C4H1orf56 (chromosome 4 C1orf56 homolog)

Gene: C4H1orf56 (chromosome 4 C1orf56 homolog) Sus scrofa

Analyze

Symbol:

C4H1orf56 (Ensembl: C1orf56)

Name:

chromosome 4 C1orf56 homolog

RGD ID:

13942912

Description:

INVOLVED IN apoptotic process (inferred); regulation of cell population proliferation (inferred); ASSOCIATED WITH gastrointestinal stromal tumor (ortholog); genetic disease (ortholog); immunodeficiency 42 (ortholog); FOUND IN cytoplasm (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

protein MENT

RGD Orthologs

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	4	98,180,367 - 98,183,464 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	98,181,069 - 98,183,333 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	107,434,048 - 107,436,432 (-)	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

gastrointestinal stromal tumor (ISO)

genetic disease (ISO)

immunodeficiency 42 (ISO)

MHC class II deficiency (ISO)

parathyroid carcinoma (ISO)

severe congenital neutropenia 3 (ISO)

severe congenital neutropenia 5 (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

apoptotic process (IEA)

regulation of cell population proliferation (IEA)

Cellular Component

cytoplasm (IEA)

Molecular Function

protein binding (ISO)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

C4H1orf56
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	98,180,367 - 98,183,464 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	98,181,069 - 98,183,333 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	107,434,048 - 107,436,432 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

C1orf56
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	151,047,751 - 151,051,420 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	151,047,751 - 151,051,986 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	151,020,227 - 151,023,896 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	149,286,883 - 149,290,520 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	1	124,135,566 - 124,139,206 (+)	NCBI		Celera
Cytogenetic Map	1	q21.3	NCBI
HuRef	1	122,397,669 - 122,401,309 (+)	NCBI		HuRef
CHM1_1	1	152,415,581 - 152,419,218 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	1	150,171,431 - 150,175,102 (+)	NCBI		T2T-CHM13v2.0

Gm128
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	3	95,144,230 - 95,148,946 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	3	95,144,231 - 95,148,909 (-)	Ensembl		GRCm39 Ensembl
GRCm38	3	95,236,919 - 95,241,635 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	3	95,236,920 - 95,241,598 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	3	95,040,842 - 95,045,031 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	3	95,322,511 - 95,326,610 (-)	NCBI		MGSCv36	mm8
Celera	3	96,667,969 - 96,672,158 (-)	NCBI		Celera
Cytogenetic Map	3	F2.1	NCBI
cM Map	3	40.74	NCBI

C2h1orf56
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	2	185,503,792 - 185,507,385 (-)	NCBI		GRCr8
mRatBN7.2	2	182,814,794 - 182,818,387 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	2	182,814,793 - 182,818,512 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	2	190,480,121 - 190,483,710 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	2	188,275,630 - 188,279,297 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	2	183,112,615 - 183,116,204 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	2	196,411,937 - 196,415,530 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	196,411,964 - 196,415,530 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	2	215,908,768 - 215,912,361 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	190,148,108 - 190,151,701 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	2	190,110,862 - 190,114,455 (-)	NCBI
Celera	2	175,348,439 - 175,352,032 (-)	NCBI		Celera
Cytogenetic Map	2	q34	NCBI

LOC102022034
(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	NW_004955588	417,837 - 421,880 (+)	NCBI	ChiLan1.0	ChiLan1.0

C1H1orf56
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	1	98,783,066 - 98,785,903 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	98,535,295 - 98,540,084 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	126,396,829 - 126,400,540 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	130,044,491 - 130,048,205 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	130,044,491 - 130,048,187 (+)	Ensembl	panpan1.1		panPan2

C17H1orf56
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	17	60,135,343 - 60,137,489 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	17	60,135,463 - 60,136,527 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	17	59,578,944 - 59,581,110 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	17	61,151,195 - 61,153,365 (+)	NCBI		ROS_Cfam_1.0
UMICH_Zoey_3.1	17	59,980,252 - 59,982,416 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	17	60,065,148 - 60,067,319 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	17	60,792,702 - 60,794,872 (+)	NCBI		UU_Cfam_GSD_1.0

CUNH1orf56
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405058	22,234,818 - 22,237,509 (+)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936580	1,264,883 - 1,268,097 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CUNH1orf56
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Vero_WHO_p1.0	NW_023666038	12,225,056 - 12,229,305 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

CUNH1orf56
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624885	166,801 - 169,260 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in C4H1orf56
23 total Variants

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	nervous system	renal system	reproductive system	respiratory system
High
Medium
Low	7	2	1	4	4		2	1
Below cutoff	2	2	2		15	2		1

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_001929664	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AEMK02000022	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CU459198	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSSCT00000007275 ⟹ ENSSSCP00000007080

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	4	98,180,367 - 98,183,464 (-)	Ensembl

RefSeq Acc Id:

ENSSSCT00000070688 ⟹ ENSSSCP00000060937

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	4	98,181,592 - 98,193,294 (-)	Ensembl

RefSeq Acc Id:

XM_001929664 ⟹ XP_001929699

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1	4	98,181,069 - 98,183,333 (-)	NCBI

Sequence:

show sequence

AGAGAGCCGAAGGAGGGAGAGAAGGTGTGAGCCCCGGCCTCCCTCCCAGCCCCACACCGTCCAG
CCCCATGGTCCCCGCCGCCGACGCGCTGCTCTGGGCCCTGCTGCTGCTGAGTCTGGGGCCCCGG
GCGGCGGCGGGGGCCCAAGGCCTGACCTCGACCGCGACGCAGAGGGACAGTTTCCGCTTTGGAG
GCCCTCTGACCCGCACCTACCGGACCACCGCCCGGAGCCGTATACCCCCGAGGGTAAGGGTGAC
GATGGAGGATGAGGACGACGTCGTGGCCGTGGCCGACCGCCTGGCAGGCCCGGCCGCTGCCGAG
CTCCTGGCCTCCACCGTGTCCACAGGTGGCCAGTCGCGTTTGTCGGCAGAAGAGGATGGGTCTT
TGGAAGAAGGGGTTGTGATTTACGCCAGAAGGAATGACACCAGCCTGGAGACTCCCATTACGAC
TTCCAATACAGCTGGGGGGCCAACCCCAATATTTACAGCCAACGGCCAGGATCCTGAAATCAAA
ATGAGTTCAAGCCCATTGCCTTCCACCTGGAAGGCCGCCGCGGACCTGTCGGCCTCCGACAATA
CGCTGAACCAGTGGTCAAGAGCAGGGTCCACCCGCAACCGGTGGCCACCACCCTCACCTACAGC
CATGCCAGCTCCTGAGGATCTGCAACTGGTGCTGATGCCCTGGGGCCCGTGGCACTGCCACTGC
AAGTCCGGAACTATGAGCCGAACCCGGGCTGGAAAACTACATGGCCTTTCTGGGCGCTTGCGAG
TTGGGGCACTGAGCCAACTCCGCACTGAGCACCGGCCCTGCACCTACCACCAATGCCCCTGCAA
CCGCGATCGGGAGGAGTGCCCCCTGGACAAAGGTCTCTGCCCTGACACCAGCTGCACCACCACT
CAGACCACAACCAGAGCCACCACCACTACTACCTTTCCCCCTCTTGTCCCCAGACTCAGACCAA
CCCCTTTCCCCAGTCCCGGTCCCAGCCCAGCCCTTGCTTTTTGGAAACGGGTCAGGATTGGGTT
GGAGGATATTTGGAACAGCCTGTCTTCAGTGTTCACAGAGATGCAACCAATAAACAGAAATCAG
AGGTAGTGGCCACTTCATCTGCAAGAGGAGATGTCAGCATTTCAACCACTCCTCTTTCAATCCC
AGCACCCACTGGATATTTTTAGTACAGAAAAACAATACTAGGAAAAAAATTTTGTTTGGTGTTG
TGTCTTTTTCAGAGGTACCTGAGGGGGCAGACACTGTGTTTTGAATCTTAAAACTGAACAACGT
AGCCAGCAGCATCTGGCTTGGTGCTTCCCTGTCCCCCAGGATAAAAATGTTCATATTGTTCATC
ATCCTCATTTCCAAAGTTGTTTTTAAATAAATACTTCTTTAAAGACTTG

hide sequence

Protein Sequences


Protein RefSeqs	XP_001929699	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSSCP00000007080
	ENSSSCP00000007080.4
	ENSSSCP00015002628.1
	ENSSSCP00015002635.1
	ENSSSCP00025028673.1
	ENSSSCP00025028753.1
	ENSSSCP00030037386.1
	ENSSSCP00035034380.1
	ENSSSCP00035034385.1
	ENSSSCP00035034388.1
	ENSSSCP00040048058.1
	ENSSSCP00040048061.1
	ENSSSCP00045025482.1
	ENSSSCP00045025553.1
	ENSSSCP00045025621.1
	ENSSSCP00050028580.1
	ENSSSCP00050028583.1
	ENSSSCP00055012451.1
	ENSSSCP00055012481.1
	ENSSSCP00055012533.1
	ENSSSCP00060005927.1
	ENSSSCP00060005929.1
	ENSSSCP00065036431.1
	ENSSSCP00065036437.1
	ENSSSCP00070047878.1

RefSeq Acc Id:

XP_001929699 ⟸ XM_001929664

- UniProtKB:

F1SSA1 (UniProtKB/TrEMBL), A0A4X1VVW2 (UniProtKB/TrEMBL), A0A8D1HZJ7 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MVPAADALLWALLLLSLGPRAAAGAQGLTSTATQRDSFRFGGPLTRTYRTTARSRIPPRVRVTM
EDEDDVVAVADRLAGPAAAELLASTVSTGGQSRLSAEEDGSLEEGVVIYARRNDTSLETPITTS
NTAGGPTPIFTANGQDPEIKMSSSPLPSTWKAAADLSASDNTLNQWSRAGSTRNRWPPPSPTAM
PAPEDLQLVLMPWGPWHCHCKSGTMSRTRAGKLHGLSGRLRVGALSQLRTEHRPCTYHQCPCNR
DREECPLDKGLCPDTSCTTTQTTTRATTTTTFPPLVPRLRPTPFPSPGPSPALAFWKRVRIGLE
DIWNSLSSVFTEMQPINRNQR

hide sequence

RefSeq Acc Id:

ENSSSCP00000060937 ⟸ ENSSSCT00000070688

RefSeq Acc Id:

ENSSSCP00000007080 ⟸ ENSSSCT00000007275

Protein Domains

CRAL-TRIO

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSSCG00000006639	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
	ENSSSCG00015004729	UniProtKB/TrEMBL
	ENSSSCG00025049228	UniProtKB/TrEMBL
	ENSSSCG00030058396	UniProtKB/TrEMBL
	ENSSSCG00035061620	UniProtKB/TrEMBL
	ENSSSCG00040075697	UniProtKB/TrEMBL
	ENSSSCG00045021408	UniProtKB/TrEMBL
	ENSSSCG00050048845	UniProtKB/TrEMBL
	ENSSSCG00055008101	UniProtKB/TrEMBL
	ENSSSCG00060011612	UniProtKB/TrEMBL
	ENSSSCG00065061033	UniProtKB/TrEMBL
	ENSSSCG00070028082	UniProtKB/TrEMBL
Ensembl Transcript	ENSSSCT00000007275	ENTREZGENE
	ENSSSCT00000007275.5	UniProtKB/TrEMBL
	ENSSSCT00015006357.1	UniProtKB/TrEMBL
	ENSSSCT00015006377.1	UniProtKB/TrEMBL
	ENSSSCT00025067029.1	UniProtKB/TrEMBL
	ENSSSCT00025067204.1	UniProtKB/TrEMBL
	ENSSSCT00030081490.1	UniProtKB/TrEMBL
	ENSSSCT00035082805.1	UniProtKB/TrEMBL
	ENSSSCT00035082820.1	UniProtKB/TrEMBL
	ENSSSCT00035082830.1	UniProtKB/TrEMBL
	ENSSSCT00040105122.1	UniProtKB/TrEMBL
	ENSSSCT00040105125.1	UniProtKB/TrEMBL
	ENSSSCT00045036605.1	UniProtKB/TrEMBL
	ENSSSCT00045036721.1	UniProtKB/TrEMBL
	ENSSSCT00045036836.1	UniProtKB/TrEMBL
	ENSSSCT00050066488.1	UniProtKB/TrEMBL
	ENSSSCT00050066497.1	UniProtKB/TrEMBL
	ENSSSCT00055015831.1	UniProtKB/TrEMBL
	ENSSSCT00055015871.1	UniProtKB/TrEMBL
	ENSSSCT00055015946.1	UniProtKB/TrEMBL
	ENSSSCT00060015169.1	UniProtKB/TrEMBL
	ENSSSCT00060015173.1	UniProtKB/TrEMBL
	ENSSSCT00065083605.1	UniProtKB/TrEMBL
	ENSSSCT00065083616.1	UniProtKB/TrEMBL
	ENSSSCT00070056349.1	UniProtKB/TrEMBL
Gene3D-CATH	3.40.525.10	UniProtKB/TrEMBL
InterPro	Bcl2-/adenovirus-E1B	UniProtKB/TrEMBL
	CRAL-TRIO_dom	UniProtKB/TrEMBL
	CRAL-TRIO_dom_sf	UniProtKB/TrEMBL
	MENT	UniProtKB/TrEMBL
KEGG Report	ssc:100155103	UniProtKB/TrEMBL
NCBI Gene	C4H1orf56	ENTREZGENE
PANTHER	BCL-2/ADENOVIRUS E1B 19 KDA-INTERACTING PROTEIN 2-LIKE PROTEIN	UniProtKB/TrEMBL
	BNIP - RELATED	UniProtKB/TrEMBL
	PROTEIN MENT	UniProtKB/TrEMBL
	PTHR16240	UniProtKB/TrEMBL
Pfam	BNIP2	UniProtKB/TrEMBL
	CRAL_TRIO_2	UniProtKB/TrEMBL
	PMSI1	UniProtKB/TrEMBL
PROSITE	CRAL_TRIO	UniProtKB/TrEMBL
SMART	SEC14	UniProtKB/TrEMBL
Superfamily-SCOP	SSF52087	UniProtKB/TrEMBL
UniProt	A0A4X1VVW2	ENTREZGENE, UniProtKB/TrEMBL
	A0A8D0XNL4_PIG	UniProtKB/TrEMBL
	A0A8D1D0M3_PIG	UniProtKB/TrEMBL
	A0A8D1HXC9_PIG	UniProtKB/TrEMBL
	A0A8D1HZJ7	ENTREZGENE, UniProtKB/TrEMBL
	F1SSA1	ENTREZGENE, UniProtKB/TrEMBL
VGNC ID	VGNC:86032	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)

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