MmuINT0023980 @ mm10
Intron Retention
Gene
ENSMUSG00000040225 | Prrc2c
Description
proline-rich coiled-coil 2C [Source:MGI Symbol;Acc:MGI:1913754]
Coordinates
chr1:162708853-162709686:-
Coord C1 exon
chr1:162709529-162709686
Coord A exon
chr1:162709112-162709528
Coord C2 exon
chr1:162708853-162709111
Length
417 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATA
5' ss Score
8.55
3' ss Seq
GTGTGATTTTGGTTTTCCAGGAG
3' ss Score
8.73
Exon sequences
Seq C1 exon
AAGAAGAACCAATTTTCACTAGGCAGGACAGCAATCGCAGTGAAAAGGAGACCACACAAGTGGTACAAGAAGCAGAACCTGAATCGGGGGCTCAACCTCGACCTGGCTATTTCAAACAGTTTCAGAAATCATTGCCACCACGATTTCAGCGTCAGCAG
Seq A exon
GTAATACTACTAAAACCAAAAATACTTTACCTCATATATGGGATTGGAAATAGATATCTTATCTTTCAGGATCTGATAATATAATATAAAACAAAATACATAAAGCATAGGAACTTACCTTAGTTCCTTTTTTCTTTGTAGTACACTTGTTGAGAATTGGTTGTTGAGAAGTTAGTTGACTTTCTCTATCATGTCTTTTTTGTCTTAAGCTTTACTCATAGACACATCTTCTACTTCTAGGAAATGATGAGATGCTTATGTGAATTATAAGAAATTACTGTAACTTATTTGGTCTTTTGCCAACTCTGTGCTGATTGTTTTTATCTTTAAATTTCCCAAACACCTTTGTTTTCAAATACGGTTACACTAATTAATTATAGAATAGAAATGTCAGTAAGTGTGATTTTGGTTTTCCAG
Seq C2 exon
GAGCAGATGAAACAGCAACAGTGGCAGCAGCAGCAGCAGCAGCAGCAGCAAGGTGTGCTTCCACAGACTGTGCCCTCACAGCCGTCTAATGGTTCAGTCCCTCCTCCACCACACAGACCCCTTTACCAGCCAATGCAACCCCACCCTCAACATCTGGCTTCTATGGGTTTTGACCCAAGGTGGCTCATGATGCAGTCCTATATGGATCCTCGAATGATATCAGGAAGGCCTGCTATGGACATTCCACCCATTCATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040225:ENSMUST00000182149:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTAGGCAGGACAGCAATCG
R:
TAGGACTGCATCATGAGCCAC
Band lengths:
342-759
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types