MmuINT0030412 @ mm9
Intron Retention
Gene
ENSMUSG00000064280 | Ccdc146
Description
coiled-coil domain containing 146 [Source:MGI Symbol;Acc:MGI:1922422]
Coordinates
chr5:20798779-20800519:-
Coord C1 exon
chr5:20800271-20800519
Coord A exon
chr5:20799314-20800270
Coord C2 exon
chr5:20798779-20799313
Length
957 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGC
5' ss Score
9.14
3' ss Seq
GAGAACATCTTCCTTTGCAGGAG
3' ss Score
7.98
Exon sequences
Seq C1 exon
ATGAATAGCTACCAACAAAAGATCAAAGTTGTTACCCAGGAAATGATGGCTCTTGTTGCTGAGCTGTCCATGAAACAAGCCCTGACCATTGAACTCCAAAAGGAGGTGAGAGAGAAAGAAGAATTCATCTTCTCCTGCAGTGCCAGGATAGAAAAGGGCCTCCCGCTCAACAGAGAGATTGAGAAGGACTGGCTGAAGGTGCTTCGAGATGAAGAAATGTATGCCTTTGCGACTGCTGAGATGTCTCGG
Seq A exon
GTAAGCTTTGTGTCCTGTGCTGCAAAGTGTGGCAGTGTCCCCTCATGACACAGTGGGCCCCTTATCTGAGGCCTAGGAATAGAAATGGTTTGAACTTTCTATGATTTTCATGAGATATTTGAGGAGTGGAGCCCAAGTCTAAACACCAGACTCACTTGTTTCATATGCACCTCATATACACAGGATGAAGGTGACGTCAATGCATATTTATGCCTATTTAATTTTGACTGTAATCATGATAGGACACCATATATGGAATTATCTATTTGTGACATCATATCTATCCTCAAAAAGTTTGGAGCATTTTGGGTCTCAGGGTTTTGGATTAGGCTTTCTTCAACCTGTATAAGAAAGTTTCCCACTCTAACAGGCATAGTCTGAATGGCTGGTAGAAAGGGGTTTGGCATGTAGAAAAGACTTTGGACTAGTAGTCCAAAGCACCACCTTTCTCCCTGAGGAGCAGCTGAGAACCATCATCCCAGTCATACCCTGAACTGGCATGGTTGAACACTATAGCCTCCCCCGGCGTGCCTCTGACAATTCTAACATTGGCATTTGCTCGCACCACAACTGACCCTTCTATGTCCTTCTGTCATGGCCTCCACAGCCATATTACAACTACTACAGCCTTCTACAGAACCATACCTGGCACATATCATAGAGCTCTATGCTACACCTTTCTCCTCCCCAGTGACCAAGGTCTTGGTCGGTCACTGAAGCCACCAGCGAGTCTGGTTTCCTACTCATCTGTCTAACCCCATGATCCCTCGATAGTTTAATATTATAAGGCATCTCATTCCAAGAAGCCCACAGGGGTTGCAGAACAGGCAACAGAGGTGGGGGTGGGCTTCACCCTCCTCTACTTGTTCAGCAAGGCCTAAAGATGCTCTTTTAGGACCCAGGAAAAGTTAGGTTCAGTGCTTTAGAAAACTGAAATGAGAACATCTTCCTTTGCAG
Seq C2 exon
GAGTACATGGAAACGGATTATCGGCAGCTGCCCAATGGTGTTTATACAACTGCAGAGCAGCGTCCAAACGCCTACATGCCTGAAGCAGATACCGAGCTTCCTCTGCCCAAACCGTATGGCGCGATGGCTCCATTTAAGCCCTCTGAACCCGGAGCCAACAGGAGGCACATTAGGAAACCTGTTGTAAAGCCCATTGAAATCTAAACATGTGAACCAACCCAGCAGTCCTCTCACAGAGAGGGCCTGAGCCAAGCCTCAGACCTTCTATGGAGAATGAGCACCAGGGTTCTAGGGCTGCTGATGAGCCAGGCACGGTCAACAACAATGGGTTGTTTCCAAAGCAGTGGCTTCCTTGTACATTCACCAACTATTACCTGGTAAGTGACACTGAATGGGACATAGACTACAGCTGTGTCAAAGGGCATTTTGATTGTTCATGTGTTTCTTTTTCACTGCTTATAGTTACTACACCTCAGGAATGTACAGTAGACAAGATGCTGTAAAAGTACAAAATAAATAACTTTTCAGTGAAGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064280-Ccdc146:NM_029195:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.597
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:
CATCTTCTCCTGCAGTGCCAG
R:
CTGCTGGGTTGGTTCACATGT
Band lengths:
349-1306
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: