RnoINT0121154 @ rn6
Intron Retention
Gene
ENSRNOG00000006709 | Pzp
Description
pregnancy-zone protein [Source:RGD Symbol;Acc:628643]
Coordinates
chr4:161817503-161818449:-
Coord C1 exon
chr4:161818221-161818449
Coord A exon
chr4:161817630-161818220
Coord C2 exon
chr4:161817503-161817629
Length
591 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
CTGTCTGGGTTTGGGAACAGATC
3' ss Score
5.61
Exon sequences
Seq C1 exon
CTTATCCGGTGACGGTGAGTTGCCGGTAAAGGTCCCTGACACCATCACTGAGTGGAAGGCCAGTGCATTCTGCTTGTCTGGAACTACTGGCCTTGGTCTCTCCTCCACCATCTCCCATAAAGTCTTCCAGCCCTTCTTCCTGGAGCTCACTCTCCCCTACTCTGTGGTTCGAGGCGAAGCATTTATCCTCAAAGCTACCGTACTCAACTACATGCCTCACTGCATTCGG
Seq A exon
GTAAGGGCGCTTCTCTGCAAGTGAGTGGGAACCCCCAACACCTCTCATTACCTAGGGGTCCTCAGGCCTCTCCTAATGCAACACAAGCTGTGTTCTGACTTTGGAAGGGAGCAAGTACTCAGAGAAAAGTTCTCTGACGACAGACTATTTCTATTGAGGACTGTAAATGTTGCTAAATTCAGACGTGGTTTCCACATGATTACTTTTTTCTTTTTGGATATTTGTATGTGTGTGAGAGAGAGAGACAGAGTCTCATTGTGAACACACCCCAGGCTGACCTATAAACTCCCACTTTCCTGACTTAATTAACAGTGTGCTGGAATTACAGTGTGTCGCCATGCCTAACTAAACTACTTCATATGTAAAGTCTGCCTGAAGAAATGTCTCTTCCTCCACTGACACAGAGAACCCCCAGGCATTTACACCATTCCTACAACCCTCAAACCCCCGTATTGCAAACATCTAAACTTTAAAGTATGTGCTAGGATTTATCCATTCTGGAGCACCTCAGTCTCTGGACTTGTCTGCACTCTTCTTGTCAGCTTCTTGCTCCTCTCCTGATTCTTTCTGCCTGTCTGGGTTTGGGAACAG
Seq C2 exon
ATCCATGTGAGCCTAGAGATGTCTCCTGATTTCCTGGCAGTCCCTGTGGGGAGCCATGAAGATTCTCATTGCATCTGTGGAAATGAAAGAAAAACCGTGTCCTGGGCTGTGACCCCAAAGTCGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006709:ENSRNOT00000009467:19
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=FE(83.5=100)
A:
NA
C2:
PF0020717=A2M=PD(4.4=9.3)
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:
GGTGAGTTGCCGGTAAAGGTC
R:
CAGCGACTTTGGGGTCACAG
Band lengths:
342-933
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]