MmuINT0038283 @ mm9
Intron Retention
Gene
ENSMUSG00000038070 | Cntln
Description
centlein, centrosomal protein [Source:MGI Symbol;Acc:MGI:2443104]
Coordinates
chr4:84742654-84744379:+
Coord C1 exon
chr4:84742654-84742751
Coord A exon
chr4:84742752-84744252
Coord C2 exon
chr4:84744253-84744379
Length
1501 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
TAAATTCTTCTTCCCTGAAGGAC
3' ss Score
6.72
Exon sequences
Seq C1 exon
AATGCAACTAATGAGCTCACTAAACAGTCATCAAATGTGAAGTCTCTGAGAATGGAACTCCTGGCAAAGGATGACCACATAAAGGAGATGCACGAAAG
Seq A exon
GTGGGCTTTCACACGTCGATCTGTTGTGTCTGCTGCCACCTAGTGGCCGCCGTCTCTCCTCACCATCCCACCCTCAAAACAATACCAGCATTTACCTTTAACAATGGAATTTTACTATTTTAAGATTGTTTTATGCCAACATAAGATGGAATTTTAAGGAATACTACATATAGCATGATTTACGACAATCTAGTTGCTATTTTTAATTAGAGTAAAATATTTAACACCAGTTTTCCCTATTTAGCGTAATTTGAGTAACTATAAATTAATAAGTTTAAGACTAAACAAAAACTACAATTCTAAGACTAAGAGAACATATAGTACTTTAATAGGATTAATTCCTAGGTTTATACAGCTAAGGTCAAATTGAAAGCTTCATTTGCCCATAAAATAGCTAGAGATTCTTTTATATATATTATCTTTAAAGGAGTTTAAATACCCTATGATATTCAACAAATGTGGCTCTCTTTCTCTGTGCTTTATAACTTTTAAAGCATTTATATGATAATCTGTTTAGACAGAACACATCACTGATAAATTTCTCATATGGCCACCTGTAGGCAGTATTACAAGTGAAACTTACTTAGCATATTAATAACTACAACTTAGACAGAGGGCTACTGGCTGAATGTGGTGGCTTGTTCCTCTAATTCCAGTATTAGAAAGTTCAAAGCAAGAAGATTGCCATGAAGCTGAGGTCTACCAGCGTAAAGCCTCGCCTCCCAATGGAAATCATTCGTATGTGTAGCTGAAAATGAACTCTGTATAGACCCAGGGCAGTCAGTACACCATCGTCATAGTGCTGAGGAGCCTAGGGAAGCTCTGAATCCGGGCTCCATCCACCAGCTCTGTGCTTCCCTCTAATAGTCTTAATTCATGAAGTTGTTCTGAGGCCCACGTGAGTCAGTACTTGAAGAGTTTGCTGCAGATAACAGTGTCAGTATGAGCTCTCGTCACTTTCCATCATAGTGGAGCCATAGCTACAGCCTCGGGGGCAGAGGTCACTGAAGCTACTGTTGCGTTGCAATGCTCAGCATCACAAGGCGAACTAATAGGTGAACTCAGCCGCAACTGAGTGGAGAAGTTAGTGTGCCTGATTACAGTCTCTTTGCATACTGCAGGGTTTTTAAATTTTTAATCAAATTAACAGTATTGTTCTTAACATTGTTAGGATTTTGATAGTCTCTATGTATCACTTCAATATACCTAAGCAATTCAAGTATATAATTTAAATATAATTTAGTTTCATAAATTCTATGAACTATAATGATCTTACTCAGTTCATCTTTCTTTTGCTATAGTGCAAATATGTAATAATAACAAAGTCACAACCAGATTATGGATTTTACTAAAATATGTTACTTAGATGCTTATTAAAATGCAGTTCAATTTACTGACATAGTGGCATTAATACCAACGTTTCAAAACAAATGGTAGGACTGACTATAGGTACAGTATATCAAGATACTTTCTGCTCCTGTTAAATTCTTCTTCCCTGAAG
Seq C2 exon
GACGTCTCGAATGGAGAGGGATATAACCATGAAAAGACACCTGATCGAGGACTTGAAATTTCGACAGAAAGTAAATTCAGAAAGTAATGAGAGTTTTAATGAAATGTTAGAAACTCTTGAAAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038070-Cntln:NM_175275:20
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.727 A=NA C2=0.381
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCAACTAATGAGCTCACTAAACA
R:
ACTTTCTGAATTTACTTTCTGTCGAA
Band lengths:
182-1683
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: