SMIM30 (small integral membrane protein 30)

Gene: SMIM30 (small integral membrane protein 30) Canis lupus familiaris

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Symbol:

SMIM30

Name:

small integral membrane protein 30

RGD ID:

13425600

Description:

INVOLVED IN negative regulation of type I interferon-mediated signaling pathway (ortholog); FOUND IN endoplasmic reticulum membrane (ortholog); mitochondrial membrane (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

LOC111098835; putative transmembrane protein LINC00998

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

CanFam3.1 - Dog CanFam3.1 Assembly

Position:

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	14	52,594,889 - 52,596,902 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	14	52,595,562 - 52,595,741 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	14	52,052,733 - 52,054,723 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	14	52,632,155 - 52,634,192 (-)	NCBI		ROS_Cfam_1.0
UMICH_Zoey_3.1	14	52,662,402 - 52,664,431 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	14	52,341,935 - 52,343,971 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	14	52,720,947 - 52,722,986 (-)	NCBI		UU_Cfam_GSD_1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

negative regulation of type I interferon-mediated signaling pathway (ISO)

Cellular Component

endoplasmic reticulum membrane (ISO)

membrane (IEA)

mitochondrial membrane (ISO)

Molecular Function

protein binding (ISO)

References

Genomics

Comparative Map Data

SMIM30
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	14	52,594,889 - 52,596,902 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	14	52,595,562 - 52,595,741 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	14	52,052,733 - 52,054,723 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	14	52,632,155 - 52,634,192 (-)	NCBI		ROS_Cfam_1.0
UMICH_Zoey_3.1	14	52,662,402 - 52,664,431 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	14	52,341,935 - 52,343,971 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	14	52,720,947 - 52,722,986 (-)	NCBI		UU_Cfam_GSD_1.0

SMIM30
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	7	113,116,718 - 113,118,554 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	7	113,116,718 - 113,118,560 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	7	112,756,773 - 112,758,609 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	112,544,009 - 112,547,724 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	7	107,569,361 - 107,571,225 (-)	NCBI		Celera
Cytogenetic Map	7	q31.1	NCBI
HuRef	7	107,124,866 - 107,126,729 (-)	NCBI		HuRef
CHM1_1	7	112,690,547 - 112,692,411 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	7	114,435,806 - 114,437,643 (-)	NCBI		T2T-CHM13v2.0
CRA_TCAGchr7v2	7	112,125,264 - 112,127,128 (-)	NCBI

Smim30
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	13,867,734 - 13,871,517 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	13,867,734 - 13,871,517 (-)	Ensembl		GRCm39 Ensembl
GRCm38	6	13,867,735 - 13,871,518 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	13,867,735 - 13,871,518 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	6	13,819,074 - 13,821,483 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	6	13,819,900 - 13,821,465 (-)	NCBI		MGSCv36	mm8
Celera	6	13,960,900 - 13,963,309 (-)	NCBI		Celera
Cytogenetic Map	6	A1	NCBI
cM Map	6	5.8	NCBI

Smim30
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	X	38,251,825 - 38,252,063 (+)	NCBI		GRCr8
mRatBN7.2	X	34,443,180 - 34,443,365 (+)	NCBI	mRatBN7.2	mRatBN7.2
Cytogenetic Map	X	q14	NCBI

SMIM30
(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	6	149,946,675 - 149,948,583 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	7	1,956,931 - 1,958,838 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	7	105,082,321 - 105,084,258 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	7	117,783,338 - 117,785,220 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	117,784,030 - 117,784,209 (-)	Ensembl	panpan1.1		panPan2

Smim30
(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_024405118	41,267,523 - 41,269,390 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936589	5,421,493 - 5,421,672 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936589	5,420,517 - 5,422,343 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SMIM30
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	21	81,905,188 - 81,907,427 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	21	81,905,501 - 81,907,035 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666042	21,886,041 - 21,887,967 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Variants

Variants in SMIM30
29 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	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	reproductive system	respiratory system	adipose tissue
High
Medium	5	5	22	6	6	6	6	6	12	8	10	6
Low
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_022427596	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_022427597	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_038495120	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_038557397	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_038621340	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_038687025	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AAEX04000014	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAAHUQ010000159	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAAQRD010000017	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAAUVH010000208	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	REHQ01000014	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCAFT00000043826 ⟹ ENSCAFP00000037671

Type:

CODING

Position:

Dog Assembly	Chr	Position (strand)	Source
CanFam3.1 Ensembl	14	52,595,562 - 52,595,741 (-)	Ensembl

RefSeq Acc Id:

XM_022427596 ⟹ XP_022283304

Type:

CODING

Position:

Dog Assembly	Chr	Position (strand)	Source
CanFam3.1	14	52,594,889 - 52,596,902 (-)	NCBI
Dog10K_Boxer_Tasha	14	52,052,733 - 52,054,723 (-)	NCBI

Sequence:

show sequence

TCCCGGGGAGCCGGCGGCAGCGGGGATTGTGGGAAGTGTAGTCCGGAGGCCCCGCCCACTACGT
CGGCAGCGGGGATTGTGGGAAGTGTAGTCCGGAGGCCCCGCCCTCTCCGCCATTCCTCTAATGG
CCGCTTCCAGGAAGGCTCCGTCACGTGGCACCTCTTAGCCTCGGCGCCCCAACTCCGGGAAGGG
GCAGTTTCCAATCGGATACGCTCCACACGCACATCCTTCCTTTGAAACCTTCAGCCCTCAAGAT
CCGGAGATAACCTGGAAGATCCCAACATCATGACCTCAGTTTCAACACAGTTGTTCTTGGTCGT
CATTTCACTGCTTTTGGTGCTGCCGGTGGTTGAAGCAGTAGAAGCTGGAGATGCAATCGCTCTC
CTGTTAGGTGTGGCTCTCAGCATTACAGGCATTTGTGCCTGTTTGGGCGTCTATGCACGAAAGA
GGAATGGACAAATGTGATTTTGATGGGCCTTCTGAATCAGACCTTGCCCGGAAAACCTTTGTGT
TATTGAGGTTAAAAACTGAGCTTTAGTGTCTAGAAGATCCCACGAAATAGGGTATTTTCACATT
CTTAATTATCTCCCTGTAAGTGGGAACAAATTGATACGTGTTCAGTGGTGGTGGTGGGGGGTTC
ATCACAACAAATAATACACTGAAAAAAGTAGTCTATAATTCATATGTGCTAGTTAGAAAAAGGG
TCAAAGAAGTCAGATGACTGAAATTTTCATATTATTTCATAGTTTCAGAGTTTTCAAAGTGAAA
TAGGAAGAAGGAAACCCTTACCCAGAATCCTAGGAAATTGCCCGTGCCTCCTCCATCACTGAGG
AGTCTTTTCTCCATATTTTTATTAGTTTTTCGTTTTGTTATCTCCCAAATTAATATTGTATTTA
GATATTAAATACAGTCAGTCAGAGATTAAAATTTTTATTTCTTGGGGGAGAAGTAAGAAAAATG
TATTCAATGTATCTAATGTTGAAATGAAGAAAATATTTAATGTAAAAAAGTTACTTTATATTGA
CATTGAAATGGAGACGAGATTTAATGTAAAAAAAAAAGCTTTATACTAACTGAGTTAACATTTC
CATCATGAGAAGTACTATGTTAAATATAAACCCATTATGTTTTAAGTTAA

hide sequence

RefSeq Acc Id:

XM_038495120 ⟹ XP_038351048

Type:

CODING

Position:

Dog Assembly	Chr	Position (strand)	Source
UMICH_Zoey_3.1	14	52,662,402 - 52,664,431 (-)	NCBI

RefSeq Acc Id:

XM_038557397 ⟹ XP_038413325

Type:

CODING

Position:

Dog Assembly	Chr	Position (strand)	Source
UU_Cfam_GSD_1.0	14	52,720,947 - 52,722,986 (-)	NCBI

RefSeq Acc Id:

XM_038621340 ⟹ XP_038477268

Type:

CODING

Position:

Dog Assembly	Chr	Position (strand)	Source
UNSW_CanFamBas_1.0	14	52,341,935 - 52,343,971 (-)	NCBI

RefSeq Acc Id:

XM_038687025 ⟹ XP_038542953

Type:

CODING

Position:

Dog Assembly	Chr	Position (strand)	Source
ROS_Cfam_1.0	14	52,632,155 - 52,634,192 (-)	NCBI

Protein Sequences


Protein RefSeqs	XP_022283304	(Get FASTA)	NCBI Sequence Viewer
	XP_038351048	(Get FASTA)	NCBI Sequence Viewer
	XP_038413325	(Get FASTA)	NCBI Sequence Viewer
	XP_038477268	(Get FASTA)	NCBI Sequence Viewer
	XP_038542953	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCAFP00000037671.2
	ENSCAFP00030011003.1
	ENSCAFP00040025212.1

RefSeq Acc Id:	XP_022283304 ⟸ XM_022427596
- UniProtKB:	A0A8C0ML48 (UniProtKB/TrEMBL), A0A8P0NPJ9 (UniProtKB/TrEMBL)
- Sequence:	show sequence MTSVSTQLFLVVISLLLVLPVVEAVEAGDAIALLLGVALSITGICACLGVYARKRNGQM hide sequence

RefSeq Acc Id:

ENSCAFP00000037671 ⟸ ENSCAFT00000043826

RefSeq Acc Id:

XP_038351048 ⟸ XM_038495120

RefSeq Acc Id:

XP_038477268 ⟸ XM_038621340

RefSeq Acc Id:	XP_038542953 ⟸ XM_038687025
- UniProtKB:	A0A8C0ML48 (UniProtKB/TrEMBL), A0A8P0NPJ9 (UniProtKB/TrEMBL)

RefSeq Acc Id:	XP_038413325 ⟸ XM_038557397
- UniProtKB:	A0A8C0ML48 (UniProtKB/TrEMBL), A0A8P0NPJ9 (UniProtKB/TrEMBL)

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCAFG00000029104	Ensembl, UniProtKB/TrEMBL
	ENSCAFG00030006833	UniProtKB/TrEMBL
	ENSCAFG00040015788	UniProtKB/TrEMBL
	ENSCAFG00845005771	ENTREZGENE
Ensembl Transcript	ENSCAFT00000043826.3	UniProtKB/TrEMBL
	ENSCAFT00030012569.1	UniProtKB/TrEMBL
	ENSCAFT00040029023.1	UniProtKB/TrEMBL
	ENSCAFT00845010220	ENTREZGENE
InterPro	DUF4730	UniProtKB/TrEMBL
NCBI Gene	LOC111098835	ENTREZGENE
PANTHER	PTHR36878	UniProtKB/TrEMBL
	SMALL INTEGRAL MEMBRANE PROTEIN 30	UniProtKB/TrEMBL
Pfam	DUF4730	UniProtKB/TrEMBL
UniProt	A0A8C0ML48	ENTREZGENE, UniProtKB/TrEMBL
	A0A8P0NPJ9	ENTREZGENE
UniProt Secondary	A0A8P0NPJ9	UniProtKB/TrEMBL
VGNC ID	VGNC:54796	ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2018-05-15	SMIM30	small integral membrane protein 30	LOC111098835	putative transmembrane protein LINC00998	Symbol and/or name change	5135510	APPROVED

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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