Scp2 MGI Mouse Gene Detail - MGI:98254 - sterol carrier protein 2, liver

About Help FAQ

Scp2 Gene Detail

Symbol

Scp2
Name

sterol carrier protein 2, liver
Synonyms

nonspecific lipid transfer protein, ns-LTP, NSL-TP, SCP-2, SCPx

Feature Type

protein coding gene
IDs

MGI:98254
NCBI Gene: 20280
Alliance

gene page
Transcription Start Sites

13 TSS
Candidate for QTL

6 QTL

more

Sequence Map

Chr4:107901027-108002168 bp, - strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 4, 50.20 cM
Mapping Data

7 experiments

more

SNPs within 2kb

5401 from dbSNP Build 142
Strain Annotations

18
RFLP

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates	Select Strains
C57BL/6J	MGI_C57BL6J_98254	protein coding gene	Chr4:107901027-108002195 (-)
129S1/SvImJ	MGP_129S1SvImJ_G0028548	protein coding gene	Chr4:108758382-108872632 (-)
A/J	MGP_AJ_G0028511	protein coding gene	Chr4:104849080-104960799 (-)
AKR/J	MGP_AKRJ_G0028458	protein coding gene	Chr4:107433074-107547105 (-)
BALB/cJ	MGP_BALBcJ_G0028530	protein coding gene	Chr4:105055555-105160006 (-)
C3H/HeJ	MGP_C3HHeJ_G0028244	protein coding gene	Chr4:108170570-108281072 (-)
C57BL/6NJ	MGP_C57BL6NJ_G0028970	protein coding gene	Chr4:112658614-112781806 (-)
CAROLI/EiJ	MGP_CAROLIEiJ_G0026261	protein coding gene	Chr4:100154061-100260078 (-)
CAST/EiJ	MGP_CASTEiJ_G0027680	protein coding gene	Chr4:106015365-106125568 (-)
CBA/J	MGP_CBAJ_G0028213	protein coding gene	Chr4:116321423-116445364 (-)
DBA/2J	MGP_DBA2J_G0028361	protein coding gene	Chr4:104474900-104578685 (-)
FVB/NJ	MGP_FVBNJ_G0028329	protein coding gene	Chr4:103344900-103452870 (-)
LP/J	MGP_LPJ_G0028462	protein coding gene	Chr4:108958127-109078734 (-)
NOD/ShiLtJ	MGP_NODShiLtJ_G0028355	protein coding gene	Chr4:121568896-121680061 (-)
NZO/HlLtJ	MGP_NZOHlLtJ_G0029006	protein coding gene	Chr4:107676609-107778157 (-)
PWK/PhJ	MGP_PWKPhJ_G0027406	protein coding gene	Chr4:102731429-102835073 (-)
SPRET/EiJ	MGP_SPRETEiJ_G0027230	protein coding gene	Chr4:105044280-105156757 (-)
WSB/EiJ	MGP_WSBEiJ_G0027761	protein coding gene	Chr4:107862370-107970815 (-)

more

Human Ortholog

SCP2, sterol carrier protein 2

Vertebrate Orthologs

3

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

SCP2, sterol carrier protein 2
Synonyms

NLTP, NSL-TP, SCOX, SCP-2, SCP-CHI, SCP-X, SCPX
Links

HGNC:10606

NCBI Gene ID: 6342

neXtProt AC: NX_P22307

UniProt: P22307
Chr Location

1p32.3; chr1:52927276-53051698 (+) GRCh38

MGI Vertebrate Homology

Scp2 stringent orthology
1 human;1 mouse;1 rat;1 zebrafish
HCOP

vertebrate homology predictions: SCP2
Gene Tree

Scp2

less

Phenotype Summary

24 phenotypes from 3 alleles in 3 genetic backgrounds
32 phenotype references

Phenotype Overview

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

Close

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

25
Chemically induced (other)

2
Endonuclease-mediated

2
Gene trapped

14
Radiation induced

1
Targeted

6
Genomic Mutations

4 involving Scp2
Incidental Mutations

Mutagenetix , APF , CvDC
Find Mice (IMSR)

59 strains or lines available
Comparison Matrix

Gene Expression + Phenotype

Mice homozygous for disruptions of this gene exhibit altered lipid levels and both males and females are sensitive to phytol-rich diets.

less

All GO Annotations

83
GO References

14

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

less

Expression Overview

Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

Close

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

834
Tissues

118
cDNA Data

382
Literature Summary

8

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase scp2

ZFIN scp2a

less

All Sequences

63
RefSeq

4
UniProt

3
CCDS

CCDS18446.1

Ensembl

ENSMUSG00000028603 (Evidence)
NCBI Gene

20280

Representative Sequences				Length	Strain/Species	Flank
	genomic	20280	NCBI Gene Model \| MGI Sequence Detail	101142	C57BL/6J	± kb
	transcript	NM_011327	RefSeq \| MGI Sequence Detail	2664	ZRU/MplStud
	polypeptide	P32020	UniProt \| EBI \| MGI Sequence Detail	547	Not Applicable

less

UniProt

3 Sequences
Protein Ontology

PR:000014534 sterol carrier protein 2

(term hierarchy)
EC

2.3.1.155, 2.3.1.16, 2.3.1.176
InterPro Domains

IPR003033 SCP2 sterol-binding domain

IPR036527 SCP2 sterol-binding domain superfamily

IPR020615 Thiolase, acyl-enzyme intermediate active site

IPR020613 Thiolase, conserved site

IPR016039 Thiolase-like

IPR020616 Thiolase, N-terminal
GlyGen

P32020 1 site, 1 O-linked glycan (1 site)

less

All nucleic 392

Genomic 4

cDNA 384

Primer pair 4

Microarray probesets 6

less

MGD-MRK-14327, MGI:2140147, MGI:2140148, MGI:2140647, MGI:2140673

more

Summaries

All 94

Developmental Gene Expression 8

Gene Ontology 14

Phenotypes 32
Earliest

J:11174 Moncecchi D, et al., cDNA sequence and bacterial expression of mouse liver sterol carrier protein-2. J Biol Chem. 1991 May 25;266(15):9885-92
Latest

J:338452 Wang D, et al., MOF-mediated histone H4 Lysine 16 acetylation governs mitochondrial and ciliary functions by controlling gene promoters. Nat Commun. 2023 Jul 21;14(1):4404

TSS for Scp2:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr42717	Chr4:108002183-108002217 (-)	-32 bp
Tssr42716	Chr4:108002149-108002181 (-)	3 bp
Tssr42715	Chr4:107975930-107975976 (-)	26,215 bp
Tssr42714	Chr4:107975725-107975750 (-)	26,430 bp
Tssr42713	Chr4:107975702-107975718 (-)	26,458 bp
Tssr42712	Chr4:107975667-107975695 (-)	26,487 bp
Tssr42711	Chr4:107962343-107962356 (-)	39,818 bp
Tssr42710	Chr4:107937964-107938006 (-)	64,183 bp
Tssr42709	Chr4:107931658-107931673 (-)	70,502 bp
Tssr42708	Chr4:107928840-107928849 (-)	73,323 bp
Tssr42707	Chr4:107928524-107928605 (-)	73,603 bp
Tssr42706	Chr4:107927161-107927165 (-)	75,005 bp
Tssr42705	Chr4:107909074-107909115 (-)	93,073 bp

Scp2 is Candidate Gene for:

QTL	Genetic Location*	Genome Location (GRCm39)	Reference	QTL Note
Bglq4	Chr4, 33.96 cM		J:99477	Authors used novel data mining tool ExQuest to identify novel candidate genes for existing diabesity QTLs. Next, candidate gene expression in the liver, adipose, and pancreas of diabesity-prone Tally Ho mice and diabesity-resistant C57BL/6J mice was assessed by quantitative PCR analysis. Several potential candidate genes, some with no previous association to diabesity QTLs, were identified. Since QTL intervals may be large and could contain hundreds or thousands of potential candidate genes, this method allows researchers to focus on those with strong potential as well as identify novel candidate genes. Potential candidate genes for Tafat (80 cM) on mouse Chromosome 4 as identified by ExQuest are Ela2, Ela3b, and Dvl1 (82 cM). Chr 10 locus Ela2 exhibits 55-fold decreased expression in the pancreas of Tally Ho animals compared to C57BL/6J. For QTL Bwq1 (6.3 cM), potential candidate gene Decr1 was identified. For QTLs Triglq1 (6.5 cM) and Bglq4 (6.5 cM), potential candidate genes Ttpa, Bhmt(Chr 13), Baat(22.7 cM), and Aldob (22.3 cM) were identified. For QTLs Nidd1 (48 cM) and Dob1 (50 cM), potential candidate genes Lepr (46.7 cM), Dio1 (48.7 cM), Scp2 (52 cM), Faah (56.5 cM), and Usp1 were identified.
Dob1	Chr4, syntenic	Chr4:101574601-123127211	J:99477	Authors used novel data mining tool ExQuest to identify novel candidate genes for existing diabesity QTLs. Next, candidate gene expression in the liver, adipose, and pancreas of diabesity-prone Tally Ho mice and diabesity-resistant C57BL/6J mice was assessed by quantitative PCR analysis. Several potential candidate genes, some with no previous association to diabesity QTLs, were identified. Since QTL intervals may be large and could contain hundreds or thousands of potential candidate genes, this method allows researchers to focus on those with strong potential as well as identify novel candidate genes. Potential candidate genes for Tafat (80 cM) on mouse Chromosome 4 as identified by ExQuest are Ela2, Ela3b, and Dvl1 (82 cM). Chr 10 locus Ela2 exhibits 55-fold decreased expression in the pancreas of Tally Ho animals compared to C57BL/6J. For QTL Bwq1 (6.3 cM), potential candidate gene Decr1 was identified. For QTLs Triglq1 (6.5 cM) and Bglq4 (6.5 cM), potential candidate genes Ttpa, Bhmt(Chr 13), Baat(22.7 cM), and Aldob (22.3 cM) were identified. For QTLs Nidd1 (48 cM) and Dob1 (50 cM), potential candidate genes Lepr (46.7 cM), Dio1 (48.7 cM), Scp2 (52 cM), Faah (56.5 cM), and Usp1 were identified.
Nidd1	Chr4, syntenic		J:99477	Authors used novel data mining tool ExQuest to identify novel candidate genes for existing diabesity QTLs. Next, candidate gene expression in the liver, adipose, and pancreas of diabesity-prone Tally Ho mice and diabesity-resistant C57BL/6J mice was assessed by quantitative PCR analysis. Several potential candidate genes, some with no previous association to diabesity QTLs, were identified. Since QTL intervals may be large and could contain hundreds or thousands of potential candidate genes, this method allows researchers to focus on those with strong potential as well as identify novel candidate genes. Potential candidate genes for Tafat (80 cM) on mouse Chromosome 4 as identified by ExQuest are Ela2, Ela3b, and Dvl1 (82 cM). Chr 10 locus Ela2 exhibits 55-fold decreased expression in the pancreas of Tally Ho animals compared to C57BL/6J. For QTL Bwq1 (6.3 cM), potential candidate gene Decr1 was identified. For QTLs Triglq1 (6.5 cM) and Bglq4 (6.5 cM), potential candidate genes Ttpa, Bhmt(Chr 13), Baat(22.7 cM), and Aldob (22.3 cM) were identified. For QTLs Nidd1 (48 cM) and Dob1 (50 cM), potential candidate genes Lepr (46.7 cM), Dio1 (48.7 cM), Scp2 (52 cM), Faah (56.5 cM), and Usp1 were identified.
Tafat	Chr4, 74.75 cM	Chr4:141621281-141621387	J:99477	Authors used novel data mining tool ExQuest to identify novel candidate genes for existing diabesity QTLs. Next, candidate gene expression in the liver, adipose, and pancreas of diabesity-prone Tally Ho mice and diabesity-resistant C57BL/6J mice was assessed by quantitative PCR analysis. Several potential candidate genes, some with no previous association to diabesity QTLs, were identified. Since QTL intervals may be large and could contain hundreds or thousands of potential candidate genes, this method allows researchers to focus on those with strong potential as well as identify novel candidate genes. Potential candidate genes for Tafat (80 cM) on mouse Chromosome 4 as identified by ExQuest are Ela2, Ela3b, and Dvl1 (82 cM). Chr 10 locus Ela2 exhibits 55-fold decreased expression in the pancreas of Tally Ho animals compared to C57BL/6J. For QTL Bwq1 (6.3 cM), potential candidate gene Decr1 was identified. For QTLs Triglq1 (6.5 cM) and Bglq4 (6.5 cM), potential candidate genes Ttpa, Bhmt(Chr 13), Baat(22.7 cM), and Aldob (22.3 cM) were identified. For QTLs Nidd1 (48 cM) and Dob1 (50 cM), potential candidate genes Lepr (46.7 cM), Dio1 (48.7 cM), Scp2 (52 cM), Faah (56.5 cM), and Usp1 were identified.
Thcir6	Chr4, syntenic		J:314541	Top positional candidate genes include: Ndufs2 (MGI:2385112) for Thcir5; Scp2 (MGI:98254) for Thcir6; Rps6kb1 (MGI:1270849) for Thcir2; Pde4d (MGI:99555) for Thcir4; and Pten (MGI:109583) for Thcir3. These genes are likely to play a role in modulating initial response to THC based on location within modulatory QTL, putative functional sequence variants between B and D haplotypes that segregate among BXD progeny, evidence of genetic control of expression in brain tissue, and previously reported involvement in endocannabinoid/cannabinoid receptor signaling pathways.
Triglq1	Chr4, 10.61 cM	Chr4:25683240-25683429	J:99477	Authors used novel data mining tool ExQuest to identify novel candidate genes for existing diabesity QTLs. Next, candidate gene expression in the liver, adipose, and pancreas of diabesity-prone Tally Ho mice and diabesity-resistant C57BL/6J mice was assessed by quantitative PCR analysis. Several potential candidate genes, some with no previous association to diabesity QTLs, were identified. Since QTL intervals may be large and could contain hundreds or thousands of potential candidate genes, this method allows researchers to focus on those with strong potential as well as identify novel candidate genes. Potential candidate genes for Tafat (80 cM) on mouse Chromosome 4 as identified by ExQuest are Ela2, Ela3b, and Dvl1 (82 cM). Chr 10 locus Ela2 exhibits 55-fold decreased expression in the pancreas of Tally Ho animals compared to C57BL/6J. For QTL Bwq1 (6.3 cM), potential candidate gene Decr1 was identified. For QTLs Triglq1 (6.5 cM) and Bglq4 (6.5 cM), potential candidate genes Ttpa, Bhmt(Chr 13), Baat(22.7 cM), and Aldob (22.3 cM) were identified. For QTLs Nidd1 (48 cM) and Dob1 (50 cM), potential candidate genes Lepr (46.7 cM), Dio1 (48.7 cM), Scp2 (52 cM), Faah (56.5 cM), and Usp1 were identified.

*cM position of peak correlated region/marker

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 03/25/2025 MGI 6.24

Building initial tooltip...