MmuINT0003716 @ mm10
Intron Retention
Gene
ENSMUSG00000026940 | Ccdc183
Description
coiled-coil domain containing 183 [Source:MGI Symbol;Acc:MGI:1924308]
Coordinates
chr2:25616986-25617678:-
Coord C1 exon
chr2:25617535-25617678
Coord A exon
chr2:25617108-25617534
Coord C2 exon
chr2:25616986-25617107
Length
427 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
GTTCCCTCCACCACCTACAGAAC
3' ss Score
7.51
Exon sequences
Seq C1 exon
AATCTGAGCAGGCAACTGCACAGGAAGGGTGAGAGGCACACAGAACCCCTGGAAGGGGGGGCCGTTAGGCCACCATGAAGGTACACAATGAAGCAGCTGTGGAGGCACAGATAACGGAGCTAAGGACCATCACTCGGCTCCAGG
Seq A exon
GTGAGCCTCACACTGGGCACTGCCGCTCTGCTCCGCTACCAGGCAGCTGTCCCTCCTACTACCCACCCAGGCCCCAGCAGTGGGTCAGAGTCACAGAAGGGCCTGCCATCTGAGGGGTGACCTGTGCATTTCCCACAATATTGGCCCAAAGGTGGAGGGGTCAAGGAGAGGTCTGCCTGTTTCTCTGCAAGAGAAAGAGACAAGGGTGTCCCACTTCCTTGGTGGTCCTGGCCTCACCCTCTTTACTGGCCAGCAGATGACCACTTTGAGCAGGAAAGCTTGTGAAGGCCAGAGCAGGGTGAGAGGAGAGAAAATGATCACAAAAGCAATGCAGTATTCCACTGACCTCTCTGGATGCTTTGCGGAGATTCTCAGCCAGTCCTTTTACCCTACAGTCTGGAAATCTTGTTCCCTCCACCACCTACAG
Seq C2 exon
AACAATGTCGGGCACTCCAGATCCAGGGTGTGAAGGAGAAGACAGCACAGAACAAAGCTACAATGGGAATCCTGCGCAGCAACCTCCGCCGAGGAGCCCAAGACTGGGCTTTGGCTAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026940:ENSMUST00000028309:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.098
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
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACTGCACAGGAAGGGTGAG
R:
CTTCTTAGCCAAAGCCCAGTCT
Band lengths:
254-681
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