MmuINT0180024 @ mm10
Intron Retention
Gene
ENSMUSG00000059839 | Zfp874b
Description
zinc finger protein 874b [Source:MGI Symbol;Acc:MGI:3040702]
Coordinates
chr13:67481170-67481845:-
Coord C1 exon
chr13:67481719-67481845
Coord A exon
chr13:67481263-67481718
Coord C2 exon
chr13:67481170-67481262
Length
456 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
TTCTTCTCTTTTACAAACAGGTC
3' ss Score
10.87
Exon sequences
Seq C1 exon
GAAATGCTGTCCTTCCGGGATGTGGCCATTGATTTTTCTCCAGAAGAGAGGGACTACCTGGGTCCTGCTCAGTGGGATCTGTACAGAGACGTGATGCTGGAGAATTATAGCCACCTTGTGTTCCTGG
Seq A exon
GTGAGCACTGCGTCTATATTGAATTCTTTTTCACCATCAATGTTTAGCTTCCTCCTTAGGTATAATGTCTCACTGAGCTTTCTATTAAGGCTTCCTTTTAAGGAAACATTGGAGAGGCTGACACATAGTAAGAAACAGCTTGCTGTTATTTCTGTGTCTGTACCTTGTCTGTGTTGGGAGGATATTTCCTTCACTCTAGTGGGAAGCTTAGGAACTTAATGAAAGTATTTCACAATTCAGTTTTTAGGGTTTCCCCTTTAAATGAAAATCAGAATCTGCAGATTGTAAACCCCCCACAGTATTTTAATATATCAATCATAAACATGTGATGAATTAATTTTTTATAATTTCTTTTATTGCATCACCTCTTTTCTTATCATCAGTGTTCTAGACAGAACCAGCCCATTCCCAGTAAAGGAGCATTCAAACAGTGTTGTTCTTCTCTTTTACAAACAG
Seq C2 exon
GTCTTGCTGTTGCTAAGCCATACTTGGTAACATTTCTGGAGCAAAACCAAGGGTCTTCAGGTGTGAAAAGCCACGCAGCAGCCACCATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000059839:ENSMUST00000019572:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.250
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
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:
GAAATGCTGTCCTTCCGGGA
R:
CTGGGATGGTGGCTGCTG
Band lengths:
220-676
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