DreINT0113255 @ danRer10
Intron Retention
Gene
ENSDARG00000075509 | phf12b
Description
PHD finger protein 12b [Source:ZFIN;Acc:ZDB-GENE-110628-2]
Coordinates
chr15:24625714-24626047:+
Coord C1 exon
chr15:24625714-24625796
Coord A exon
chr15:24625797-24625908
Coord C2 exon
chr15:24625909-24626047
Length
112 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
TGTAATTTAATCTCTCGTAGAAC
3' ss Score
7.25
Exon sequences
Seq C1 exon
GTGCTGAAATGGATGTGTGCCTTACAAACTACGGTCATTGCAATTATGTTTCTGGGAAACATGCCTGCATCTTTTATGATGAA
Seq A exon
GTGAGTGTTATCCAGTAATTCTGTCTCATTAAAGGCACTTAGGAAGCTCATTTTACTTAATTGTCCAGATCAAGTGAGATGAATGTTCTGAATGTAATTTAATCTCTCGTAG
Seq C2 exon
AACACGAAGCATTATGAGCTTCTGAACTACAGTGAACATGGGACAACTGTAGACAATGTGCTTTACTCGTGTGACTTCTCCGACAAACCAAACATCACATCACCTAGTGCACTCGCATCGAAAGTACAAAACAGCATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075509:ENSDART00000155900:13
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=0.064
Domain overlap (PFAM):
C1:
PF0049821=FHA=FE(42.9=100)
A:
NA
C2:
PF0049821=FHA=PD(46.0=61.7)
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:
TGCTGAAATGGATGTGTGCCT
R:
TGCTGTTTTGTACTTTCGATGCG
Band lengths:
218-330
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]