Gene

cln6b

ID

ZDB-GENE-110623-6

Name

CLN6 transmembrane ER protein b

Symbol

cln6b Nomenclature History

Previous Names

None

Type

protein_coding_gene

Location

Chr: 25 Mapping Details/Browsers

Description

Predicted to be involved in lysosome organization. Predicted to be active in endoplasmic reticulum and membrane. Human ortholog(s) of this gene implicated in neuronal ceroid lipofuscinosis; neuronal ceroid lipofuscinosis 6A; and neuronal ceroid lipofuscinosis 6B. Orthologous to human CLN6 (CLN6 transmembrane ER protein).

Genome Resources

Note

None

Comparative Information

Expression

All Expression Data

No data available

Cross-Species Comparison

High Throughput Data

Expression Atlas

UO scRNA-seq (UCSC browser)

Single Cell Expression Atlas

Daniocell

Thisse Expression Data

No data available

Wild Type Expression Summary

Phenotype

All Phenotype Data: No data available
Cross-Species Comparison: Alliance

Phenotype Summary

Mutations

Mutants

Allele	Type	Localization	Consequence	Mutagen	Supplier
sa37974	Allele with one point mutation	Unknown	Splice Site	ENU	Zebrafish International Resource Center (ZIRC) (order this) European Zebrafish Resource Center (EZRC) (order this)

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Sequence Targeting Reagents

No data available

Human Disease

Associated With cln6b Human Ortholog

Disease Ontology Term	Multi-Species Data	OMIM Term	OMIM Phenotype ID
neuronal ceroid lipofuscinosis 6A	Alliance	Ceroid lipofuscinosis, neuronal, 6A	601780
neuronal ceroid lipofuscinosis 6B	Alliance	Ceroid lipofuscinosis, neuronal, 6B (Kufs type)	204300

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Associated With cln6b Via Experimental Models

No data available

Gene Ontology

Protein Domains

Domain, Family, and Site Summary

Type	InterPro ID	Name
Family	IPR029255	Ceroid-lipofuscinosis neuronal protein 6

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Domain Details Per Protein

Protein	Additional Resources	Length	Ceroid-lipofuscinosis neuronal protein 6
UniProtKB:E7F4M8	InterPro	309
UniProtKB:A0AB32TF05	InterPro	276

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Transcripts

Genome Browsers

NCBI

Ensembl

ZFIN

Genome Build: GRCz11Chromosome: 25

Type	Name	Annotation Method	Length (nt)	Analysis
mRNA	cln6b-201 (1) Ensembl	Ensembl	1,323 nt	Select Tool ZFIN BLAST
mRNA	cln6b-202 (1) Ensembl	Ensembl	933 nt	Select Tool ZFIN BLAST
mRNA	cln6b-203 (1) Ensembl	Ensembl	726 nt	Select Tool ZFIN BLAST

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Interactions and Pathways

No data available

Antibodies

No data available

Plasmids

No data available

Constructs

No data available

Marker Relationships

Relationship	Marker Type	Marker	Accession Numbers	Citations
Contained in	BAC	CH211-139F22	CU183952	ZFIN Curated Data

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Sequences

Type	Accession #	Length (nt/aa)	Analysis
RNA	RefSeq:XM_068217463 (1)	1464 nt	Select Tool ZFIN BLAST NCBI BLAST Ensembl UCSC BLAT
Genomic	GenBank:CU183952 (1)	173283 nt	Select Tool MegaBLAST Ensembl
Polypeptide	UniProtKB:E7F4M8 (1)	309 aa	Select Tool ZFIN BLAST SIB BLAST Ensembl Protein Blast

Orthology

Comparative Orthology: Alliance
Gene Tree: Ensembl

Species	Symbol	Chromosome	Accession #	Evidence
Human	CLN6	15	Ensembl:ENSG00000128973 Gene:54982 HGNC:2077 OMIM:606725	Conserved genome location (synteny) (1) Amino acid sequence comparison (1)
Mouse	Cln6	9	Ensembl:ENSMUSG00000032245 Gene:76524 MGI:2159324	Amino acid sequence comparison (1) Conserved genome location (synteny) (1)

Citations

Include unpublished citations

Braasch, I., Gehrke, A.R., Smith, J.J., Kawasaki, K., Manousaki, T., Pasquier, J., Amores, A., Desvignes, T., Batzel, P., Catchen, J., Berlin, A.M., Campbell, M.S., Barrell, D., Martin, K.J., Mulley, J.F., Ravi, V., Lee, A.P., Nakamura, T., Chalopin, D., Fan, S., Wcisel, D., Cañestro, C., Sydes, J., Beaudry, F.E., Sun, Y., Hertel, J., Beam, M.J., Fasold, M., Ishiyama, M., Johnson, J., Kehr, S., Lara, M., Letaw, J.H., Litman, G.W., Litman, R.T., Mikami, M., Ota, T., Saha, N.R., Williams, L., Stadler, P.F., Wang, H., Taylor, J.S., Fontenot, Q., Ferrara, A., Searle, S.M., Aken, B., Yandell, M., Schneider, I., Yoder, J.A., Volff, J.N., Meyer, A., Amemiya, C.T., Venkatesh, B., Holland, P.W., Guiguen, Y., Bobe, J., Shubin, N.H., Di Palma, F., Alföldi, J., Lindblad-Toh, K., Postlethwait, J.H. (2016) The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons. Nature Genetics. 48(4):427-37

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