MmuINT0030408 @ mm10
Intron Retention
Gene
ENSMUSG00000064280 | Ccdc146
Description
coiled-coil domain containing 146 [Source:MGI Symbol;Acc:MGI:1922422]
Coordinates
chr5:21301228-21303288:-
Coord C1 exon
chr5:21303064-21303288
Coord A exon
chr5:21301457-21303063
Coord C2 exon
chr5:21301228-21301456
Length
1607 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
TGCTCTGAATTTGACCACAGTGG
3' ss Score
4.34
Exon sequences
Seq C1 exon
AAAGCTACAAAACGCCATGCTAAAGCATTCCAACAATGTGACCATCAAGGAGAGCATACAGAACGATGTGTGCAAAATCACTGCTAAACTCCAGGAAATGAAGGAGAAGAAGGAGGCCCAGCTGACCAGCATGGACAGGCTGGCCAGCATGATCACCGTGATCGAAGAGGAGATGGTGCAGCTGCGCAAGAAGTATGAGAAGGCCGTACAGCGGCGGAATGAAAG
Seq A exon
GTAAGGGTCGCAAATGTGGCTGGGCTGAGTGCCCGGGACCCTACTGAGAGGTAGCCATGTTCTTTACCCTTCGGGGGGAGCCATGGGTTTCCCATGAAGACAAGACAGGCTGCCTGTGGAAGGGAAATAACAGGGAGGTTGGGGCAGTTGAAGAACAAAGTCATCTCTGAAGTGCTAGGAGAGTGGTTCTCAACCTTCTTAATGCTGTGGCCCGTTTATACAGCTCCTCAGGTGTGCTGACTCCCCAGCCACAAAATTATTCCGCTGCTACTTCATAATTGTAATTTTGCTACTGTTATGGATCATAATGTAAATATCTGATCTGTGACCCGATGGGGGTCCCGTCCCACAGGCTGACAACCTGTACTCTAGGCTCACACTGAATTCCTTCTGCATCAGCTGCTGTGAGTCACTCTCTGTAACCTCGCTCCATCTGAGCAGGACTTGGCTTTATCAACCTATTCTCATAGTTCATTTTCCCCACGATTAACTAAGGCATAGAGGACTGACATATTTCTTCTAAGCTGCAAGCAGCCACAAACAGGATATTACTCTTTAATACCCTCTCCCCGCCCCCCACCAACTCAGTTGCTTGTATTCTGAGAAATTGGTAGGTGAGATGAGGGAATGCTGAAATGATTCAAATTTCGTCAAGTGTGCTGTTTCACGTAAAGTGCTGGAACACTGGGTCCCGAGGGACCAGATGAAGCATTGGTGCTGCTCTTGTTAGCAAGGGACTCTGATAAGAAGAAGCTTCGATAGAATAAAGCATAAAGAAAGAAGGTGAAGAGAGCACTGAGGTTAGCCAGGGACAATGTGCACCATTGGAGGGAAGAGAGAGAGAGAGTCAGAAAAATTAAAGGTAGCAGTTACAGCAATGTATGTACAGGTGGTGTGGGGAGATCTCTAAGAACTTAAGTTCTTCAAACAGAACTCGTTCAAAGGACTGCTGAGTGTTCCTTCTGGTTTAAAATGCAAAAACAAATCCTAGCTGGCTCCTGGCACAAGCAGAAGTTTGCAGGCAAATAGAGTGTTCGAGGCCCGGGTCAGACCAGAGGCACTGGAGGAACAAAACCTCACTTTGTTTCTATCCTGTGGCTTCCTCTCAAGGAGGGACCTTTCCACTGTGCCTGTCAGCATGGTGACAGAGGGCAGGTTACAGGGCAACAAGCATCAGAAATGTCACTTTTCAGAGACCCCTATGCCTGGCGACTCTCTCCAGAGTCGCATTCCTAGACTCCTGCCCAGCAGCTTCTGCCCTTGCCTGGCAAGTCTGACCCAAGAAAAGATCTGCAGATTGGGCTTGTGTTTTGCTTTGTTCACATGTTGGGAGTGACCTCCCCTACCCCAGGGGAACCTTTAGGGTTTACCAAGGCCACTGTGGCCAGCCTGCTGCACAGCTAGCCTTAGATTAGAGATGCCAACCCTGCTTGTCCCTATGGAAGACCCAGTGTTTGGACCTTAATAGACCAAGCTATTAGAATGTATCACTATCCCCTGAAATTCTGTTCTGTATGCTATGAGCCCAAAGCCAGAGGGAACCACAGAGACTAAGAAATAGTGGCCTCAACAACCCACTTAGACTCCTGCTCTGAATTTGACCACAG
Seq C2 exon
TGGTGTTCAGCTGATCGAGCGGGAAGAAGAAGTGTGCATTTTTTACGAAAAAGTGAATGTCCAAGAGAAGATAAAACTTCATCAGGATGTTGAAATCCACATTCTGGAAGAAAAAATCCGATTCCTAAAACTGAGGATTGCCGAAAAGCAAAGGCAGATTTCTGTGACACGGAAACTAGTGCCAATCAAGAAGTCCCTGGATGCCGACCTGGCTGTGATCCAGATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000064280:ENSMUST00000115245:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.066 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
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGGAGAAGAAGGAGGCCCA
R:
ATCTGGATCACAGCCAGGTCG
Band lengths:
351-1958
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