RnoINT0121159 @ rn6
Intron Retention
Gene
ENSRNOG00000006709 | Pzp
Description
pregnancy-zone protein [Source:RGD Symbol;Acc:628643]
Coordinates
chr4:161812807-161813525:-
Coord C1 exon
chr4:161813442-161813525
Coord A exon
chr4:161812984-161813441
Coord C2 exon
chr4:161812807-161812983
Length
458 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
TATTTCTCTGTATTCCTCAGGCG
3' ss Score
8.92
Exon sequences
Seq C1 exon
ATGCTGAGTTACAGGAAAATTGGACACTGGATCTTCCAGCCAATGTGGTTGAAGGATCTGCCAGGGCTACACAGTCCGTTTTGG
Seq A exon
GTAAGTCTGTAGCAGTTGCCCCTCACTGTGATACTGTGTGTGACTAATGATGTCATTGAGCAACGGATGTGAGCCTGAGAAAAGGAGTGGCAAGTCCAGGGCTACCCTGTGCATCAGTGAGCGACGGGTTGAACAGATGCTGTATGCAGCAGCATGCTTCGGTCCACTCTGACAGCTAAGAAGCACTGTGCTCTCATCTTCCAGTGATCCACGGGGTGACAGAATATCCTAGAGGCTATGGAAATGATAATTCCGTTTCTCCAGACATCATGACCCATCAGAAAAGATGTTGTCTCTTGCCATTTGGTTTCTTTCCTGCTCTCTATGTGTCCTGGAGCTGCCTGCTTTTCTTTTTTCTTGTATAACCTTTTCGTCTTTCCTCCTGTTAGTAACGTGGTCTCTCGGTTGTATTTTCCTACTACACTACAGCCGCTTCCGTATTTCTCTGTATTCCTCAG
Seq C2 exon
GCGATATACTAGGCTCTGCGATGCAAAACCTCCAGAATCTTCTCCAGATGCCCTATGGCTGTGGGGAACAAAACATGGTCCTCTTCGTCCCTAACATCTACGTTCTGGAGTATCTCAATGAGACACAGCAGCTGACAGAGGCGATCAAGTCCAAGGCCATTAGCTACCTCATCAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006709:ENSRNOT00000009467:23
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:
PF105694=Thiol-ester_cl=WD(100=51.7),PF076789=A2M_comp=PU(0.4=1.7)
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:
TGCTGAGTTACAGGAAAATTGGACA
R:
TGAGGTAGCTAATGGCCTTGGA
Band lengths:
254-712
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]