DreINT0068521 @ danRer10
Intron Retention
Gene
ENSDARG00000063682 | fhod3a
Description
formin homology 2 domain containing 3a [Source:ZFIN;Acc:ZDB-GENE-060503-633]
Coordinates
chr19:739576-739873:+
Coord C1 exon
chr19:739576-739670
Coord A exon
chr19:739671-739761
Coord C2 exon
chr19:739762-739873
Length
91 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGTGTGTGTGTGTGTTTTAGTTT
3' ss Score
11.36
Exon sequences
Seq C1 exon
CTCTGGGTCAGATCATGCTGTATGTGGACGGTATGAACGGGGTCATAGGTCACAACGAGTCTATCCAGTGGCTCTACCAGCTCATTGGCTCAAAG
Seq A exon
GTGAGCAGTGTGTTTAATGAACAATATGATCAGAATGAGAGTAAACACAGAGGTCTGATGCTGTGTGTGTGTGTGTGTGTGTGTGTTTTAG
Seq C2 exon
TTTCGTCTGGTGGTGAAGACGTCTCTGAAGCTGCTGCTGGTGTTTGTGGAGTATTCAGAGTCCAATGCTGCACTGCTCATCCAGGCCATAGACACTGTGGACAACAAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000063682:ENSDART00000146050:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF063718=Drf_GBD=FE(25.4=100)
A:
NA
C2:
PF063718=Drf_GBD=PD(12.3=39.5)
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:
GGACGGTATGAACGGGGTCAT
R:
TGTCCACAGTGTCTATGGCCT
Band lengths:
173-264
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]