MmuINT0133097 @ mm10
Intron Retention
Gene
ENSMUSG00000075376 | Rc3h2
Description
ring finger and CCCH-type zinc finger domains 2 [Source:MGI Symbol;Acc:MGI:2442789]
Coordinates
chr2:37398244-37399705:-
Coord C1 exon
chr2:37399587-37399705
Coord A exon
chr2:37398357-37399586
Coord C2 exon
chr2:37398244-37398356
Length
1230 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TAAATATTTTGTTTGTGTAGCCA
3' ss Score
5.66
Exon sequences
Seq C1 exon
ATGCTGTTTCACCAACTTGGGAGCAACTGGAAAATGCAATGGTAGCTGTTAAAACAGTTGTTCATGGTCTTGTGGACTTCATACAAAATTATAGTAGAAAAGGCCATGAGACACCTCAG
Seq A exon
GTAAATTGACTACATTTCTAACTACTGCTGTGTCCAAGACAGCTTCATCCTGAACGTACTAACAATCTTATTGGCAAATGGACTATGTATATAACCCTTCCCTATTAGAAGTTATGTGTGTGAAAGGAGGGTGTTCATGTGTATGTGCATGTGTAGCTGCACAGGCTTTGAGCCCAGGGCTTCCTGTCTGACACTGAGTGACATGCATAGCATTCTTGCAAATTTTTATTTTGTACTTTTGAGAGAAACTCCCTTTTTATTGTACTTGGTTGGCATTTCTTTTTATAAGGAATTTAGAGGGTATTTTTATAGCTGAAAGTTTTTTTTTCTTTGCTGTCTCTCAAATGAATTTGTTTTATAATATATTTGGAATTTGAAATTCCTAAATATTTGTAGTGTACTTTAGAAGAGGAAGTTCAAATATAATCCCTTATCCAAATGTCTTTTCAGTTGAGTTAAATATCATATTAAAAGTTATGCTATCAATATCTAACAAGGTAGGGCTAAAAGTACTCCAAAATCTGTTAACTTTTTATTCTATTCATATTTTATTTAGAAACTACTATATTATTTAGTGTCAACTGAATGATAATTTTTTTATTTTTTAAGGTCACAATAGTAAGAGCAATTTCTTAAGAATTTGATGCATATTATGGTTTTTTTTTTTAGTTTCTTTTTTTTTAGTTTTTTGAGACAGGGTTTCTCTGTGTAGCCCTGTCTGTCCTGAAACTCTCACAGAGATTTGTCTGCCTTGCTTCCTGAGTGCTGGGATTATAAGTATGCACCACTACCACAGGGTCTGTCTGATGGTGCATTTTATTGTTTTCCCTCATTGTTTGCCTATGAATAGAGTTGTGCCTGTAAATCAACTAATAATGTAATAATTTTTTACTTCAACTTTTTGGGGGAAGCTTTTAAATGGGTAAAGATCATAGCTTCCCATTTTCTTAAGTTCCTTTAAAAATTATTTTGTTACTACAATTTGAAGATTGAGAAATAGGTAGGTATAAATTTGAATCAATTTCAGATAACCTTCAGAAAGAAGGCCTGAAGGCTTCCTTAAGGATCTCTATTACTCTTCCAGTAGGAAATGGTGAATGGAACTTGTTTCTGCATGCATGAGAATTATGTGTCTGATGTGAAAAAGACTTAAGTCTTTTAAGTTCTGAAGTCTAATGAGTGAATAATAATTGATAGCTTTTCCATTTGCTAAATATTTTGTTTGTGTAG
Seq C2 exon
CCACAGCCAAACAGCAAGTATAAAACTAGTATGTGCCGAGATTTACGACAACAAGGGGGTTGTCCACGAGGAACAAATTGTACATTTGCCCATTCTCAGGAAGAGCTTGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075376:ENSMUST00000112934:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.365 A=NA C2=0.711
Domain overlap (PFAM):
C1:
PF0028516=Citrate_synt=FE(25.5=100)
A:
NA
C2:
PF0028516=Citrate_synt=PD(18.3=73.7),PF0064219=zf-CCCH=WD(100=71.1)
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:
TGCTGTTTCACCAACTTGGGA
R:
TTTCAAGCTCTTCCTGAGAATGGG
Band lengths:
230-1460
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