MmuINT0133084 @ mm9
Intron Retention
Gene
ENSMUSG00000075376 | Rc3h2
Description
ring finger and CCCH-type zinc finger domains 2 [Source:MGI Symbol;Acc:MGI:2442789]
Coordinates
chr2:37233371-37234041:-
Coord C1 exon
chr2:37233828-37234041
Coord A exon
chr2:37233456-37233827
Coord C2 exon
chr2:37233371-37233455
Length
372 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
TTTTTCTGTGTTCCATGCAGATT
3' ss Score
11.46
Exon sequences
Seq C1 exon
GACCTGGACAGTGGGGATGTAAAGAGAAGAGTGCATTTATTTGAAGCTCAGAGAAGGACAAAAGAAGAAGACCCAATTATTCCCTTTAGTGACGGACCCATTATCTCAAAATGGGGTGCAATTTCCCGATCCTCCCGAACAGGTTACCATACAACAGATCCCGTCCAGGCAACTGCTTCCCAAGGAAGTGCAACTAAGCCCATCAGCGTATCAG
Seq A exon
GTAAGCCATTTTACTAATACCAAGGAATTTTTTTTACCATGTACTGTTTATTCCTAACCTCTGAGGTAGAAAACTTAATAATATGAGAATGAAATGGTTTAAGTAGAATTTTTGGCTAGTGGGAAAAAATACATTGCCATTTTAAATAGTACATATTTATATTCTGATTTTTAAATTTTCTTTCTTTCTTTCTTTCTTTTTTTTTTTTTTTTAGTTTTTTGAGACAGGTTCTCACTATATCCCAGCTGGCCTCAAAGCATAGCTGTGGCAGTGCTTCTGCCTTAGCCTCCTGAGTGCTGGGATTGCAGATGTGTACCACCTTGTCTGGCTTATTTTCTGCCTTTCTAAACTGTTTTTCTGTGTTCCATGCAG
Seq C2 exon
ATTATGTCCCTTACGTGAATGCTGTCGATTCAAGGTGGAGTTCATATGGCAACGATGCTACATCATCAGCACACTATATTGAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075376-Rc3h2:NM_001100591:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.361 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCTGGACAGTGGGGATGTA
R:
CGTTCAATATAGTGTGCTGATGATGT
Band lengths:
299-671
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: