MmuINT0030417 @ mm9
Intron Retention
Gene
ENSMUSG00000064280 | Ccdc146
Description
coiled-coil domain containing 146 [Source:MGI Symbol;Acc:MGI:1922422]
Coordinates
chr5:20825347-20827158:-
Coord C1 exon
chr5:20826982-20827158
Coord A exon
chr5:20825421-20826981
Coord C2 exon
chr5:20825347-20825420
Length
1561 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
TGATTGTATTTCTTTACCAGGAT
3' ss Score
8.48
Exon sequences
Seq C1 exon
GAAATAGAGAAGAAGACGAGGCTCCTGAAAGAAAGCACTGAGGAACTGCGCAAGGAGGTGATTCAGAGGAGACTGGAGATCAAAAACCTGCGGGAAGATGTGGTGCTCAAGCAGAAGCAGCTAGTGAGGGAGCAGAAGGAGCTGGAGGAGCTGATGGAGTATCAGGTTGGCTTGAAG
Seq A exon
GTACGTTGTCGACAACCCATGACTGTTTAAACGTGGTGCCTATGTGGATATAAAAACCTAGGGATGGAGAGTAGCTACTCTACGTGACCAAAGGAGCTGTCACACAAACGCTAGGGACTCTGTCAAATGCAACTTAAATTCTGAGAATGTATAAAGGGCATGGGGGTGTTTGATCAGAAAAGACATGTGAAAGCTCACAAAAGCTGTCGTAATTTGCAGGCCTAGACTTGGCAAATGGGCCACCAACATTTGCAGTGAGGGTCACAAACACAGACGATTTCTTGAAAGGCAGAGAATGTTCATCCCTCTTGTATCTGTTTGTATTGCCTTATACTTGTATGCTTGATCCCACTCTTCCTTTAACTGTAAAAGTGACTAGGAGCATATATTAATGTTTTAGGAAGCAATTAGTTGCAATTAATTTTATTTTGAAAAATGTATAATAATTCTCAAAACAATTTAAATTATTTAAAGAACAACTCCCAAAACTCATTGGCCTAGAAAATACTCATGATTGTTTCTGACCTTTTCCCCTCTTACCACATACCCATCTTATCTGGGGTATAGGAACTAAGAAGAGAGTCCTTTGCCAAGAACCCAGGGAGCTTCAGCTTCCAGCACATCGCGTCTAGGAATCTCTTCCAAGGACTTGTACCTAAGTTAGAAGTTGTAGCTTTTTACTTGAAGAGGGGCTTCAAATTGCCAAACTTCAGCCCTGTAAAGCCTGGATCTGCTCCAGGATTAAGCAGGATCCCACAGAGAAGCACTTCATCCTGTCAGTGCTGTGTGGTGTTTAGCTCTCACACTCACGTGTGGTTCCAGAGCTCACAATCTCCTGAGCACCTCAGATAAGCAGGGTCTCTTTCATTACCCCTAATGGAATACCTACAGTGAACTTTCCACTAATGCATACAGCTTGCAGATCATGAAGGTCCACAGGCTTAGCCTCCAACCTTGGCCCTGCATGTATGACCCGTGTAACTGTAGGCCATGTGTTTGGTTTCTTTTGTTGTTGGTTTTTGTTTTTCTTGTCTCCTTCACAGTCGGAGGCTGGGCTCCCTGGAAGCAGTATCTAAGACCCTTAATGTAGGAGGAATCTATGGAGTTCACAGTGGAGTGGGATAGAGCTAAAGAAGATGGGCTAGATACTGTTTCTGCTGTAGAACTCTAGTCTTGGCCTGGCACCAGAAAGAACCCTAGATCTTTAACTGAACCACCGAGGCCTGAGCCAAGGACCATGTGGCTACATCATTACATCATTACATCAATCATTACATCATTACATCAGCTAGTCACTGGCCACAGCCTTCTCCATACTTCCTTCACCTCTCTCACATGAGGGAAGAGGGAATCTTAGAGGGGCACCTGTAGCTGTCCTACTCTGTCATCTGCTTTTTGAGATGGTAACAAGTATAATGACCTGATAAGGCCAGTGTGAATATTGGAGGAAACAAAGTGTACAGGGTAGATGGTAAGAATTCTACAAAATTTAGTTTTTCTCTCATTTAATTTGCTTGCATAGTTGACTACACAACTTACCATGATTGTATTTCTTTACCAG
Seq C2 exon
GATGACGTGGTCCACCATCAAAGTGTTCCTGTACAAATTACAAAGGAGATAGAAAAAATGACACGCAAAAAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064280-Ccdc146:NM_029195:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.068 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF102944=Methyltransf_16=PU(25.9=50.8)
A:
NA
C2:
PF102944=Methyltransf_16=FE(20.7=100)
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:
AGAGAAGAAGACGAGGCTCCT
R:
ATCTCCTTTGTAATTTGTACAGGAAC
Band lengths:
222-1783
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: