HsaINT0123934 @ hg19
Intron Retention
Gene
ENSG00000102221 | PHF16
Description
PHD finger protein 16 [Source:HGNC Symbol;Acc:22982]
Coordinates
chrX:46913560-46915601:+
Coord C1 exon
chrX:46913560-46914030
Coord A exon
chrX:46914031-46915483
Coord C2 exon
chrX:46915484-46915601
Length
1453 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
GTTGGGGATTGGGCTTTCAGGTC
3' ss Score
4.51
Exon sequences
Seq C1 exon
TGCTCTATAAAAAGCTGCATCACTGCCTTCCACGTCACCTGTGCCTTTGAGCACGGCCTAGAGATGAAGACCATCCTAGATGAGGGAGACGAAGTGAAGTTCAAGTCATATTGCCTCAAGCATAGCCAAAACAGGCAGAAACTTGGAGAAGCTGAGTACCCCCACCACAGGGCTAAAGAGCAGAGCCAGGCCAAAAGTGAGAAAACCAGCCTGCGGGCACAGAAGCTTCGGGAGCTGGAGGAGGAGTTCTATTCCTTGGTACGAGTGGAAGATGTGGCCGCAGAGCTGGGTATGCCCACGCTAGCTGTGGACTTTATCTATAACTACTGGAAACTGAAGCGGAAAAGTAACTTCAATAAGCCATTATTTCCTCCAAAGGAGGATGAAGAAAATGGGCTGGTGCAGCCAAAAGAGGAAAGCATTCACACTCGAATGAGAATGTTTATGCATCTACGCCAGGACCTGGAGAGG
Seq A exon
GTAAGGTGACCAGCTGTGACTAGTATATAGGCCTCGGTCTGTGTAGAAATGGAGGTCCCACTTCTGGTTTAATAATGGTCAGTCAGCTCATAATAGTGTGGGCTTCTGTGTCCTTGCTTATCTTCTGATCTCTTTATGGCCCCAGACATTGGGCTCTGTGTAAATTCTGACAGGCACATCCAGGGGATTTGGGAGGCCTCGGGTATATGCTCTATGAACTTTACATTTGAAATAAACTCTCATTTGGTTTACTTTTTATTCACTGTTGAGCCTAAATTGGCCCATCCATATTTTACTGACATATTTATGAGACTTTAGGCTGAAGAAAGAGTGAATTTTGTTCAGGAAAACACCAAATTAGAGTTTCACAAACTTGGCACTGTTGACATTTTGGACTGGATAGTTGTTTGTTGTTAGGGGGCTGTCCTTTGTTGTAGGGGCAATTTAAGATGTTTACCAGCATCCCTGGCCTCTACCCACTAGATGCCAGTAGCACCCGCACACACACCCCCAGCGTGACAACCAAAAATGTCTGCAAATTACCAAATTTGCTCTCCAGTTGAGAGCCACTCCACATGATAATTCAATATAACTCATGGTATATTTATCAGGTATCTACTAAATGAGATACTGCAGGGCTTCAAAGGTAAGTTAAGCCCTGTGTTTATCCTAGAGAATTTTCTAATTAAATGTAAATCTATAAATGGCTTGTGTTTTTTTTTCTCTGCTACCAGAATTTGAAAGAGAACTAATAGATTTGGCTCACTTTTAAAAATTTAAGACACTCACATATAGCACCTACTATTACTATTATTGCCAACACTGTCCTAAGCATTTTATAAATATTAATTCATTTAATTCTAACATGCCCATGAAAAACTATTATTATCATCATCACTATTTACAGATGAACAAACTGGGGCAAAGAAAGTTTGTGTAACTTGCCTAGGTAGGGAGTATGAGAGAGAGAGTATTTCACCTTTGTGGCTGTGGAAACTTGGTTGAGCTGAAAGTGTGAGCAAAAAAAACACTTCTAGTCTTCCCAGTGGAACTGTATCCTGCTCGTCCGGCACTGATTAGAAAATTGTACTGGATACAGCCAGCATTGCCATCATTCGTACTCAGGGATCTAAAGGGAAGGCTGAATTGTTAAACCATTATTCAGCTTCCCAACCTGGCTGTGCAAATAAATATCAAGCCCATGACACTGCAAAGAGAGTAGGTTTCAGAAGGCAGATTTGGAGCATTTTGCTTTTACTATTGGTTGATAGATCCCAGAATTGACCATGCTGTGTGAATTCCTGTGGAGTGGGTCTCATTCTGCAGCTCTTGGATTCTGTCTTCTCTCCTCACCCCCACCTGACTTTAGGTCTTTATTTTAGCCAAACAATTTCAGTTGTCAGGTTTGCTTAACATGACAAACATCTCTATTTGTTGGGGATTGGGCTTTCAG
Seq C2 exon
GTCCGAAATCTGTGCTATATGATAAGCAGACGAGAGAAGCTGAAGCTGTCACACAACAAAATACAGGAACAGATCTTCGGTTTGCAAGTCCAGCTTCTTAACCAAGAAATTGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000102221-PHF16:NM_001077445:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.299 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138321=zf-HC5HC2H_2=PD(35.4=25.5)
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:
TAAAGAGCAGAGCCAGGCCAA
R:
GCTTCAGCTTCTCTCGTCTGC
Band lengths:
344-1797
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)