MmuINT0036602 @ mm9
Intron Retention
Gene
ENSMUSG00000039205 | Ciz1
Description
CDKN1A interacting zinc finger protein 1 [Source:MGI Symbol;Acc:MGI:1920234]
Coordinates
chr2:32227156-32228015:+
Coord C1 exon
chr2:32227156-32227277
Coord A exon
chr2:32227278-32227817
Coord C2 exon
chr2:32227818-32228015
Length
540 bp
Sequences
Splice sites
5' ss Seq
GGGGTGCGT
5' ss Score
5.27
3' ss Seq
TGTCTCTGTGTCTGCTGTAGATG
3' ss Score
11.15
Exon sequences
Seq C1 exon
ACCCAGACAAGGCCTTGCCAGAACCAGTAAGTGCCCAGAGCAGTGAAGACAGGAGCCGGGAGGCGTCCGCTGGTGGCCTGGATTTGGGAGAATGTGAAAAGAGAGCGGGAGAGATGCTGGGG
Seq A exon
GTGCGTACACATAGGAGGGCCCGCGAGCCTGGCAGCGGCACGGGCTCTGCTTGTCCAAGCTACCTTAGGATCCTTCTTAAGATCTTGATGTGCTTTTGGTGGCAAAGGTCCCTTCTGGTCCTGGCCAACTCCACACTAGAGCTGCCAGTCCTTCTCCTAACGATGTCATTTCAGTACCTTTGTAAAACCCTCCTTGTGGGACTCAGGCAGGTCCCAATGCTACGTTATAACAAAACTTCAAGTCAACCTCTTTTTTTCCTTTGGTCTTAGTTTCCCCATCACATGAGTGATGACGTGGGTTGGACTTAGAATTAACCAGAGCCAGGTCAGGAGCGGTGCTATACATCTTTAATTCAGCCCCTAGAGAGGTGGAGGCAGGCTGATCTCTTCTAGCTTCAGGCCAGCCTGGTCTACATACTGAGACATACATATTCGATCTAGGTTCAAATCCTGGCTATCGTATTCTCTGTTTAGGTTTGGGCAGTCACATAACCTAACCTAACCTAGAGGGTAGATATTCTGTCTCTGTGTCTGCTGTAG
Seq C2 exon
ATGTGGGGGGCTGGGAGCTCCCTGAAGGTCACCATCCTGCAGAGTAGCAACAGCCGGGCCTTTAACACCACACCCCTCACATCTGGACCTCGCCCTGGGGACTCTACCTCTGCCACCCCTGCCATTGCCAGCACACCCTCCAAGCAAAGCCTCCAGTTCTTCTGCTACATCTGCAAGGCCAGCAGCAGCAGCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039205-Ciz1:NM_028412:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.502
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF127562=zf-C2H2_2=PU(50.0=39.4),PF049887=AKAP95=PU(23.2=19.7)
Main Inclusion Isoform:
NA
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:
ACCCAGACAAGGCCTTGC
R:
CTGCTGCTGCTGGCCTTG
Band lengths:
313-853
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: