C13H3orf84 (chromosome 13 C3orf84 homolog)

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Gene: C13H3orf84 (chromosome 13 C3orf84 homolog) Sus scrofa

Analyze

Symbol:

C13H3orf84

Name:

chromosome 13 C3orf84 homolog

RGD ID:

13926054

Description:

ASSOCIATED WITH autosomal recessive limb-girdle muscular dystrophy type 2P (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Also known as:

uncharacterized protein C3orf84 homolog

RGD Orthologs

Human

Mouse

Rat

Chinchilla

Bonobo

Dog

Squirrel

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

Latest Assembly:

Sscrofa11.1 - Pig Sscrofa11.1 Assembly

Position:

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	31,781,278 - 31,792,629 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	31,780,619 - 31,790,704 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	35,011,821 - 35,023,160 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autosomal recessive limb-girdle muscular dystrophy type 2P (ISO)

References

Genomics

Comparative Map Data

C13H3orf84
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	31,781,278 - 31,792,629 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	31,780,619 - 31,790,704 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	35,011,821 - 35,023,160 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

C3orf84
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	3	49,177,634 - 49,191,858 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	3	49,177,539 - 49,192,684 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	3	49,215,067 - 49,229,291 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	3	49,190,073 - 49,204,114 (-)	NCBI	NCBI36		hg18	NCBI36
Celera	3	49,172,338 - 49,184,925 (-)	NCBI
Cytogenetic Map	3	p21.31	NCBI
HuRef	3	49,273,028 - 49,287,244 (-)	NCBI		HuRef
CHM1_1	3	49,167,840 - 49,182,055 (-)	NCBI		CHM1_1

BC048562
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	9	108,313,681 - 108,323,282 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	9	108,313,681 - 108,323,285 (+)	Ensembl
GRCm38	9	108,436,482 - 108,446,083 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	9	108,436,482 - 108,446,086 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	9	108,338,813 - 108,348,414 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	9	108,294,585 - 108,304,189 (+)	NCBI			mm8
Celera	9	108,045,624 - 108,055,271 (+)	NCBI		Celera
Cytogenetic Map	9	F2	NCBI

LOC680045
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	8	109,131,138 - 109,140,784 (+)	NCBI
Rnor_6.0 Ensembl	8	117,221,367 - 117,231,029 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	8	117,214,999 - 117,231,024 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	8	116,565,953 - 116,575,596 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	8	108,431,733 - 108,441,366 (+)	ENTREZGENE		Celera
Cytogenetic Map	8	q32	NCBI

CUNH3orf84
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955532	1,163,353 - 1,198,237 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955532	1,163,399 - 1,172,197 (-)	NCBI	ChiLan1.0	ChiLan1.0

C3H3orf84
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	3	50,180,907 - 50,195,215 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	3	50,180,907 - 50,195,215 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	3	49,100,962 - 49,115,215 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

C20H3orf84
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	20	40,012,854 - 40,021,981 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	20	40,012,730 - 40,021,983 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

CUNH3orf84
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936529	872,150 - 884,123 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CUNH3orf84
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	22	10,579,771 - 10,594,148 (-)	NCBI
ChlSab1.1 Ensembl	22	10,579,776 - 10,593,388 (-)	Ensembl

CUNH3orf84
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624730	3,187,956 - 3,198,064 (-)	NCBI

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	hemolymphoid system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system
High
Medium
Low	7	3	3	5	2	21	1	3	2
Below cutoff	2					1	1		1

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_021068735	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AEMK02000086	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GFLN01037293	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSSSCT00000012458 ⟹ ENSSSCP00000012133

RefSeq Status:

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	13	31,781,278 - 31,792,629 (-)	Ensembl

RefSeq Acc Id:

XM_021068735 ⟹ XP_020924394

RefSeq Status:

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1	13	31,780,619 - 31,790,704 (-)	NCBI

Sequence:

show sequence

GCCCATGGCAACACCGGATCCTTAACCCACTGAGTGAGGCCAGAGATTGAACCTGCAACCTCAT
GCTTCCTAGTGGGATTTGTTTCCACTGTGCCATGACAGGAACTCCCAAGACTTGCTTGCTCTAA
TGATAGATGGAAATACCTCTCCACTAGCTGCTCTCCCATGGTGTCCCTCCTCCTCTGATTCCTT
CTATTCTGTCTGGAATTCCCAGGAGAGGCTTCTAGCATAAGGGCTCTGACCTCTAGGACTCATG
GTGGGGGTGTGGGTGGGATTCACTCTCAAGCCTGCCTTGTTACAGCACAACAGTGGCTTCTATG
GGCACTACAGAGGCCAATTCAAGAGTGAAAGTGCTCGAGAATACCGCCTTGCAGCCAAGCCCCA
GCCTCCAGCAGTGTTCCTGCAGCGATGTCAGGAACCAGCACGGCAACACTACTTCTCCAAGCAT
GACAACCGCACTTCCTTCGACAAAGGCCCCTATTGCCTGCTACAGGGAATTGGAAGGCGGAAAG
ACCTGGCACGCCTGTGGCAGCAGCACACTTTCCTGCACTGGGCACCCTGTGAACTGGAGTTGAG
CCAGCAGCGGCCCCTTCAATCTTCCTACCAGGCCAATTTCCAGTCAGTTCCAGGACTTAGTGGC
CTCCCCCAGCGCCTTGTCCACTTTGTACAGATTCAGCCTCCCCGCGCCAGCACCACCTACCAGC
AGAACTTCTGTCAGCCATCCCGGGGTGGCCACTGTGGCAGTGACAACATGGGGCTCCAGGCCTC
GGTCACCAACACACTGCCTGACCTCCCAGAGATCCCTAGACCCAAGCTGCTGCAGCATTACCTT
CATGCTGGGGTCTCTGAGTGTCTAAACTGGTCTAGAACATTAAACAAGGACAGCTGACTCAGTG
GTCTGTCTGTGCTTACAGGCCAAGAGCTCTCTGAGGCTGGAGAACAGTAAGGCACTGCCAGGCC
CTGCACCTGGCTCCTATAGTGCTGTGCCACAGTGCCTTGGGCTGGGAAGGGGAAGTGCTGCCTG
GGGAGTTCTACCACTGAGTGAGAAGAGTACAGAAGGCTAATGGTCCAGGAGGGTTACCTTGGCC
ACAGCAGATGAGTTCCAGAAACCCAAATCCATTCTTGCCATAAACCTAGTTGTGAACCACTTGC
AATCAATGTGGCTGCAGGGAAAGCAATCAATGGCCCCAACTAGTGGGCAGCAAAGACTAGAGGA
GGCAAAGGCTGGCAGCTTTGTTACTCTGGGAGGCTACTGCCTCTAGGGGTCTGGTCAGTGCCAC
AGTCCTGCCTAAGGACAGCTTCACCACAGCTGGGCAAGAGGGAATAGTGGTCACTGGATTCCCA
TGGTCCACTCCTTCCTACAGAGGTGAGCAGAGGCTATGTGATGCTGTGCAACATAGATCTGGAG
GTCATCCTGATCCTGTGGTATTTTCCCATAGTTTTCTGAGCTCTTTTCTGGTCTACCTGTGAGT
GCCCTCTAACACCCAGGGCAGGGCCAATGGGGGATGGCGGTTACCATATGTCGCCAGAAGAGAA
GCTGAGGCTTAG

hide sequence

Protein Sequences


Protein RefSeqs	XP_020924394	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

XP_020924394 ⟸ XM_021068735

- Sequence:

show sequence

MVGVWVGFTLKPALLQHNSGFYGHYRGQFKSESAREYRLAAKPQPPAVFLQRCQEPARQHYFSK
HDNRTSFDKGPYCLLQGIGRRKDLARLWQQHTFLHWAPCELELSQQRPLQSSYQANFQSVPGLS
GLPQRLVHFVQIQPPRASTTYQQNFCQPSRGGHCGSDNMGLQASVTNTLPDLPEIPRPKLLQHY
LHAGVSECLNWSRTLNKDS

hide sequence

RefSeq Acc Id:

ENSSSCP00000012133 ⟸ ENSSSCT00000012458

Protein Domains

HDNR

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSSCG00000011380	Ensembl, UniProtKB/TrEMBL
Ensembl Protein	ENSSSCP00000012133	UniProtKB/TrEMBL
Ensembl Transcript	ENSSSCT00000012458	UniProtKB/TrEMBL
InterPro	HDNR	UniProtKB/TrEMBL
NCBI Gene	C13H3orf84	ENTREZGENE
Pfam	HDNR	UniProtKB/TrEMBL
UniProt	F1SPT2_PIG	UniProtKB/TrEMBL
VGNC ID	VGNC:85939	ENTREZGENE

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar