MmuINT0030404 @ mm9
Intron Retention
Gene
ENSMUSG00000064280 | Ccdc146
Description
coiled-coil domain containing 146 [Source:MGI Symbol;Acc:MGI:1922422]
Coordinates
chr5:20814431-20815506:-
Coord C1 exon
chr5:20815411-20815506
Coord A exon
chr5:20814602-20815410
Coord C2 exon
chr5:20814431-20814601
Length
809 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAAT
5' ss Score
4.7
3' ss Seq
AATCCTTTGCTTCTCAAAAGAAA
3' ss Score
4.64
Exon sequences
Seq C1 exon
ATGGAAGCTATCCCAAAAGAATACCTTACATTGCCTGAACGAAGGAAAGAGCTCCACAAAGAGGTTGATCTAGCTAGGAGAAATCTGGCTCAACAG
Seq A exon
GTTAATATCAGTCACACTTTTACCTCAGAATGGAGAATGAAGTTGTGTCTCAGAAATGCTCCAGAAAACCACATCAAAAGAAGAATACGTAGGGGGCAGGAAGCAGATGCGGGGGGGATGGGGTTGGGAAGGCAGAAAGTATCAAATAATGATATACGTGTATATGGAAATGCCATAGTGGAACCCATTCATATTTATAATAATATATATAAGTATATGCATTAATATTTAGAGTAAAAATATGATGTTAGCGTCCCGCTTATAATGGGCCTGGATTTTTGTTTTTGTTTTTTTTTTTTTTGTTCTTTTATGGGGAGGTTTACTAAGGGTTGGATGCAATGTTCAAGCATGCTAGCCAAATGCTTTAGGTGAGTGTGCATGCACCGCCCTCACCTCCAAGTTCATAAGAAAAGGATGTGGCTTGAGAGGACAAAGCCTTCCCAGGCTGTGAGGCCAGGCTGTGAGGCCAGGCTGTGAGGCCAGGCTGTGAGGATTTCTCAGATAAAAGGCTGTTGATGGCATTAAAAGTCAACCGTGCTTCATCAATATCTGTTCTCAAATTCCAAACTTTTGTCAGTCGAGCTACCGTTGAGGTATTTTTAAAATATAATTTTAAACTTCTCCTAGTCTTTTAAAAGCACAGCAAGGAGAAGGTCGGTGGTGCTACCCCTCTAGTTCCCACCCTTCATAAAGTAAAGGAAAACTTGGAGCTCGGTCTCTTAATAAACACAAAAGGACGAGGCCGTGCTCTGTGCAGACCTTGCTGGGTTTCTTCAGAAAGCGAATTCTAATCCTTTGCTTCTCAAAAG
Seq C2 exon
AAATCTCTGTCAGAAGCTGAGGCCAAGTTAGTGGAGCAGCAGATTGCACAGGAGAACAAACTTCTAAAGGAGCAAGAAAGTTTGCGGGAGCTGGTGTTCAACCTCGGGCGAATGACTCAGATCAAAATAGATGAGAAAGAACAAAAGGCTAAGGATTTCCTGAAAGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064280-Ccdc146:NM_029195:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.031 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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAGCTATCCCAAAAGAATACCT
R:
TGGGCTTTCAGGAAATCCTTAGC
Band lengths:
264-1073
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: