DreINT0113261 @ danRer10
Intron Retention
Gene
ENSDARG00000075509 | phf12b
Description
PHD finger protein 12b [Source:ZFIN;Acc:ZDB-GENE-110628-2]
Coordinates
chr15:24621093-24621608:+
Coord C1 exon
chr15:24621093-24621225
Coord A exon
chr15:24621226-24621443
Coord C2 exon
chr15:24621444-24621608
Length
218 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
TTTGTTCATTTCCGTTTTAGCTA
3' ss Score
9.35
Exon sequences
Seq C1 exon
GAGCTGCAGGGTGGCTCCTCTGATCCAGTGTGATTACTGTGCGCTTCTCTTCCACATGGACTGTCTGGACCCCCCTCTCACTGCCATGCCCACTGGGAGATGGATGTGTCCCAACCACGTAGAACACATGGTG
Seq A exon
GTGAGTGTCTGGCCAGATTTTGTTTGTTTCTTCTAACACACTTTACTATTTTGGAAGCAATAATAACAGCTTGTAATATACTATATAAATATATATTTGGATTTGAAAAGATACCCTGAAGTGCAGCCTTATTTGTTTTTGTTTGGTTTTGTGATTGCTACACTAATCCTAAACTTATGGACTATAATGTGAAATAAATTTGTTCATTTCCGTTTTAG
Seq C2 exon
CTAAACCAAAAGAACGTGACCCTCAGCACGCGTTGCCAGGTCTTTGATCATTTCCAGGACCGATTGTCTCAACATGCGGTCAAAGTGGACTTCCTGCGGTGGGTTCACCGCCAGCATCATCCCAACCGCAGGGGTGTTCGGCACATCAAGAAAAAGACATTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075509:ENSDART00000155900:6
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=0.145
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PD(71.1=60.0),PF0062824=PHD=PD(84.8=86.7)
A:
NA
C2:
NO
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:
GAGCTGCAGGGTGGCTCC
R:
TGTCTTTTTCTTGATGTGCCGA
Band lengths:
292-510
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]