LOC103224050 (sodium channel modifier 1)

Gene: LOC103224050 (sodium channel modifier 1) Chlorocebus sabaeus

Analyze

Symbol:

LOC103224050 (Ensembl: SCNM1)

Name:

sodium channel modifier 1

RGD ID:

18664504

Description:

ENCODES a protein that exhibits enzyme binding (inferred); metal ion binding (inferred); INVOLVED IN mRNA processing (inferred); RNA splicing (inferred); ASSOCIATED WITH genetic disease (ortholog); Orofaciodigital Syndrome XIX (ortholog); FOUND IN nuclear speck (inferred); nucleoplasm (inferred); nucleus (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

SCNM1

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

ChlSab1.1 - Green Monkey 1.1 Assembly

Position:

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	20	12,519,187 - 12,523,890 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	20	12,520,394 - 12,523,790 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666038	12,097,704 - 12,102,222 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

Orofaciodigital Syndrome XIX (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

mRNA processing (IEA)

RNA splicing (IEA)

Cellular Component

nuclear speck (IEA)

nucleoplasm (IEA)

nucleus (IEA)

spliceosomal complex (IEA)

Molecular Function

enzyme binding (IEA)

metal ion binding (IEA)

protein binding (ISO)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

LOC103224050
(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	20	12,519,187 - 12,523,890 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	20	12,520,394 - 12,523,790 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666038	12,097,704 - 12,102,222 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

SCNM1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	1	151,156,649 - 151,170,296 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	1	151,156,664 - 151,170,296 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	1	151,129,125 - 151,142,772 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	149,405,141 - 149,408,238 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	1	147,951,589 - 147,954,687	NCBI
Celera	1	124,253,808 - 124,256,905 (+)	NCBI		Celera
Cytogenetic Map	1	q21.3	NCBI
HuRef	1	122,507,131 - 122,520,863 (+)	NCBI		HuRef
CHM1_1	1	152,524,432 - 152,538,100 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	1	150,280,351 - 150,294,025 (+)	NCBI		T2T-CHM13v2.0

Scnm1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	2	185,389,892 - 185,394,126 (-)	NCBI		GRCr8
mRatBN7.2	2	182,700,883 - 182,705,119 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	2	182,700,348 - 182,704,835 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	2	190,365,582 - 190,369,512 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	2	188,161,826 - 188,165,756 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	2	182,998,066 - 183,001,996 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	2	196,300,239 - 196,304,419 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	196,300,239 - 196,304,169 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	2	215,794,553 - 215,798,889 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	190,035,097 - 190,039,027 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	2	189,996,175 - 189,999,993 (-)	NCBI
Celera	2	175,237,678 - 175,241,608 (-)	NCBI		Celera
Cytogenetic Map	2	q34	NCBI

Scnm1
(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_004955588	526,986 - 529,774 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955588	526,986 - 529,774 (+)	NCBI	ChiLan1.0	ChiLan1.0

SCNM1
(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	98,664,426 - 98,667,557 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	1	98,415,625 - 98,418,727 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	1	126,515,210 - 126,518,313 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	1	130,163,855 - 130,166,728 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	130,163,855 - 130,166,728 (+)	Ensembl	panpan1.1		panPan2

Scnm1
(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	22,340,523 - 22,344,289 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936580	1,370,944 - 1,374,831 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936580	1,370,944 - 1,374,671 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SCNM1
(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	98,079,851 - 98,082,351 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	98,079,844 - 98,082,374 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	107,332,633 - 107,335,163 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

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

	endocrine system	hemolymphoid system	nervous system
High
Medium	36	6	39
Low		14	21
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_007977264	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_007977265	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JACDXN010000006	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCSAT00000016738 ⟹ ENSCSAP00000016238

Type:

CODING

Position:

Green Monkey Assembly	Chr	Position (strand)	Source
ChlSab1.1 Ensembl	20	12,520,394 - 12,523,790 (-)	Ensembl

RefSeq Acc Id:

XM_007977264 ⟹ XP_007975455

Type:

CODING

Position:

Green Monkey Assembly	Chr	Position (strand)	Source
ChlSab1.1	20	12,519,190 - 12,523,890 (-)	NCBI
Vero_WHO_p1.0	NW_023666038	12,097,704 - 12,102,222 (-)	NCBI

Sequence:

show sequence

ATGCAAGGGCCTGGATCCAGCTGAGCGGCAAGGTCTTTGAGGAAAAGACTTCATTTCCCAAAAG
GCTTCGCGTCTGCGGACTCGCACGGCACCATAGGAAATGCAGTTCCCTCCACGCGCCAGAGAGT
GGATATCCGGATGGCGCAATGCATGCGTGGAAGTGCATCCCCGGAAGTACGGGGGCCGACAGGA
AGACAAAGAAAAAAGAGAAGGCGCTGTCTCGCTCTTGCTACGGTGGCCTGGAGGAGTGGCGAAA
CCGGAACAAGAAAATTTATCACTTCTGGGACTCACAGTCGTGATGTCTTTCAAGAGGGAAGGAG
ACGATTGGAGTCAACTCAATGTGCTCAAAAAAAGAAGAGTCGGGGACCTCCTCGCCAGTTACAT
CCCAGAGGATGAGGCGCTGATGCTTCGGGATGGACGCTTTGCTTGTGCCATCTGCCCCCATCGA
CCGGTACTGGACACCCTGGCCATGCTGACTGCCCACCGTGCAGGCAAGAAACATCTGTCCAGCT
TGCAGCTTTTCTATGGCAAGAAGCAGCCGGGAAAGGAAAGGAAGCAGAATCCAAGACATCAGAA
TGAATTGAGGAGGGAAGAAACCAAAGCTGAGGCTCCTCTGCTAACCCAGACACGACTTATCACC
CAGAGTGCTCTGCACAGAGCTCCCCACTATAACAGTTGCTGCCGCCGGAAGTACAGACCAGAAG
CCCCTGGTCCCTCTGTCTCCCTTTCCCCTGTGCCACCCTCAGAGGTCGAACTCCAAAGCGGGAA
GATCAGTAGAGAACCTGAACCTGGGACTGGCCCACAGGCCGAGGAATCAGCAACTGTCTCAGCC
CCTGCACCCATGAGCCCCACAAGAAGACGAGCCCTGGACCATTATCTCACCCTTCGAAGCTCAG
GATGGATCCCAGATGGACGAGGTCGATGGGTAAAAGATGAAAATGTTGAGTTTGACTCTGATGA
GGAGGAACCGCCTGATCTCCCCTTGGACTGACACCCTTTTCCCATTCATTCACAAATACACTGC
AATGGGTGCTGAGAACTTAACTTTCCTTAAGTCTGGTTCCTTGTCGGATCTCAGGATTTCAGAT
CTGTTCATTCTCAATCCAACTACTCCTTTCCTGCAATGTACACAGCTCTCCATACTTCTTTTTT
TTTTTTTTTTTGAGGCAGAGTCTTGCTCTGTCGCCCAGGCTGGAGTGCAGTGGCCCGATCTTGG
CTCGCTGCAAGCTCCGCCTCCCAGGTTCACGCCATTCTCCTGTCTTAGCCCCCCGAGTAGCTGG
GACTACAGGTGCGCACCACCACCCCCGGCTAATTTTTTGTATTTTTAGTACAGACGGGGTTTCA
CTGTGTTAGCCAGGTTGATCTCGATCTCCTGACCTTGTGATACGCCCGCCTCGGCCTCCCAAAG
TGCTGGGATTACAGGCGTGAGCCACCGCGCCCAGCCACAGATCTCCATACTTCTAGCCCCTCCC
CCACCTTCTACCAAAGCCATGCCAAGCGTCAGCTGCATCAGCCTGGTGCCCTATTAATAAGACT
GTCAAAAAGAGGTCTTTGCCCTTCATGTTGTCTGCCTCCTTCTCCACTACCACTCAAAGTCCTT
TCCCCCTTCAAACCACATGAGGACTGTGGGTAGGCACTGGAGGGACCTGGCTACATCTGGAAAC
AGGGCTGCGGCTAAGTTCCCTGTGAAAGTAGAAGAGTTGAAAGGCATTGGCAGGGTTATGGGGA
ACACCAAGGGAGGGAGCTCCCCCACCTCCTCCTAGTAACCTGAACCTCTCTGCCTGCTGATCCC
CAGAGTATAAATAATCCCCTGGTGAACTGGCAGTAACCCTTGGGGGTTAGCGCCAAGATTCTCA
CCCCAAAGTCCAAGGAAGGAGGCAGGCAAAATGGATATAAGGGCTTTTATTTACAGGAAAGGAG
GACAGATGAGAATTTAAGTGTCTAGTGCTCCCAGCTCTAGTTGGTAAAGGGAAATGCAGTATTT
ATCTCTTCTTTTGCTGGCGACCTGTAAAGGAGGAATATTAAACATAAGTGTTTGTTCCAGCTCC
TGCTTTCTGCAAAGGCACTCTTCTCCTTTCCAGTCCCTTAGCCAAACTCATAAATTGGTAGTGT
CTTAGGCCACCTTACAGGCCCATCCCACATTAACAAAACAAAACAAGAAACCACACCACAAATA
AAATTACAATACCTCTAAA

hide sequence

RefSeq Acc Id:

XM_007977265 ⟹ XP_007975456

Type:

CODING

Position:

Green Monkey Assembly	Chr	Position (strand)	Source
ChlSab1.1	20	12,519,187 - 12,523,724 (-)	NCBI
Vero_WHO_p1.0	NW_023666038	12,097,704 - 12,102,170 (-)	NCBI

Sequence:

show sequence

CCCCGGAAGTACGGGGGCCGACAGGAAGACAAAGAAAAAAGAGAAGGCGCTGTCTCGCTCTTGC
TACGGTGGCCTGGAGGAGTGGCGAAACCGGAACAAGAAAATTTATCACTTCTGGGACTCACAGT
CGTGATGTCTTTCAAGAGGGAAGGAGACGATTGGAGTCAACTCAATGTGCTCAAAGTAAGCATG
AGCGGAGAGGATCTGCAGCCTCTTCAGTCGCTCTCTGAAGAAAAGAAGAGTCGGGGACCTCCTC
GCCAGTTACATCCCAGAGGATGAGGCGCTGATGCTTCGGGATGGACGCTTTGCTTGTGCCATCT
GCCCCCATCGACCGGTACTGGACACCCTGGCCATGCTGACTGCCCACCGTGCAGGCAAGAAACA
TCTGTCCAGCTTGCAGCTTTTCTATGGCAAGAAGCAGCCGGGAAAGGAAAGGAAGCAGAATCCA
AGACATCAGAATGAATTGAGGAGGGAAGAAACCAAAGCTGAGGCTCCTCTGCTAACCCAGACAC
GACTTATCACCCAGAGTGCTCTGCACAGAGCTCCCCACTATAACAGTTGCTGCCGCCGGAAGTA
CAGACCAGAAGCCCCTGGTCCCTCTGTCTCCCTTTCCCCTGTGCCACCCTCAGAGGTCGAACTC
CAAAGCGGGAAGATCAGTAGAGAACCTGAACCTGGGACTGGCCCACAGGCCGAGGAATCAGCAA
CTGTCTCAGCCCCTGCACCCATGAGCCCCACAAGAAGACGAGCCCTGGACCATTATCTCACCCT
TCGAAGCTCAGGATGGATCCCAGATGGACGAGGTCGATGGGTAAAAGATGAAAATGTTGAGTTT
GACTCTGATGAGGAGGAACCGCCTGATCTCCCCTTGGACTGACACCCTTTTCCCATTCATTCAC
AAATACACTGCAATGGGTGCTGAGAACTTAACTTTCCTTAAGTCTGGTTCCTTGTCGGATCTCA
GGATTTCAGATCTGTTCATTCTCAATCCAACTACTCCTTTCCTGCAATGTACACAGCTCTCCAT
ACTTCTTTTTTTTTTTTTTTTTGAGGCAGAGTCTTGCTCTGTCGCCCAGGCTGGAGTGCAGTGG
CCCGATCTTGGCTCGCTGCAAGCTCCGCCTCCCAGGTTCACGCCATTCTCCTGTCTTAGCCCCC
CGAGTAGCTGGGACTACAGGTGCGCACCACCACCCCCGGCTAATTTTTTGTATTTTTAGTACAG
ACGGGGTTTCACTGTGTTAGCCAGGTTGATCTCGATCTCCTGACCTTGTGATACGCCCGCCTCG
GCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCAGCCACAGATCTCCATACTTC
TAGCCCCTCCCCCACCTTCTACCAAAGCCATGCCAAGCGTCAGCTGCATCAGCCTGGTGCCCTA
TTAATAAGACTGTCAAAAAGAGGTCTTTGCCCTTCATGTTGTCTGCCTCCTTCTCCACTACCAC
TCAAAGTCCTTTCCCCCTTCAAACCACATGAGGACTGTGGGTAGGCACTGGAGGGACCTGGCTA
CATCTGGAAACAGGGCTGCGGCTAAGTTCCCTGTGAAAGTAGAAGAGTTGAAAGGCATTGGCAG
GGTTATGGGGAACACCAAGGGAGGGAGCTCCCCCACCTCCTCCTAGTAACCTGAACCTCTCTGC
CTGCTGATCCCCAGAGTATAAATAATCCCCTGGTGAACTGGCAGTAACCCTTGGGGGTTAGCGC
CAAGATTCTCACCCCAAAGTCCAAGGAAGGAGGCAGGCAAAATGGATATAAGGGCTTTTATTTA
CAGGAAAGGAGGACAGATGAGAATTTAAGTGTCTAGTGCTCCCAGCTCTAGTTGGTAAAGGGAA
ATGCAGTATTTATCTCTTCTTTTGCTGGCGACCTGTAAAGGAGGAATATTAAACATAAGTGTTT
GTTCCAGCTCCTGCTTTCTGCAAAGGCACTCTTCTCCTTTCCAGTCCCTTAGCCAAACTCATAA
ATTGGTAGTGTCTTAGGCCACCTTACAGGCCCATCCCACATTAACAAAACAAAACAAGAAACCA
CACCACAAATAAAATTACAATACCTCTAAACAA

hide sequence

Protein Sequences


Protein RefSeqs	XP_007975455	(Get FASTA)	NCBI Sequence Viewer
	XP_007975456	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCSAP00000016238.1

RefSeq Acc Id:	XP_007975456 ⟸ XM_007977265
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_007975455 ⟸ XM_007977264
- Peptide Label:	isoform X1

RefSeq Acc Id:

ENSCSAP00000016238 ⟸ ENSCSAT00000016738

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCSAG00000001790	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCSAT00000016738.1	UniProtKB/TrEMBL
InterPro	SCNM1	UniProtKB/TrEMBL
	SCNM1_acidic	UniProtKB/TrEMBL
	Znf-SCNM1	UniProtKB/TrEMBL
KEGG Report	csab:103224050	UniProtKB/TrEMBL
NCBI Gene	SCNM1	ENTREZGENE
PANTHER	PTHR32297	UniProtKB/TrEMBL
	SODIUM CHANNEL MODIFIER 1	UniProtKB/TrEMBL
Pfam	SCNM1_acidic	UniProtKB/TrEMBL
	zf-SCNM1	UniProtKB/TrEMBL
UniProt	A0A0D9S5U9_CHLSB	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2020-12-08	LOC103224050	sodium channel modifier 1	SCNM1	sodium channel modifier 1	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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