity 73, member A [Source:ZFIN;Acc:ZDB-GENE-041010-193]
Coordinates
chr2:8882904-8883229:-
Coord C1 exon
chr2:8883120-8883229
Coord A exon
chr2:8883040-8883119
Coord C2 exon
chr2:8882904-8883039
Length
80 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGC
5' ss Score
4.33
3' ss Seq
AATGGCACGTGCTCTTTCAGGTG
3' ss Score
9.24
Exon sequences
Seq C1 exon
AGAGTGACAGTCAAAGTGTGCCTCAGAACTCAGAGAACCCCTACACGTGTAATGTGGTGTCCGGGGCCCTGTACAACAAGCTTTCAGGCTCACTGCCAAGTCTGGTTTCT
Seq A exon
GTAAGCAACATTATTATTTTTGGAACGTTGAGTAAAATAAGTTTCACAGTGAGAGGTTATAATGGCACGTGCTCTTTCAG
Seq C2 exon
GTGAGGAGCAGGCACTCCTCTAGCAGCTCTACGTGTGCTAATGGTTCCAATTGTTGGGAAGAAGCAGGAGACGCCGCTGACGTCTGTAACCTGCTCAGCCTCCCTGTCGCCACCCCAGAGAATCTCTACCTGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000020596:ENSDART00000010257:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.270 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF102654=DUF2217=FE(22.9=100)
A:
NA
C2:
PF102654=DUF2217=FE(28.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCCCTGTACAACAAGCTTT
R:
TAGAGATTCTCTGGGGTGGCG
Band lengths:
175-255
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]