RnoINT0110329 @ rn6
Intron Retention
Gene
ENSRNOG00000009566 | Phf12
Description
PHD finger protein 12 [Source:RGD Symbol;Acc:1305731]
Coordinates
chr10:64817608-64818664:-
Coord C1 exon
chr10:64818566-64818664
Coord A exon
chr10:64817691-64818565
Coord C2 exon
chr10:64817608-64817690
Length
875 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGACTCCTGCCACCTTGCAGGAG
3' ss Score
8.6
Exon sequences
Seq C1 exon
TGCAAAGGAAGGAGGTACAAGCCCGAGCTGTGTTCTACCCCCTCTTAGGGTTGGGAGGAGCTGTGAACATGTGCTATCGAACCCTCTACATCGGGACAG
Seq A exon
GTGAGCCAGCCAGGAGTCTGGGAGGGGCACTGGATCTTCAGCCTAAAGATGGACACTTAAAGAAACCCTTTCAGAGGTTGATGGGTCTAACTAGTGAGTGTCTAGGCAAGGAGACTAAAAATCCAGACAATCCAATGGGGTACTTCCTTGGCTCAGGCCTTTTGCTTTAACTGCCTCTAGGCAGAGTCTGGAACACTATAAGGAGAAACTTGAAAAGAGGACACTTCCTTATTCTCAGGGTGTAATAGACTCACACATAACCCTCCTTTGTTAGTTTATTTTGGTCATCACGATGATTTAGGATAGGATCTCTGTAGTCCAGAGTGGTCTTGAACTCATGTCTGTCCTCTTGCCTCAGCCTCTCTAGTACTACAACTACTGGTATTGCCCACCACACCCCCAATCACCCCTTATCCTAGAAATTGCCCTTTTTTTTTTTTTTTTTTTCCGGAGCTGGGGACCGAACCCAGGGCTTGCGCTTCCTAGGCAAGCGCTCTGCCACTGAGCCAAATCCCCAACCCTAGAAATTGCCCTTTAAAGTGCCCTGGATTTACCATCCTTTTCAGTAACTTACTGCTCTGTCTGGGTAGCTGCCATGTATTCAATGCAAATTAAGTTTTAGAACAACAAAGGGAATTGATGAACTCAACAACATATATCTGTAATCCCAGTACTTCTGGAATGGATGCAGGGAGATCAAGAGTTCAAAGCTGCCCATTATTATAAAGGAAAGGAAAAAGAAAAGAGGTTCTGAGCTACCTTGAAGTTTCTACTAGCAACCACCCAGAAACTAACTCCCCTCTCTTTTACCTTCCCAACACATATACCTCACAAGTCTGTTCTCTCCCTTTCCCTTGACTCCTGCCACCTTGCAG
Seq C2 exon
GAGCTGACATGGATGTGTGCCTTACAAACTATGGTCACTGTAACTACGTGTCCGGGAAACATGCCTGCATATTCTACGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009566:ENSRNOT00000056234:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0049821=FHA=PU(7.7=14.7)
A:
NA
C2:
PF0049821=FHA=FE(41.5=100)
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:
TGCAAAGGAAGGAGGTACAAGC
R:
CTCATCGTAGAATATGCAGGCA
Band lengths:
182-1057
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]