ZFIN Gene: rnpc3

ZFIN ID: ZDB-GENE-060312-35

ZFIN ID: ZDB-GENE-060312-35

Gene Name:

RNA-binding region (RNP1, RRM) containing 3

Gene Symbol:

rnpc3 Nomenclature History

Previous Names:

caliban (1), clbn, zgc:136847 (1)

Gene Type:

protein_coding_gene

Location:

Chr: 24 Mapping Details/Browsers

Description:

Predicted to have U12 snRNA binding activity and pre-mRNA intronic binding activity. Involved in animal organ development; digestive tract development; and mRNA splicing, via spliceosome. Predicted to localize to U12-type spliceosomal complex. Is expressed in digestive system; pharyngeal arch; post-vent region; proliferative region; and sensory system. Human ortholog(s) of this gene implicated in isolated growth hormone deficiency. Orthologous to human RNPC3 (RNA binding region (RNP1, RRM) containing 3).

Genome Resources:

Alliance (1), Gene:565672 (1), Ensembl(GRCz11):ENSDARG00000011247 (2)

GENE EXPRESSION
All Expression Data:	4 figures from 3 publications
Wild-type Stages, Structures:	Blastula:128-cell (2.25h-2.5h) to Larval:Day 5 (120.0h-144.0h, 3.9mm, 6 teeth)
	apical ectodermal ridge median fin fold digestive system intestine lens liver pancreas pharyngeal arch post-vent region posterior lateral line neuromast proliferative region whole organism
High Throughput Expression:	GEO (1) Expression Atlas (1)

MUTATIONS AND SEQUENCE TARGETING REAGENTS

Allele	Type	Localization	Consequence	Mutagen	Suppliers
la028632Tg	Transgenic Insertion	Unknown	Unknown	DNA	Zebrafish International Resource Center (ZIRC) (order this)
s846	Point Mutation	Unknown	Cryptic Acceptor Splice Site	ENU
sa37916	Point Mutation	Unknown	Premature Stop	ENU	European Zebrafish Resource Center (EZRC) (order this) Zebrafish International Resource Center (ZIRC) (order this)
zm00416857Tg	Transgenic Insertion	Intron 1	Unknown	DNA

PHENOTYPE

Data:	4 figures from Markmiller et al., 2014
Observed in:	eye intestinal bulb intestinal epithelium liver mRNA splicing, via spliceosome pancreas swim bladder yolk

DISEASE ASSOCIATED WITH rnpc3 HUMAN ORTHOLOG

Disease Ontology Term	Multi-Species Data	OMIM Term	OMIM Phenotype ID
		?Growth hormone deficiency, isolated, type V	618160

DISEASE ASSOCIATED WITH rnpc3 VIA EXPERIMENTAL MODELS No data available

GENE ONTOLOGY

Ontology	GO Term
Biological Process	digestive tract development (more)
Cellular Component	nucleus (more)
Molecular Function	nucleic acid binding (more)

GO Terms (all 13)

PROTEIN FAMILIES, DOMAINS AND SITES No links to external sites available

TRANSCRIPTS
Type	Name	Length (nt)	Analysis
mRNA	rnpc3-201 (1)	1729	Select Tool ZFIN BLAST NCBI BLAST Ensembl UCSC BLAT
	rnpc3-202 (1)	897	Select Tool ZFIN BLAST NCBI BLAST Ensembl UCSC BLAT

Browsers: UCSC, NCBI, Ensembl, ZFIN

INTERACTIONS AND PATHWAYS

ANTIBODIES No data available

PLASMIDS No data available

CONSTRUCTS WITH SEQUENCES FROM rnpc3 No data available

MARKER RELATIONSHIPS

rnpc3 Contained in:	[BAC] CH73-178J6 (1), CH211-287N14 (1)
rnpc3 Encodes:	[cDNA] MGC:136847 (1)

SEQUENCE INFORMATION

Type	Accession #	Length (nt/aa)	Analysis
RNA	RefSeq:NM_001039930 (1)	1722 nt	Select Tool ZFIN BLAST NCBI BLAST Ensembl UCSC BLAT
Genomic	GenBank:CR388050 (1)	176933 nt	Select Tool MegaBLAST Ensembl
Polypeptide	UniProtKB:F1Q8J0 (1)	505 aa	Select Tool ZFIN BLAST SIB BLAST Ensembl Protein Blast

Sequence Information (all 20)

ORTHOLOGY for rnpc3 ( Chr: 24 )

CITATIONS (31)

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