MmuINT0036589 @ mm10
Intron Retention
Gene
ENSMUSG00000039205 | Ciz1
Description
CDKN1A interacting zinc finger protein 1 [Source:MGI Symbol;Acc:MGI:1920234]
Coordinates
chr2:32374342-32375572:+
Coord C1 exon
chr2:32374342-32374466
Coord A exon
chr2:32374467-32375484
Coord C2 exon
chr2:32375485-32375572
Length
1018 bp
Sequences
Splice sites
5' ss Seq
GGAGTAAGT
5' ss Score
8.57
3' ss Seq
CTTGCTTTTATTGCCGTCAGAGA
3' ss Score
5.25
Exon sequences
Seq C1 exon
GAGTTCCAGGATCACATGTCAGAGGCTCAGCACCAACAGCGGCTTGGGGAAATACAACACTCGAGCCAGACCTGCCTGCTGTCCCTGCTGCCCATGCCTCGGGACATCCTGGAGAAAGAAGCGGA
Seq A exon
GTAAGTAGGGGCTGGCAGAGGCTCATGTGGGTCAGGCAGCGTCCCAGGCCAGGCCCTTAATAGACTGGCTGGCTGGGAGGTCAACCAGCCGTGCATACCATTAACTCCAATTTTGATCATCAGTTTCTCCTGCCTGTAAAATGTCTTGGTGAGGGGTGTAGTGACAGTCTCCTAAGGTCCCTTCCAGGTAAGAACAGTGTGACATTCCTATGGAAGAGAGGGGAGCTGTAATACAGAGAGACCTACCCCCACTGATCTGTGTGCTAGCCCTAACCAGAGAGGCACAGCGGTAAGGACCAGGTCATCTTGTGGCCCTGGGTGAGACCTTCCCTGAATGTATCCATTGTCACAGGGGATGTGGTTGGTCTGAAATGTCTACCCAGAATCTGGAACTAGCACCTGGTGTGAGAAGGCTTGGTGGGAAGTTGTAGGTCCCAGTGGGGTGTCCCAAGCCTGCAGGGCTGGAAAGCATCACTGGAGAGTGTCAAGCTGAGACTTGGGCCCTGGGAGACAAGGGCTGTGTCTCCTGGGGGAGCTGCCTCCGGTGGTTGTTAGAGCTCCCAGCTTTCCAGGGGGATCCAGGCACCTGGATAACTTCGGAAGCCTCACAGTTGCAGAGCATCATCAACAAAGTCAGATGTGATCCCGGCACTTGGGAGGCTGAGACAGGGCACAAGAGTTGACTTATTCAGAATGACAGAAAACCCAGATGAAGACAAATGAAACCGCTTCTCAGGCGGTACTGTTGTACGAGTCCATGATGGGAGGTTCCACTGAGGGCAAGGACAGGGACTCTTGGCTGCTCTGTGATTCACCTGGCTCCATCCGTTAGCTCCCACTTATAGAAGAGTCAGGAATCGCTATCCTGTCCTTTGTCTTTTTGATGCTCTGACTAGGACCCTGGCCCCTCATATACCCTAGCTTCTGAAGTGCAGCACCCTTCCCTTCCCTTCCCTTCCCTTCCGGAGCACTCTAGGAGAATATAGCATCACACGCTGCTTGCTTTTATTGCCGTCAG
Seq C2 exon
AGATCCTCCGCCCAAACGCTGGTGCAACACCTGCCAGGTGTACTACGTGGGAGACTTGATCCAGCACCGTAGGACACAGGAGCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039205:ENSMUST00000113332:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.536 A=NA C2=0.126
Domain overlap (PFAM):
C1:
PF127562=zf-C2H2_2=PD(46.2=57.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGGATCACATGTCAGAGGC
R:
CTTGTGCTCCTGTGTCCTACG
Band lengths:
208-1226
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