RnoINT0121153 @ rn6
Intron Retention
Gene
ENSRNOG00000006709 | Pzp
Description
pregnancy-zone protein [Source:RGD Symbol;Acc:628643]
Coordinates
chr4:161818221-161819017:-
Coord C1 exon
chr4:161818843-161819017
Coord A exon
chr4:161818450-161818842
Coord C2 exon
chr4:161818221-161818449
Length
393 bp
Sequences
Splice sites
5' ss Seq
GGAGTGAGT
5' ss Score
6.05
3' ss Seq
TTCTTTCTCCTCCACACCAGCTT
3' ss Score
5.42
Exon sequences
Seq C1 exon
AGCCTCAAGCCTTAGCTATGTCTGCAATCCCAGGAGCCGGCTACAGATCAAGCAACATTAGGACCAGCTCAATGATGATGATGGGCGCATCAGAAGTAGCTCAGGAGGTAGAAGTAAGAGAGACAGTGCGGAAGTACTTCCCGGAAACCTGGATCTGGGACATGGTGCCGCTGGA
Seq A exon
GTGAGTTGTGTGTCCCCTGGGATTTAGCATAGGTGAAGGTGGGACTCCTGCTCTGGGACTTTGGGTTCTGATCCTTTCCATTCTACAATCTCAGAGCAAAACAACCCTTCTCCCTCTTATGTGGTTCCCAGTCAACAGAAGTAACAGAAAATAGGAAACTGTCTTTTCCCCCAGGGAAAAAGAAAGGGAGCAAGGAAAACGGAGAGGGAGGGAGAAGAAAATAAAAATGGGAGGGACAGACAGAGAGAGAAGAGGGGAGGAGAGAATGTCCAGAGACCAAGAGAAACATCAGCATCCTAGGTTTAGTCCCGTGTTTTCTGTGCTTGGTTTCTGAGCTATCACTTTCTGACTGTCTGTCTGTCTGTCTTTCCTGTTCTTTCTCCTCCACACCAG
Seq C2 exon
CTTATCCGGTGACGGTGAGTTGCCGGTAAAGGTCCCTGACACCATCACTGAGTGGAAGGCCAGTGCATTCTGCTTGTCTGGAACTACTGGCCTTGGTCTCTCCTCCACCATCTCCCATAAAGTCTTCCAGCCCTTCTTCCTGGAGCTCACTCTCCCCTACTCTGTGGTTCGAGGCGAAGCATTTATCCTCAAAGCTACCGTACTCAACTACATGCCTCACTGCATTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006709:ENSRNOT00000009467:18
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:
PF0020717=A2M=PU(9.9=15.3)
A:
NA
C2:
PF0020717=A2M=FE(83.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATGTCTGCAATCCCAGGAGC
R:
TAAATGCTTCGCCTCGAACCA
Band lengths:
344-737
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]