MmuINT0023990 @ mm10
Intron Retention
Gene
ENSMUSG00000040225 | Prrc2c
Description
proline-rich coiled-coil 2C [Source:MGI Symbol;Acc:MGI:1913754]
Coordinates
chr1:162691141-162692624:-
Coord C1 exon
chr1:162692373-162692624
Coord A exon
chr1:162691234-162692372
Coord C2 exon
chr1:162691141-162691233
Length
1139 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TTTCTTTTACTCCTCCACAGGAG
3' ss Score
10.52
Exon sequences
Seq C1 exon
CTTCCAGACTTGAGTCTGGTAGAAAACAAAGAACATAAACCTGGTCCCATTGGAAAGGAACGATCATTAAAAAATAGAAAAGTGAAAGATGCCCAGCAGGTCGAGCCAGAAGGACAAGAGAAACCCAGCCCAGCTGTGGTCAGAAGCACTGATCCTGAAACAGCAAAAGAAACCAAAGCAGTCTCCGAAATGTCTGCTGAAATTGGGGCGATGATCTCAGTCTCCTCTGCAGAGTATGGCTCTGATGCAAAG
Seq A exon
GTAAGTACACACTGACTGCTTATTTATGAGTGACAGGAACATTAATCATGGACTTCTTATGCGGAGCATTTGATTATAATGGTGGTTGTATCGAGCCCTTTTTGGTGACTTTTGTTGTTGTTTGGTTTTGGGTTTTTGAGCCAAGATGTAGCCCCAGCTGGCTGGCTGCCGTGGACCTCTCTCTCTGTAGACCAGGCTGGTCTCTAACTCAGATCCACCTGCCTCCGCCTCCTGAGGGCTGGGGTTACCACCACCTGGCATACAGCAAACTTACTTTGTGATGTTCTATCATACAATGTAAATGTCTCTGCAAAAGGTTACATTTTTACAGAAGTATATCTGTATTTTGCTGAATGGCTTAAATAGAAAACTGTAAAAGATCAGAATTGTCTCCCTTAAGTTTGTAAGCATTCAAAGTTGTCTTTGTCTGGTAGAACTTTATTTTGCCTTCTACTATAATTCAAACTTAAGGTGAGACACACTTGGAACACATCACTGTTTCTGAGGTTGAACACTAAAAGTATTGACTTGTTTTTGGTTGCTACATTGAACGAAAGATATGTATCTTTTAAAATACAGTCAGCTCCCTTATATCTGTGAGTTCAGGATCCATGAATTCAAATCTGGATAAAAAATATTCTCTCTCAAAAATTGGAGGTGTTTTGTTTTGGGTTTGTCTTCATTAAACTATAACATCCAGTGGCAGAACATTTCACTGTATTCCAGGTTATTAGTTATTTAGAGAAAATGCCATAAACCTAAGCATCTGCATCTCTGCAGGCCCGGTATGTAACAAGGTGCGCCTCGAAGGCACGTTCTGTTAGGTGACTAGAGGTAGATAGACACTTGTAGTCATTAGGGGACATAACTCATAGAAAGAAATATTTAGTTTTGCTGATAGCCTTCTACCTCATGCTATGAAAATAGATTTTAAATATGTGTAAAAGTCTAGCAGCAACTGAGATGTTGTCTCTTGAAGGCAGGCGGGTTGATGCTCTTTCAGCCTACTGTTAGTTGGTGGATTCAAGTTTTAGGGCATAGTGGTTTATTATCTCTCTCCTTCTAAAATAGCTTTACTTCTATTAGACTGTCAAAAATGGCCGATAAATTCAGCTTTGTTTTCTTTTACTCCTCCACAG
Seq C2 exon
GAGTCTGTAACAGACTACACCACACCTTCCTCTTCTCTGCCTAACACTGTGGCTACTAATAATGCAAAGATGGAGGATACTTTAGTTAATAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040225:ENSMUST00000182149:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.999 A=NA C2=0.995
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTTGAGTCTGGTAGAAAACAAAGA
R:
TAACTAAAGTATCCTCCATCTTTGCA
Band lengths:
334-1473
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