RnoINT0121163 @ rn6
Intron Retention
Gene
ENSRNOG00000006709 | Pzp
Description
pregnancy-zone protein [Source:RGD Symbol;Acc:628643]
Coordinates
chr4:161810887-161811414:-
Coord C1 exon
chr4:161811340-161811414
Coord A exon
chr4:161811065-161811339
Coord C2 exon
chr4:161810887-161811064
Length
275 bp
Sequences
Splice sites
5' ss Seq
ACTGTGCGT
5' ss Score
4.94
3' ss Seq
GTTTTCATCTTCTTTTACAGCAC
3' ss Score
11.04
Exon sequences
Seq C1 exon
GGTGGTGTGGATGATGAAGTGACACTCTCTGCCTATATCACCATTGCTCTGCTGGAGATGCCCCTGCCTGTCACT
Seq A exon
GTGCGTATATACCCATCCCCATAGCTCCTTCACAAATGTAAGGAATAAAAGAAGAAAGAAATCACAGAACCATAACCCCCTCAAAACTCCAGTTTTGATGGTCTTTTATCTTGGTACATTTCACTGTGACAGGATTTAGCAAGTCCTTTTAAAAAGATTTAGAGGAGACTCCTCCCTGGTTGTCACAGTGTGGCCCTCAAGCCGGGGTTAACCTGGTGGGTAGCTCATTAGCCTGGTCTTGTAACTCTAAAATTAGTTTTCATCTTCTTTTACAG
Seq C2 exon
CACAGTGTTGTTCGTAATGCTCTATTCTGCCTGGAAACGGCCTGGGCCTCCATCTCAAACAGCCAAGAAAGTCATGTCTACACAAAAGCACTGCTGGCCTATGCCTTTGCCCTGGCAGGAAACAGAGCCAAGCGAAGCGAGGTGCTTGAATCCCTAAACAAAGACGCTGTGAATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006709:ENSRNOT00000009467:27
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=0.083
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(9.0=100)
A:
NA
C2:
PF076789=A2M_comp=FE(22.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGGTGTGGATGATGAAGTGA
R:
CCTCATTCACAGCGTCTTTGT
Band lengths:
253-528
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]