RnoINT0121168 @ rn6
Intron Retention
Gene
ENSRNOG00000006709 | Pzp
Description
pregnancy-zone protein [Source:RGD Symbol;Acc:628643]
Coordinates
chr4:161808215-161808822:-
Coord C1 exon
chr4:161808692-161808822
Coord A exon
chr4:161808306-161808691
Coord C2 exon
chr4:161808215-161808305
Length
386 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
TCTCTGTGTGTTATCTACAGCTA
3' ss Score
10.21
Exon sequences
Seq C1 exon
ACATCTCTAAAGTACAACATCCTTCCGGAGGCAGAAGGAGAAGCGCCCTTCACTCTGAAGGTCAACACTCTCCCCTTAAACTTTGATAAGGCAGAACATCACAGAAAGTTCCAGATCCACATCAACGTAAG
Seq A exon
GTAAATCCTAAATTATAAGCAGTCGATTTATAGAACATGTAAAGAAAAAACAGGTTAACTTCTGTGGAAGAAATGCATTGTGCAAAGTTAGGCTTAACAAAAATGGGCTCTTGTATTTGTTAACAAGGACATTTCCTTAACTCTTGATGAAAGGCCTTAACATTGAGAATATTTCTCAGAAATACACACACATACATAAACATGCACCTATATGTACACACACACATATATGTTCTAGCTGGAGAGAGGAGAGGAAAATGGTGAGGTTTCCACACAACTACACAGATATGATAGAAAGCGAGCTGAGTGGTGAAGTTTAGACTTCTGGTGTCAGTGAGTCCTGAGGAATGCTGTAGGGAGGACTGATCTCTGTGTGTTATCTACAG
Seq C2 exon
CTACATTGGAGAACGACCCAACTCCAACATGGTCATTGTTGATGTGAAGATGGTGTCAGGCTTCATACCTGTGAAGCCATCCGTGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006709:ENSRNOT00000009467:31
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:
NO
A:
NA
C2:
PF076779=A2M_recep=PU(25.0=71.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATCTCTAAAGTACAACATCCTTCC
R:
CTTTTTCACGGATGGCTTCACA
Band lengths:
222-608
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]