Special

DreINT0113253 @ danRer10

Intron Retention

Gene
Description
PHD finger protein 12b [Source:ZFIN;Acc:ZDB-GENE-110628-2]
Coordinates
chr15:24623361-24623703:+
Coord C1 exon
chr15:24623361-24623519
Coord A exon
chr15:24623520-24623604
Coord C2 exon
chr15:24623605-24623703
Length
85 bp
Sequences
Splice sites
5' ss Seq
ACGGTAACA
5' ss Score
6.72
3' ss Seq
TTCTTTCTGTCTTTTTGCAGCAC
3' ss Score
12.08
Exon sequences
Seq C1 exon
AAGTGGACATGAATAAGCTGGATGAGGAGTTGATCAGACTCATGGCTTGGCAGAGGATCCAGCAGCTGTTGTCTCCCAAATCACTTCAAGCCTCGAGTAAATGTGGGACTCCTCCAGCTGCCACTGCCTCTCTGTCCAAACCCTCCCTGCATGCAGACG
Seq A exon
GTAACAATCCTCTCACTCTCATGTCGAGGCTGTGCTAAGTGTTCCTCCAGTCGTAATATATAGCATTCTTTCTGTCTTTTTGCAG
Seq C2 exon
CACAAAAAAGGGACGTACAAGCTCGAGCAGTACTATGTCCTTTAACAGGAAAGGGGGCAGCTATCAACATGTGCTATAGAACTCTGTACATAGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075509:ENSDART00000155900:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.111 A=NA C2=0.000
Domain overlap (PFAM):

C1:
NO
A:
NA
C2:
PF0049821=FHA=PU(7.9=14.7)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
ALTERNATIVE
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCCAGCAGCTGTTGTCTCC
R:
AGCACATGTTGATAGCTGCCC
Band lengths:
179-264
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]