RnoINT0110330 @ rn6
Intron Retention
Gene
ENSRNOG00000009566 | Phf12
Description
PHD finger protein 12 [Source:RGD Symbol;Acc:1305731]
Coordinates
chr10:64817022-64817690:-
Coord C1 exon
chr10:64817608-64817690
Coord A exon
chr10:64817161-64817607
Coord C2 exon
chr10:64817022-64817160
Length
447 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
ATCCTTATCTCCCTCCTCAGAAT
3' ss Score
9.21
Exon sequences
Seq C1 exon
GAGCTGACATGGATGTGTGCCTTACAAACTATGGTCACTGTAACTACGTGTCCGGGAAACATGCCTGCATATTCTACGATGAG
Seq A exon
GTGAGAGGCAGAGATGGGTGGGAGGGAGCTTTCCTAGCCTGAGGTCTTTCCCCAGCACTGGGTTCTGGCCACGGGCAGAGGCAGGTGTGAAAGGCTTGGCATTCCACCATGGCAGCCTGCTTTGGTGCAGGAGCAAGCTGTTGTTACAGCCGATGTTGCTCACAGAAACATTTGAGGGAGGCCACCTCAAAACAGGGAAGGGACCAGAGTAGAAGGAAGCCAAGCTCTGTATGTCCCTGCGTTTCATCATAATTGTGTGCCAGTGACTATCAGATCAATAGGAGCCAGTTCTGAGGAGCAGAGAGAGGGAATATGGAGTCACTAGGCTTTCAGAGGTGAGGTTTTGGTGGATTCTGAAAGAGGCGGGCTGTAACCAAGGAAGAGCATGACCTTGCTAGGCTCCCCAGGCTTCACACAGCAACTACACATCCTTATCTCCCTCCTCAG
Seq C2 exon
AATACCAAACATTATGAGCTGTTAAACTACAGTGAGCACGGGACAACGGTGGACAATGTGCTGTATTCATGTGACTTCTCTGAGAAGACCCCGCCAACCCCCCCAAGCAGTATTGTTGCCAAAGTACAGAGTGTCATCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009566:ENSRNOT00000056234:13
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=0.170
Domain overlap (PFAM):
C1:
PF0049821=FHA=FE(41.5=100)
A:
NA
C2:
PF0049821=FHA=PD(47.7=66.0)
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:
GAGCTGACATGGATGTGTGCC
R:
TGATGACACTCTGTACTTTGGCA
Band lengths:
222-669
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]