MmuINT0180021 @ mm10
Intron Retention
Gene
ENSMUSG00000069206 | Zfp874a
Description
zinc finger protein 874a [Source:MGI Symbol;Acc:MGI:3040703]
Coordinates
chr13:67448821-67449476:-
Coord C1 exon
chr13:67449350-67449476
Coord A exon
chr13:67448917-67449349
Coord C2 exon
chr13:67448821-67448916
Length
433 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TTCCTCTTTCCTACAAACAGGTC
3' ss Score
10.61
Exon sequences
Seq C1 exon
GAAATGCTGTCCTTCTGGGATGTGGCCATTGATTTTTCTCCAGAAGAGAAAGAATGCCTGGAGCCTGCTCAGTGGGATCTGTACAGGGATGTGATGCTGGAGAATTTCAGCCACCTTGATTTCCTGG
Seq A exon
GTGAGGATTGCATCTATCTTCTTCACCATCAGTGTCTAGCTTCCCCCTTTGATGCAATATCTCACTGAGTTTTCTATTATATCCTTCCTTTTAAGGAAATAGTGGGGAGACTGACCTATAGCTAAAAATCATCTTGCTTTCTCTTCTGTTTGTAACCTGTGTGTGTTGGAAGTATGTTTCCTTTACATGGGAATCATAGAAAGTTAATATAAATATTTTGCAATTGAATTTTTAATGTTTTCCCTTTAAATAAAGGTCAGTATAAGTGCCTCTTCAGTATTCCAATATACCAATCAGAAACATGTAAATAATTAATTTTTTTGATTTTCTAACTTCCATCATCTCTTTTCTTATAAGCAGTATTCTAGACGGAACCATACTAGTCCCAGTAGAAGAACACTCAAATAATGTTGTTCCTCTTTCCTACAAACAG
Seq C2 exon
GTCTTGCTGTTGCTAAACCATACTTGGTAACATTTCTGGAGCAAAACCAAGGATCTTCGGGTGTGAAAAGCCAAACATCAGCCACCATTCCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000069206:ENSMUST00000075255:2
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=0.265
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
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAATGCTGTCCTTCTGGGA
R:
CTGGAGGAATGGTGGCTGATG
Band lengths:
223-656
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