RnoINT0121172 @ rn6
Intron Retention
Gene
ENSRNOG00000006709 | Pzp
Description
pregnancy-zone protein [Source:RGD Symbol;Acc:628643]
Coordinates
chr4:161804784-161805685:-
Coord C1 exon
chr4:161805644-161805685
Coord A exon
chr4:161804946-161805643
Coord C2 exon
chr4:161804784-161804945
Length
698 bp
Sequences
Splice sites
5' ss Seq
CTGGTACAG
5' ss Score
3.91
3' ss Seq
CTAACTATTCTTCTGTCTAGACT
3' ss Score
5.52
Exon sequences
Seq C1 exon
ATGAATTCGCCATTGAAGAATACAGCGCCCCTTTCAGTTCTG
Seq A exon
GTACAGTATACTCGAATCCTATGCCAACCTGAAGAAAGCAAAAGAGTCCCTGCTTGGGCCTCCATACTAGACTGTTTTTTGAGTTTAACGTTTTCTATTATTAATTGGACTGATTCAAGTACACTGTAGAAATTCTTAACAGAAAAAAAAATGCTAGTGAACTCTAATTACTACTACCTGGACTAACTTGTTTTTAACTAAATTCATGAATTTGAGAGATGTATTTGAGAGAGAACATGAAGTTGGGTAGAGAGGAAGGCAGAAAGGACCTGAGAGGAGAAAGAATATGGGCAAGATACATAAAATTCTTCAAGTTAAGAAATACGTATAGAAAATTTGTGAGACATAAAAATGGAATCACCTAATGTTTACATTCTATACACACACAGTTTTCTAAGACACATTTAAATGTACATTAAATTCAACCGCACTGCAATTAGTCATGTGGCACGGCAGGAGAGCTCTCACACAGAAGAAATTCCTTTGGGTTGATTGACAGGCTCACTCTTTCACAACGAATCATTTTCGACAATACCTTTGGTTCTCATTTTTAAACTTGGAGAAAATCTGAGAAAATCTGAGAAAATGTTTCGTCATTAAAGACAATTAAAATTAAAGATCTATAATTAAATATTAGAATTCGTTCTTTTGGTAGGTGTGTGACTTCCTCTGATATTTCTAACTATTCTTCTGTCTAG
Seq C2 exon
ACTCTGAACAAGGAAATGCTTAAAAATAGGAACCTATAGATTTCCTCAGAAAGACTCCTCCACACGTGAAGAACCAAGACAGCAAGATAAATGGAAAGGAATTAAAAACCCATAAAATTTATATGTTGAATAAAGTTACGACATTTACAAACTGTGTTTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006709:ENSRNOT00000009467:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.067 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF076779=A2M_recep=PD(8.0=46.7)
A:
NA
C2:
NO
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATTCGCCATTGAAGAATACAGCG
R:
AAACACAGTTTGTAAATGTCGTAACT
Band lengths:
198-896
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]