MmuINT0036587 @ mm9
Intron Retention
Gene
ENSMUSG00000039205 | Ciz1
Description
CDKN1A interacting zinc finger protein 1 [Source:MGI Symbol;Acc:MGI:1920234]
Coordinates
chr2:32218754-32219499:+
Coord C1 exon
chr2:32218754-32218818
Coord A exon
chr2:32218819-32219324
Coord C2 exon
chr2:32219325-32219499
Length
506 bp
Sequences
Splice sites
5' ss Seq
TTAGTTAAG
5' ss Score
-16.71
3' ss Seq
ACCCACCATACCCCCTTCAGCCA
3' ss Score
4.64
Exon sequences
Seq C1 exon
CGCAGGGATAGCGGCTACTTGCAGAGAGCCTACGGGCTTTGTGGACAGGCGAGGCCACAGGATTA
Seq A exon
GTTAAGTGGCGTTGGCTATATCTGCGAGGGAAGGGAGTGGAGGGATGAGGGACAACGGAGCGGGGTGGGGGTGTGCTGCGGCGGACGGAAGCGTTTCCCATCCAGGGTTCATGGATTTAAGTGACACAATTTAGGGAGAGGACAGCGGAATCCAAAACAGGGAAGTGTGCACGGGAAGCACCAGGAAGTGTAGAGTGACTGACAGGCAGGAGATGGGAGTGGAAAGGTGTGCTCCGATTAGAAGGTTGGACCGCCAGAGTTGAAGAGATGGGAGGGAAGATAAAGAACTGAAGGCGTGTCTGTGTGTGTATCCTGTTCTGGCAGCTGACCGGAAGAACTGGAAGCCCCGAAGCCCCGGGTATAAATGCAGCGTGCTCTTGGCGTGGGTGGGACTGTGTAGCGGTGAAGCTTAGCAGGCGTTATGCTGGGGTGGGTGTTTTGGGAGGGGAGAGAAGCTGGATCATCCCAAAGTGGTGATCTGACCCTACCCACCATACCCCCTTCAG
Seq C2 exon
CCACCATGTTCAACCCGCAACTCCAGCAGCAGCAACAGTTGCAGCAGCAGCAGCAACAGTTGCAGCAGCAGCTCCAGCAGCAGCAGCTCCAGCAGCAGCAACAGCAGATACTGCAGCTCCAACAGCTGCTGCAACAGTCCCCACCACAGGCCTCCTTGTCCATTCCTGTCAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039205-Ciz1:NM_028412:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.140
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
GCAGGGATAGCGGCTACTTG
R:
GGCTGACAGGAATGGACAAGG
Band lengths:
238-744
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: