ncln nicalin [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: nclnprovided by ZNC
Official Full Name: nicalinprovided by ZNC
Primary source: ZFIN:ZDB-GENE-030131-8788
See related: Ensembl:ENSDARG00000058861 AllianceGenome:ZFIN:ZDB-GENE-030131-8788
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: ncl1; zgc:77236; wu:fb07e09; wu:fk52a06
Summary: Involved in negative regulation of nodal signaling pathway involved in determination of lateral mesoderm left/right asymmetry. Acts upstream of or within enteric nervous system development and regulation of signal transduction. Located in endoplasmic reticulum membrane. Is expressed in central nervous system and intestine. Orthologous to human NCLN (nicalin). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 22

Exon count:: 15

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	22	NC_007133.7 (5233396..5252015, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	22	NC_007133.6 (4849018..4867672, complement)

Chromosome 22 - NC_007133.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

nicalin is associated with protein complexes involved in cell fate decisions during early embryonic development--{review}
Title: The biochemical and genetic odyssey to the function of a nicastrin-like protein.
Nicalin/Nodal modulator complex antagonizes Nodal signaling during mesendodermal patterning in zebrafish
Title: Nicalin and its binding partner Nomo are novel Nodal signaling antagonists.

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables ribosome binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in determination of left/right asymmetry in lateral mesoderm	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within enteric nervous system development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in multi-pass transmembrane protein insertion into ER membrane	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of nodal signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of signal transduction	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of signal transduction	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of signal transduction	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of signal transduction	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
is_active_in endoplasmic reticulum membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum membrane	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	IEA Inferred from Electronic Annotation more info
part_of multi-pass translocon complex	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: BOS complex subunit ncln; nicalin-1

Names: nicastrin-like protein 1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_207057.1 → NP_996940.1 BOS complex subunit ncln precursor

See identical proteins and their annotated locations for NP_996940.1

Status: PROVISIONAL

Source sequence(s)

BC066393

UniProtKB/Swiss-Prot

Q6NZ07, Q6PHK1

Related

ENSDARP00000076240.3, ENSDART00000081801.4

Conserved Domains (1) summary

cd03882
Location:123 → 437

M28_nicalin_like; M28 Zn-Peptidase Nicalin, Nicastrin-like protein

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

NC_007133.7 Reference GRCz11 Primary Assembly

Range

5233396..5252015 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005161591.4 → XP_005161648.1 nicalin-1 isoform X3

UniProtKB/TrEMBL

A0A8M2B8R6

Conserved Domains (1) summary

cd03882
Location:123 → 422

M28_nicalin_like; M28 Zn-Peptidase Nicalin, Nicastrin-like protein
XM_005161590.4 → XP_005161647.1 nicalin-1 isoform X2

UniProtKB/TrEMBL

A0A8M2B8L1

Conserved Domains (1) summary

cd03882
Location:123 → 422

M28_nicalin_like; M28 Zn-Peptidase Nicalin, Nicastrin-like protein
XM_005161589.4 → XP_005161646.1 nicalin-1 isoform X1

See identical proteins and their annotated locations for XP_005161646.1

UniProtKB/Swiss-Prot

Q6NZ07

Related

ENSDARP00000122266.1, ENSDART00000132942.3

Conserved Domains (1) summary

cd03882
Location:123 → 437

M28_nicalin_like; M28 Zn-Peptidase Nicalin, Nicastrin-like protein