MmuINT0030401 @ mm10
Intron Retention
Gene
ENSMUSG00000047696 | Ccdc144b
Description
coiled-coil domain containing 144B [Source:MGI Symbol;Acc:MGI:2681852]
Coordinates
chr3:36018834-36020206:-
Coord C1 exon
chr3:36019916-36020206
Coord A exon
chr3:36019049-36019915
Coord C2 exon
chr3:36018834-36019048
Length
867 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAAT
5' ss Score
4.7
3' ss Seq
TTGTGTTCAATTTGCTGTAGACA
3' ss Score
6.67
Exon sequences
Seq C1 exon
AGTGATGATCTTACTGAAAAATTGGAATCTGCATCTGCCAAATATCTACATCTCTATGAACAAAATCAGCTGCTTCGGCGGGAGTTACTGTCTATGAGAACAATACAAAGGAAATGTGAAAAACTAAAGAAGCATAAAAAGAAGTTAGAACAAGAAGTAGTTAGCCTTAGAAGTCACATGAAAAGGAATATGATAGAGTGTGGCCAAATAGAACAGTATAAATGGGAAATCGAAGAGAAGACAAAGCAGGAATTGGTGGGAAAGTTAAAACAAGTCAACCTATTCTTGCAG
Seq A exon
GTTAATTATATGCAATATGTCTTCATTCTTTTCACTGCAAGTAATATTTTGTGTGTGCACATTTTATGTATGCTTCTACTTCTCGTGTTGCAAGCTGCTTTATAAACTTTTTTTTTTAATTGTGAGAAAGGCCAGAGTTTCAGGAGGACCAGAATGAAACAGAGTCTTCCAGGCAGGACAAAACCACAGTATTCATAAATTCACAGCAGATGTGATAGCCCTCAGAAGACCTGGACAAGATCAAACCAGTCAACATTTTAACATGGTGTGGGAGGGAGTTCATGCCCCCCCCTTCTAACTAAGAAGCTATGGACATTGACAGCTTCTAGGGAGGGGAGAGGGTGTTTTTAATGGGTGTGGCTCCTAGAAAGTCAACCATGTTTAGTGGATGGCCCCACACCTGTGAGTATATGAACAGCACAAATTGGTACCTGACTTAGGAAAAAAGGGAAAAGCTATGGAACAAAAATTGCACTTTTAATTGTACTTAAGTTAACTTGTTCAATGTATTTAATTTTGAGTTGCTATTATTTTGTGACTTATCAGATTGTGTGAGTATCACCATGGAATAATGTTGATCTGAGGCCACAATTCATTGGCAGGACATGTCCTCAGCACATGTGTTTGAGCTTCAGCACCACACACACACACAAAAAATAAGGGTAACAACAACAAAAAAAGAATGATTCTATTTTTAAATTCAAGTTTAACATAACTCGCATCAAGGAAAAATACTTAGAATTTAAAATCATTTTACATATTTAAAATGCATCTGTAAAATAACTGGCCAAAACTAAAAGAAATGGGTGAATAATCATTACTTTAGCTACAGTTATTTTTAAGCTATTTGTGTTCAATTTGCTGTAG
Seq C2 exon
ACACAAGCAGCGTATGAAGACAAGCTAGAGAAGTTAAGACAGAAACAGAACGCTTCAGTGCGAACTCAGATGGAGCTCAGAATAAAGGACCTGGAGTCTGAATTCTCTAAGATGAAAAGTCAAGTTGATTGTAATCAAATAGAAATGGAAAACTATAAGCAGCTCTACCTAGCGGAAGTGAAAATTAGAAAATCATTGTCAAATAAATTAAGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047696:ENSMUST00000200469:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF120013=DUF3496=PU(48.1=72.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGAATCTGCATCTGCCAAA
R:
GAGCTCCATCTGAGTTCGCAC
Band lengths:
348-1215
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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