RnoINT0121167 @ rn6
Intron Retention
Gene
ENSRNOG00000006709 | Pzp
Description
pregnancy-zone protein [Source:RGD Symbol;Acc:628643]
Coordinates
chr4:161808692-161809213:-
Coord C1 exon
chr4:161808995-161809213
Coord A exon
chr4:161808823-161808994
Coord C2 exon
chr4:161808692-161808822
Length
172 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTTGCTGTTGTTGTTTTCAGACA
3' ss Score
9.75
Exon sequences
Seq C1 exon
GATACAGTGGTGGCTCTTCAAGCCCTCTCCAAATATGGAGCAGCCACTTTTACGAAAAGTAATAAAGAAGTGTCGGTCACCATCGAGTCTTCAGGGACCGTCTCTGGGACTCTCCATGTTAACAATGGCAATCGCCTGCTGCTGCAGGAAGTCAGGCTGGCAGATCTGCCCGGAAATTACATCACCAAAGTGTCAGGGTCAGGATGTGTGTACCTCCAG
Seq A exon
GTGAGACCTCCAGGGCCCAGAGGATGGGCTTGTGAGAGAGGGAATGCCAAGGCTTACATTTAATTGCACAATCGAAATGGAAATGTGTGCTAAGGGAATACCTGAGTTACTTGAAGGAGGCTGCAAGGTGTTCCGGTGCTGAGATAAAAAACTTTGCTGTTGTTGTTTTCAG
Seq C2 exon
ACATCTCTAAAGTACAACATCCTTCCGGAGGCAGAAGGAGAAGCGCCCTTCACTCTGAAGGTCAACACTCTCCCCTTAAACTTTGATAAGGCAGAACATCACAGAAAGTTCCAGATCCACATCAACGTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006709:ENSRNOT00000009467:30
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=0.000
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=PD(4.9=17.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTTCAAGCCCTCTCCAAA
R:
CTTCTCCTTCTGCCTCCGGAA
Band lengths:
250-422
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]