MmuINT0030410 @ mm9
Intron Retention
Gene
ENSMUSG00000064280 | Ccdc146
Description
coiled-coil domain containing 146 [Source:MGI Symbol;Acc:MGI:1922422]
Coordinates
chr5:20802752-20803495:-
Coord C1 exon
chr5:20803367-20803495
Coord A exon
chr5:20802890-20803366
Coord C2 exon
chr5:20802752-20802889
Length
477 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
GAAATTGTTTCCAACTGTAGCTG
3' ss Score
6.19
Exon sequences
Seq C1 exon
TTTTCACAGTGCACAGACAGGATAAAAGACCTGGAGAAACTCTTTGTGAACCCTGACAGCAAGGGCAGGGTCCGCTTCATTAAAGGGAAAGATCTGACTGAAGAAGAAATGATCAAGAAATTAGATATG
Seq A exon
GTAAGAGTTCTTAAACACCCAACTGCTTGCTCACAGGTATTGCAAACCCATCATCCCACTAGACCTCCCCTACTTGTCATGGAGTCCTAAATCCTAACTTTGATAGATATTTACCTAAGGAAGGAAAGGTCCTGTAGTTTCAGGATTCAGAAGTGCCCTTCATTCCTAGCCCAAAAGAAATTTTGACTTCTTGAATAAATATGTTCATTTGTCATCCTGGTGGGAACATCTGGGAAGAATGGCATTGTGGGTACCAAATAGAGGCAGAGGTCCATAGCCCACCCTGGGAGGAGAGCCCCTCCCTAGCCCGAGTGTCCCCTGACATAGTTAGTACAGCTCCAGAGACTTTTCAGAGGTATTTTAACAACAAAGAAAGCAATGTGTCTCTGTCGTGGGGTAGAGGACTAATGGAGGATGAAGACCATGCCTTACATAAGTCATTTTTTTAACTCCTACTGAAATTGTTTCCAACTGTAG
Seq C2 exon
CTGGAACTTCAGATAGCCAAGAAGGAGGAGAAGCTCCTGGAGAAGGATTTCATCTATGAGCAGGTGTCCCAGCTCACAAACAGGCTCAAAGGCAAAACTCAGGCTTGCAAGAAGGACACACTGCTCTTAGCCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064280-Ccdc146:NM_029195:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTCACAGTGCACAGACAGGA
R:
GAGCAGTGTGTCCTTCTTGCA
Band lengths:
254-731
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: