LYSET (lysosomal enzyme trafficking factor)

Gene: LYSET (lysosomal enzyme trafficking factor) Sus scrofa

Analyze

Symbol:

LYSET

Name:

lysosomal enzyme trafficking factor

RGD ID:

14285988

Description:

INVOLVED IN lysosome organization (ortholog); regulation of vesicle-mediated transport (ortholog); ASSOCIATED WITH achondrogenesis type IA (ortholog); DYSOSTOSIS MULTIPLEX, AIN-NAZ TYPE (ortholog); genetic disease (ortholog); FOUND IN Golgi apparatus (ortholog)

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

D230037D09Rik-like protein; TMEM251; transmembrane protein 251; UPF0694 transmembrane protein C14orf109 homolog

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	7	114,574,139 - 114,575,883 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	114,574,393 - 114,575,887 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	121,160,392 - 121,161,888 (+)	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

achondrogenesis type IA (ISO)

DYSOSTOSIS MULTIPLEX, AIN-NAZ TYPE (ISO)

genetic disease (ISO)

intellectual disability (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

lysosomal transport (IEA)

lysosome organization (IEA,ISS)

regulation of vesicle-mediated transport (IEA,ISS)

Cellular Component

Golgi apparatus (IEA,ISS)

Golgi cisterna (IEA)

Golgi membrane (IEA)

membrane (IEA)

Molecular Function

protein binding (ISO)

References

Additional References at PubMed

PMID:15679890

Genomics

Comparative Map Data

LYSET
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	114,574,139 - 114,575,883 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	114,574,393 - 114,575,887 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	121,160,392 - 121,161,888 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LYSET
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	14	93,184,974 - 93,188,463 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	14	93,184,951 - 93,188,463 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	14	93,651,319 - 93,654,808 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	14	92,721,049 - 92,723,184 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	14	73,705,303 - 73,707,438 (+)	NCBI		Celera
Cytogenetic Map	14	q32.12	NCBI
HuRef	14	73,831,735 - 73,833,870 (+)	NCBI		HuRef
CHM1_1	14	93,589,396 - 93,591,531 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	14	87,416,913 - 87,420,404 (+)	NCBI		T2T-CHM13v2.0

Lyset
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	12	102,709,978 - 102,714,551 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	12	102,710,021 - 102,713,820 (+)	Ensembl		GRCm39 Ensembl
GRCm38	12	102,743,719 - 102,745,406 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	102,743,762 - 102,747,561 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	12	103,981,970 - 103,983,607 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	12	103,144,808 - 103,146,447 (+)	NCBI		MGSCv36	mm8
Celera	12	103,960,962 - 103,962,599 (+)	NCBI		Celera
Cytogenetic Map	12	E	NCBI
cM Map	12	52.15	NCBI

Lyset
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	127,649,401 - 127,651,143 (+)	NCBI		GRCr8
mRatBN7.2	6	121,884,577 - 121,886,319 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	121,884,643 - 121,886,275 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	122,023,007 - 122,024,749 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	122,318,257 - 122,319,999 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	121,654,516 - 121,656,259 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	126,622,692 - 126,630,642 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	126,623,015 - 126,623,895 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	135,828,464 - 135,831,643 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	6	119,371,584 - 119,379,534 (+)	NCBI		Celera
Cytogenetic Map	6	q32	NCBI

Lyset
(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_004955438	15,305,699 - 15,309,851 (+)	NCBI	ChiLan1.0	ChiLan1.0

LYSET
(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	15	94,342,688 - 94,344,828 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	14	93,559,194 - 93,561,333 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	14	73,817,605 - 73,819,747 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	14	93,154,232 - 93,156,065 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	14	93,154,232 - 93,156,065 (+)	Ensembl	panpan1.1		panPan2

LYSET
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	8	62,394,838 - 62,398,637 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	8	62,394,832 - 62,395,881 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	8	61,971,466 - 61,973,898 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	8	62,665,220 - 62,667,626 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	8	62,665,659 - 62,666,579 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	8	62,344,153 - 62,346,563 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	8	62,395,542 - 62,397,948 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	8	62,725,002 - 62,727,409 (+)	NCBI		UU_Cfam_GSD_1.0

Lyset
(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_024408640	12,351,595 - 12,353,373 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936733	1,113,755 - 1,118,094 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936733	1,113,681 - 1,115,446 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LYSET
(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	24	70,921,807 - 70,923,947 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	24	70,922,060 - 70,924,183 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666053	58,173,561 - 58,175,652 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Lyset
(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_female_1.0 Ensembl	NW_004624734	9,616,159 - 9,618,644 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624734	9,616,155 - 9,618,108 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in LYSET
39 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	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system
High
Medium	8	2		5				2	3
Low	2	2	3		2	23	2	1
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001001629	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AEMK02000061	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK350059	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY550926	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AY609749	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CT737384	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GFLN01012886	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSSCT00000002729 ⟹ ENSSSCP00000002660

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	7	114,574,139 - 114,575,883 (+)	Ensembl

RefSeq Acc Id:

NM_001001629 ⟹ NP_001001629

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1	7	114,574,393 - 114,575,887 (+)	NCBI

Sequence:

show sequence

CCGGCAGCCGCGACAGGGGCCGGGCCGCCGCGTGACCGGCTACAGTCACGCTGTGCTTAATCAC
AATTAGCTTTTGCTCCAGACTGGCGGTGCTCACCATTCTCCCAGCCGGTAACCCCGGGGATTTC
TTTTATGGTGGCTTCCTCTGAAATGCCAAAGCCACCCGATTATTCAGAGCTGAGTGACTCTTTA
ACGCTTCCCGTGGGAACAGGAAGATTTTCGGGACCACTGCACAGAGCATGGAGAATGATGAACT
TCCGTCAGCGGATGGGATGGATTGGAGTGGGATTGTATCTGTTAGCAAGTGCAGCAGCATTTTA
CTACGTTTTTGAAATCAATGAGACTTACAACAGGCTGGCCTTGGAACACATTCAGCAGCACCCA
GAGGAGCCCCTTGAGGGAACCACATGGACACACTCCTTGAAATCTCGGTTACTTTCCCTACCTT
TTTGGTTTTGGACAATTATTTTTCTGATACCGTACTTACAGATGTTTTTGTTCCTTTACTCTTG
TACAAGAGCTGACCCCAAGACGGTGGGTTACTGTATTATTCCCATATGCTTGGCCGTTATATGC
AATCGCCACCAGGCATTTGTCAAGGCGTCTAATCAGATCAGCAGACTACAACTGATTGACACAT
AAAATCAGTCGCCATTTTTTCCTTACAAGTACAAAACTGCCGGTATTGTATGGAGCCTGATCAC
AAGACTGCAGTTCCTTCACAGATCTCAGGAAGTTGTGGTGGGGCAGAGGCTTTTTAAAAAAATG
TGACTAGGGGACTATCCTTATCTGAATAATAATGAGTTTTTAGGTGAAGCCTGAGATACAGTAC
TACAAAATCATGTTAATGACTTCAGATTTTGGAAGTAAAATTTTACCTGTTATTTGCATTCTTT
AGAAACTTGAATAAGTTTACCTGGACTCATATTTTTATTCTACTGTGCAACATAGTGATGATTC
AGAAAATTTTCCTTTGGGGAAAAAATGAATATGAACATTTCCATTGTGTTTAATGTTAAACGGT
CCAAACATGGTCATAAAATTTAAATTTTATACAAAAAAAAAAAGCAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001001629	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAS59064	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSSCP00000002660
	ENSSSCP00000002660.3
	ENSSSCP00015007973.1
	ENSSSCP00025010597.1
	ENSSSCP00030048038.1
	ENSSSCP00035017768.1
	ENSSSCP00040036953.1
	ENSSSCP00045045340.1
	ENSSSCP00050029801.1
	ENSSSCP00055005039.1
	ENSSSCP00060029643.1
	ENSSSCP00065031667.1
	ENSSSCP00070002939.1
GenBank Protein	Q6QA74	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	NP_001001629 ⟸ NM_001001629
- UniProtKB:	Q6QA74 (UniProtKB/Swiss-Prot), A0A2C9F370 (UniProtKB/TrEMBL), A0A4X1SKM7 (UniProtKB/TrEMBL)
- Sequence:	show sequence MPKPPDYSELSDSLTLPVGTGRFSGPLHRAWRMMNFRQRMGWIGVGLYLLASAAAFYYVFEINE TYNRLALEHIQQHPEEPLEGTTWTHSLKSRLLSLPFWFWTIIFLIPYLQMFLFLYSCTRADPKT VGYCIIPICLAVICNRHQAFVKASNQISRLQLIDT hide sequence

RefSeq Acc Id:

ENSSSCP00000002660 ⟸ ENSSSCT00000002729

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSSCG00000002458	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
	ENSSSCG00015015371	UniProtKB/TrEMBL
	ENSSSCG00025018490	UniProtKB/TrEMBL
	ENSSSCG00030074083	UniProtKB/TrEMBL
	ENSSSCG00035033455	UniProtKB/TrEMBL
	ENSSSCG00040062153	UniProtKB/TrEMBL
	ENSSSCG00045037217	UniProtKB/TrEMBL
	ENSSSCG00050050957	UniProtKB/TrEMBL
	ENSSSCG00055003268	UniProtKB/TrEMBL
	ENSSSCG00060050687	UniProtKB/TrEMBL
	ENSSSCG00065053083	UniProtKB/TrEMBL
	ENSSSCG00070001904	UniProtKB/TrEMBL
Ensembl Transcript	ENSSSCT00000002729	ENTREZGENE
	ENSSSCT00000002729.5	UniProtKB/TrEMBL
	ENSSSCT00015020345.1	UniProtKB/TrEMBL
	ENSSSCT00025025087.1	UniProtKB/TrEMBL
	ENSSSCT00030103854.1	UniProtKB/TrEMBL
	ENSSSCT00035044342.1	UniProtKB/TrEMBL
	ENSSSCT00040084662.1	UniProtKB/TrEMBL
	ENSSSCT00045064210.1	UniProtKB/TrEMBL
	ENSSSCT00050069365.1	UniProtKB/TrEMBL
	ENSSSCT00055006392.1	UniProtKB/TrEMBL
	ENSSSCT00060068934.1	UniProtKB/TrEMBL
	ENSSSCT00065072688.1	UniProtKB/TrEMBL
	ENSSSCT00070003550.1	UniProtKB/TrEMBL
InterPro	TMEM251	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report	ssc:414384	UniProtKB/Swiss-Prot
NCBI Gene	TMEM251	ENTREZGENE
PANTHER	PTHR31925	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
	TRANSMEMBRANE PROTEIN 251	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam	TMEM251	UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt	A0A2C9F370	ENTREZGENE, UniProtKB/TrEMBL
	A0A4X1SKM7	ENTREZGENE, UniProtKB/TrEMBL
	Q6QA74	ENTREZGENE, UniProtKB/Swiss-Prot
VGNC ID	VGNC:98378	ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2022-09-13	LYSET	lysosomal enzyme trafficking factor	TMEM251	transmembrane protein 251	Symbol and/or name change	19259463	PROVISIONAL

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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Imported Disease Annotations - ClinVar

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