HsaINT0123881 @ hg19
Intron Retention
Gene
ENSG00000109118 | PHF12
Description
PHD finger protein 12 [Source:HGNC Symbol;Acc:20816]
Coordinates
chr17:27237244-27238255:-
Coord C1 exon
chr17:27238130-27238255
Coord A exon
chr17:27237388-27238129
Coord C2 exon
chr17:27237244-27237387
Length
742 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TCTTTCTCTTTGGCTAATAGAAA
3' ss Score
6.16
Exon sequences
Seq C1 exon
ATGGCAAGGTCAGCCCCGGCACGTTATCCATAGGAAGCGCTTTAACCGTACCCTCTTTCCCAGCCAACTCTACTGCCATGGTGGACCTCACCAACTCACTTCGAGCATTTATGGATGTCAATGGAG
Seq A exon
GTGAGTGAATGAGCTGCTGCTGTTCCACCGTTTGCTATGTTGAAGGTGCTATTCCTATACAGCATTCAGCTCATTTCAGAAAGGGAGGGAAGGGACACCTGATCCCAGAGGCCTAGGGGGAGATGGGAATGAGGAGTATCCTTTTGGATGGGGGGGCGGGGTGAAAAAGAAAGCTCCTTCTGTAGCTCTGCCTTCTACATGTGCATATACACATAATCAAAGATGAAGGGAGGACAGAGCCAAGCTGAACCAGTGAGACGAGAACAAAATCACTTTAGGCAGATCACCTGGATTTGCAGAATAAAACTAAGATCCTCACTCCCAAAGGAGGGACCTCATCTGTGGGAAACCCCCAAAGTCCAGGAGAACAGGGACAGATCTTGATCTCTGTGAACACAAGGTGGGTAGAAAGTTCAAGTCTCAATATCAGACATCCAGGCCCTCCCCCACAGACAGGCAAGTGGTTTATTCCACTCTGCCTTTCTAGGGGCACTTTAATTAAAATCAGTCCACCCAACTACAGGAGGCAGCTGCACAGGCTGCATTGGGGCCCATCTCACTGCAAATGGCAAGTGAGATGCCCAGCTGCAGATCCTTGTACGCTCTGCACTCAATGCTGTTTGAGTAAAAATCACTTGGCTGGATTTTAGAAATGCCAAACTATTTGCTCTGTGACCCTGATTTGCTTCCACATTCCACTTCCCATCTCAGCTGCTTTTTAATCTTTCTCTTTGGCTAATAG
Seq C2 exon
AAATCGAGATAAATATGCTGGACGAGAAGCTGATCAAGTTTCTGGCCTTGCAGAGAATACATCAGCTTTTCCCCTCCCGGGTCCAACCTTCACCGGGCAGTGTCGGGACACATCAGCTGGCTTCTGGAGGGCACCACATAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000109118-PHF12:NM_001033561:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.337 A=NA C2=0.212
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCACGTTATCCATAGGAAGCG
R:
TCTATGTGGTGCCCTCCAGAA
Band lengths:
251-993
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)