HsaINT0135672 @ hg19
Intron Retention
Gene
ENSG00000126838 | PZP
Description
pregnancy-zone protein [Source:HGNC Symbol;Acc:9750]
Coordinates
chr12:9316264-9316855:-
Coord C1 exon
chr12:9316729-9316855
Coord A exon
chr12:9316386-9316728
Coord C2 exon
chr12:9316264-9316385
Length
343 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGT
5' ss Score
8.73
3' ss Seq
TTCAATATTCCTTGTTTTAGGGA
3' ss Score
9.33
Exon sequences
Seq C1 exon
GTCAGTGTGCAGCTGAAAGCCTCTCCAGCCTTCCTAGCTTCCCAAAATACAAAGGGAGAAGAATCCTATTGTATCTGTGGAAATGAGAGACAAACCTTGTCTTGGACAGTGACTCCTAAAACTCTGG
Seq A exon
GTGAGTGACAGTACCCAAAAGGGCCTATCAATCAACAAGGACGGTGGCTGTCTGAGTACTTTTTTCATCATATTCTCTCTTTTATTTGCCATAGATATAATTCTATAAAGTTAGTTTTTTTTCCTATTTCTATCCACTATGACCTCCTCCCACTGTTCTCACCCAAGCTAGTCCCCAGAATCACTATCTTGGACATTGGCTACTTAGTATACATTAACCTTGTGGGTTTCTTTTTTTTTAGCCTTATTTTCTATTCTGGACAACTATAAGTTTAAGGTGCAGCCCTTAAAGGTGATTGGACTATCAAAGTGGATACTCATGTTTTCAATATTCCTTGTTTTAG
Seq C2 exon
GGAATGTGAACTTCTCAGTGAGTGCAGAGGCAATGCAGTCCTTAGAACTCTGTGGAAATGAGGTTGTTGAGGTCCCTGAGATTAAAAGAAAAGACACAGTCATCAAAACCCTGTTGGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000126838-PZP:NM_002864:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0020717=A2M=PD(4.4=9.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTGCAGCTGAAAGCCTCTC
R:
CCAACAGGGTTTTGATGACTGTG
Band lengths:
240-583
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)