MmuINT1027517 @ mm10
Intron Retention
Gene
ENSMUSG00000040225 | Prrc2c
Description
proline-rich coiled-coil 2C [Source:MGI Symbol;Acc:MGI:1913754]
Coordinates
chr1:162678010-162679607:-
Coord C1 exon
chr1:162679500-162679607
Coord A exon
chr1:162678229-162679499
Coord C2 exon
chr1:162678010-162678228
Length
1271 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
CTTTTTGTTTCTTTTTCTAGGTT
3' ss Score
12.86
Exon sequences
Seq C1 exon
GCAAGAGCAAATCTTACTCAAGCCTCAAATCTTTACTCTGGACAAGTACAGCAGCCTGGTCAGACAAATTTTTATAACACTGCCCAATCCCCCAGTGCTCTCCAGCAG
Seq A exon
GTAAACTATGGCATGGTAAATTTCCTCACTTTTCTATATTATTCTTTGTATTGATTGTTTTGTTGTTAATTTGACATTTATATAGAACCAAGATAGAGGAGGTGGTTTTCAGATGTACACCGGAATGTCGTGGGAATCCCATTAGGTCTATTGGAAGTGGAAGGCGCTTCCTTGACTCCTGTAACAGCTCCTCCTCCTCCTCACTGCATTCTAGGTTCACTTGGTTTATTTAAGCTGGGTTTATAAGAAAGGAATCCATGCATATGGAATTTTGAAAATCATTTATTAAAGAATATAGTACATTCAGTGTTATAGGTGAAAGAAGACTCTAAGATAGTGCTTTAATCCTGCACAAACATCATGACCAAGAAGCAAGTTGGGGAGGAAAGGGTTTATTCAGCTTACACTTCCATACTGCTGTTCATCACCAAAGGAAGTCAGGACAGGAACTCAGAAAGCAGGAGCTGATGCAGAAGCCATGGAGGGATGTTCTTTACTGGCTTAATATAATGTAGCAGAGTAGCACTAAGGGCAGCATCTTAAATGCCCTAGTATAATTGGACTTTTCAATGGGAAGTGACATTCTGGTAGAAGGCTAGAGGAGAAAAGCAAGCCATTAATCTTTTGCTTGCTTTTGTAAGGATGACAGTAATATCAACTTACTGTCAAGTAAGAGTTGTTTTATATAAACTGAAAAGACCTTTTACTTATAAACACTCAATTTGGTGAAACCTGTAAATAATATAGAAATATTGGTGAAAGGAACTTGAGCGATTTTAAGTGTATATTTTCTGGTATTTGATTTGTGCTCTGAGTATATTCAAAGTTAATACACGGTTTTTTTCACTATAGTTAACATATACAAAACTGTAAATCTTGACCTTGGTGTGATAATGAAAGCACCAAATCCCACATTTCTCCAGACTAGTAAGACAACAGATTGTCCCACCTCTCATACAAGAACAGGTATAGTTAGGGCTGATGGGCTGGGTGTGCTGCTTCATACCTTTAATCCCATCACTTGGAAGACAGAGGCACACGAATTTCTGTGAGTTCAAACCAGTCAGGACTACATAGTGAGACCCTGTCTTAAAGGGGAGAAAGCAGAGCTAGTTACTTAACCTAAAAGATTTGTATATACTATATATATTTGAAAGTATTTTACTTACATTTTTAATTTGATGATCTCTTGGTTGTTGGTATTTATTTAGACACAGGCACACAGTAATTACAAGCAAATGGTTACATTTTCTTTTTGTTTCTTTTTCTAG
Seq C2 exon
GTTACAGTACCTTTACCAGCATCCCAGCTTTCCTTGACGAATTTTGGATCTACAGGACAACCTCTGATTGCTTTACCTCAGACACTTCAGCCCCAGTTACAGCACACGACCCCACAAGCACAGGCTCAGAGTTTGAGCCGTCCTGCCCAAGTAAGCCAGCCTTTCCGAGGATTAATCCCTGCTGGAACACAGCATAGCATGATGGCGACCACAGGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040225:ENSMUST00000182149:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.567 A=NA C2=0.800
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAGAGCAAATCTTACTCAAGCC
R:
TTTCCTGTGGTCGCCATCATG
Band lengths:
326-1597
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