DreINT0113252 @ danRer10
Intron Retention
Gene
ENSDARG00000075509 | phf12b
Description
PHD finger protein 12b [Source:ZFIN;Acc:ZDB-GENE-110628-2]
Coordinates
chr15:24623117-24623519:+
Coord C1 exon
chr15:24623117-24623224
Coord A exon
chr15:24623225-24623360
Coord C2 exon
chr15:24623361-24623519
Length
136 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
ATTCTTTTTCCAATGTATAGAAG
3' ss Score
3.65
Exon sequences
Seq C1 exon
AGAACAAAGTGAGCCCTGACTTAATGTCTGCTGGAAAAGGCTCAACGCTCCCGTCTTCAATAGGCAGCTTATACAGCTACATCAAGAATGTGGTTCAAGGCGATACAG
Seq A exon
GTGAGAAATCAACATCAATCAGAAGTGCCTTACTATATTTTGCATTTGCTTTCACCGCTATATTAGAACTTGTTTATAATAAACTAAACAATTCCCAGTAGAAACAATAACAGAATATTCTTTTTCCAATGTATAG
Seq C2 exon
AAGTGGACATGAATAAGCTGGATGAGGAGTTGATCAGACTCATGGCTTGGCAGAGGATCCAGCAGCTGTTGTCTCCCAAATCACTTCAAGCCTCGAGTAAATGTGGGACTCCTCCAGCTGCCACTGCCTCTCTGTCCAAACCCTCCCTGCATGCAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000075509:ENSDART00000155900:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.405 A=NA C2=0.111
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCTGACTTAATGTCTGCTGG
R:
CAGGGAGGGTTTGGACAGAGA
Band lengths:
245-381
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]