LLPH (LLP homolog, long-term synaptic facilitation factor)

Gene: LLPH (LLP homolog, long-term synaptic facilitation factor) Sus scrofa

Analyze

Symbol:

LLPH

Name:

LLP homolog, long-term synaptic facilitation factor

RGD ID:

14239688

Description:

ENCODES a protein that exhibits basal RNA polymerase II transcription machinery binding (inferred); RNA binding (inferred); INVOLVED IN dendrite extension (inferred); positive regulation of dendritic spine development (inferred); ASSOCIATED WITH genetic disease (ortholog); FOUND IN chromosome (inferred); nucleolus (inferred); INTERACTS WITH deoxynivalenol

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

protein LLP 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	5	30,474,375 - 30,485,057 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	5	30,478,545 - 30,485,534 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	5	33,720,154 - 33,726,378 (-)	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

genetic disease (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

deoxynivalenol (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

dendrite extension (IBA,IEA)

positive regulation of dendritic spine development (IEA)

Cellular Component

chromosome (IEA)

nucleolus (IBA,IEA)

Molecular Function

basal RNA polymerase II transcription machinery binding (IBA,IEA)

protein binding (ISO)

RNA binding (IEA)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

LLPH
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	5	30,474,375 - 30,485,057 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	5	30,478,545 - 30,485,534 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	5	33,720,154 - 33,726,378 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LLPH
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	12	66,116,555 - 66,130,750 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	12	66,116,555 - 66,130,750 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	12	66,510,335 - 66,524,530 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	12	64,803,109 - 64,810,800 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	12	66,183,159 - 66,190,843 (-)	NCBI		Celera
Cytogenetic Map	12	q14.3	NCBI
HuRef	12	63,569,736 - 63,577,414 (-)	NCBI		HuRef
CHM1_1	12	66,483,713 - 66,491,397 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	12	66,096,061 - 66,110,256 (-)	NCBI		T2T-CHM13v2.0

Llph
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	10	120,062,967 - 120,067,976 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	10	120,062,975 - 120,068,487 (+)	Ensembl		GRCm39 Ensembl
GRCm38	10	120,227,048 - 120,232,071 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	10	120,227,070 - 120,232,582 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	10	119,664,116 - 119,669,126 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	10	119,630,120 - 119,635,130 (+)	NCBI		MGSCv36	mm8
Celera	10	122,589,231 - 122,594,255 (+)	NCBI		Celera
Cytogenetic Map	10	D2	NCBI
cM Map	10	67.94	NCBI

Llph
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	7	57,620,925 - 57,625,924 (+)	NCBI		GRCr8
mRatBN7.2	7	55,735,317 - 55,740,341 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	55,735,400 - 55,740,339 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	7	57,643,034 - 57,646,763 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	59,846,217 - 59,849,946 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	59,623,559 - 59,627,289 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	65,004,544 - 65,009,509 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	65,005,791 - 65,008,823 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	65,223,409 - 65,228,370 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	126,240,444 - 126,241,523 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	7	59,510,526 - 59,515,726 (+)	NCBI
Celera	7	52,492,001 - 52,495,730 (+)	NCBI		Celera
Cytogenetic Map	7	q22	NCBI

Llph
(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_004955458	12,785,194 - 12,791,915 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955458	12,785,194 - 12,791,918 (-)	NCBI	ChiLan1.0	ChiLan1.0

LLPH
(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	10	28,222,470 - 28,229,670 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	12	28,219,238 - 28,226,435 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	12	22,777,107 - 22,784,862 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	12	23,283,068 - 23,290,777 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	12	23,283,068 - 23,290,777 (+)	Ensembl	panpan1.1		panPan2

LLPH
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	10	8,631,891 - 8,638,922 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	10	8,631,879 - 8,639,226 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	10	8,562,755 - 8,570,274 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	10	8,743,792 - 8,751,304 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	10	8,742,707 - 8,751,589 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	10	8,620,085 - 8,627,597 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	10	8,866,273 - 8,873,322 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	10	8,987,767 - 8,994,826 (-)	NCBI		UU_Cfam_GSD_1.0

Llph
(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_024404945	49,907,501 - 49,912,796 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936545	4,195,768 - 4,202,613 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936545	4,197,328 - 4,202,557 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LLPH
(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	11	61,806,190 - 61,813,789 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	11	61,805,855 - 61,813,742 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666037	183,910,252 - 183,918,710 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Llph
(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_004624802	2,176,739 - 2,182,680 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in LLPH
196 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						1
Low	10	4	3	5	2	22	2	3	3
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_003126360	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AEMK02000033	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK389861	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CU929864	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GFLN01093439	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSSCT00000057917 ⟹ ENSSSCP00000052996

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	5	30,474,375 - 30,485,057 (-)	Ensembl

RefSeq Acc Id:

XM_003126360 ⟹ XP_003126408

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1	5	30,478,545 - 30,485,534 (-)	NCBI

Sequence:

show sequence

TCTGGAGGTGACTCCTCTGAGCCCACACTGGTGCTGAATAAACCTCGCTTTGCCACATTCCTGA
GTGCCCTTTGTCTCCTTCTGCTGCCATGTTTCTGCAGTTTCTGTAACAATCTTAATTGGGCGAT
GCGAGGTGTGAGGCGAGAGGTGAGTTCTAAAGGTAGGCTCTCAGCTCTCTGTTGGACAGGCAAC
AAAGGAGGTCATCTGGCAGGGACCCCTCCTAGGATTAGTCTAGGGGTTGCCCCGCCCCCGTCCG
GAAAGCAGGTCTCGCTGGAGCCGGATCCCCAGCCGGGGTTCCCCCGCTTTAAATCCGACTTTAC
AACCCACCTAGGAGGAGACAGACTACGTCCCCACTCGCCCTGAAGGCAGGAAGTGCGTCAGCCC
CGGACTCCAGAGAACCCGCCTCTCCAGGCCATCCGGGGCATTTGGGCTCCCGGCGTGCAGCGGA
GCTGGCTGCCCGGAAGGCGGAAGTTTAGGGACTTCCTGTCGGCGTGAGTGGCGTGTGGCGTCTA
AGTTTCTGCGCTTTCTCAGGTAAAATATGGCTAAAAGTTTACGGAGTAAGTGGAAAAGGAAAAT
GCGTGCTGAAAAGAGAAAAAAGAATGCCCCAAAGGAGCTGAGCAGACTTAAAAATATTCTTAAA
ATAGGTGGTGATGTTTTAATGAAAGATGTTCAAGAAATAGCAACCGTGGTGGAACCTAAACGTT
GTCAAGAGAAAACCCAATGTGTGGAGAAAGATGAAACAGATGACATGAAAATGGAAACTGATAT
TAAGAGAAACAAAAAGACTCTTTTAGACCAGCATGGACAGTACCCCATATGGATGAACCAGAGG
CAAAGAAAAAGGCTGAAGGCAAAGCGAGAGAAAAAGAAGGGAAAAAGCAAAGCAAAAGCCTTGA
AGGCAGCGAAGGGTTTGGCCTGGTAGACTTAAAAACATGAAAAATGCCACGTGGGACAGATCTT
TGATTAGAATGTATACATTGATTTCAGCTTCCATCAAATGAAAACTGTTTCGTTTTTTAACTTG
GCCTTTTTCTTCAGTTCAAACCCAACATAACTCCTCAAGTTTGTTTTGGTAACTTGAATAAAAT
ATTTTCTTTGATGAATGAAGACTACACTGATATTTTAATTGGATGCCATTCAGTATGCAGGGAT
TATCAGACATCAGAATACTCTCAAGTATGGATGTGGTTGTAATTCGGTCTTAGTAAAGATAAAA
CATGATATTATACTGACAAATTTGAACCGACTCAGATTTAAAGTAAGTTATTATATATCATTTG
AAAGTATGAATGTCAGTGGATCGTATAAACAGTACTTGTTTGGAGTTTTGAGCTTTTATATTCA
GAATAAAAGATGTTCTGTCTGGATCTTAAAGATCCGTTCTTTCATATATCCTTAAGGTTTCCTG
GTAGAGAAGACCAGATTCTTCCATTACATTTTTTTAAAAAATCTTCCATTTTTAGATAGAATAA
TAACATGTACAAATTAGTGTGCTCCATCTTTTTAAGAGATTAAGACATCCTGAAAACTAGTTTA
ATGTTTTTCAGTTTTTATATTATGTAGCCTAATATAAGGCAGCACTTCTCAGAGTATGGTTCTC
AGAATTGGCTCTTCTGGATGCATAGTGAGAAAACATAACGTGGTCACATCAATTTGGGAAATAC
TACATATTTGAAGACTCAAAAAAATGTTTAGCTTGGTATTAGTACAGGCATATCTCAGCGATAA
CTGCAGGTTCAATTTCAGACCACTGCAATAAAATGGGCCACACAAGTTTTTTGGTTTCCCAGCC
TAGTGCATATAAAAATTATGTTGACATCATACTCTAGTCTATTAAGTGTGCAATGGCATTGTAT
CATAAAAAATGATGTACATACCTTACTTAAAAAATAATGCTGTCCAAAAAAATAATAATGCTGT
TGGATAAATAGCACTGATAGACTTGTTTGACATAGGGTTGCCACAAACCTTCAA

hide sequence

Protein Sequences


Protein RefSeqs	XP_003126408	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSSCP00000052996
	ENSSSCP00000052996.1
	ENSSSCP00005011127.1
	ENSSSCP00015026217.1
	ENSSSCP00025012383.1
	ENSSSCP00030001805.1
	ENSSSCP00035006367.1
	ENSSSCP00040002051.1
	ENSSSCP00045000471.1
	ENSSSCP00050039593.1
	ENSSSCP00055021304.1
	ENSSSCP00060037061.1
	ENSSSCP00065005441.1
	ENSSSCP00070048729.1

RefSeq Acc Id:	XP_003126408 ⟸ XM_003126360
- UniProtKB:	A0A287B8Z8 (UniProtKB/TrEMBL), A0A4X1W2N8 (UniProtKB/TrEMBL), A0A8D1BWV2 (UniProtKB/TrEMBL), A0A8D0U5J7 (UniProtKB/TrEMBL)
- Sequence:	show sequence MAKSLRSKWKRKMRAEKRKKNAPKELSRLKNILKIGGDVLMKDVQEIATVVEPKRCQEKTQCVE KDETDDMKMETDIKRNKKTLLDQHGQYPIWMNQRQRKRLKAKREKKKGKSKAKALKAAKGLAW hide sequence

RefSeq Acc Id:

ENSSSCP00000052996 ⟸ ENSSSCT00000057917

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSSCG00000031580	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
	ENSSSCG00005011943	UniProtKB/TrEMBL
	ENSSSCG00015049184	UniProtKB/TrEMBL
	ENSSSCG00025021482	UniProtKB/TrEMBL
	ENSSSCG00030003499	UniProtKB/TrEMBL
	ENSSSCG00035014408	UniProtKB/TrEMBL
	ENSSSCG00040004252	UniProtKB/TrEMBL
	ENSSSCG00045000629	UniProtKB/TrEMBL
	ENSSSCG00050067368	UniProtKB/TrEMBL
	ENSSSCG00055013614	UniProtKB/TrEMBL
	ENSSSCG00060062816	UniProtKB/TrEMBL
	ENSSSCG00065009995	UniProtKB/TrEMBL
	ENSSSCG00070028570	UniProtKB/TrEMBL
Ensembl Transcript	ENSSSCT00000057917	ENTREZGENE
	ENSSSCT00000057917.3	UniProtKB/TrEMBL
	ENSSSCT00005018510.1	UniProtKB/TrEMBL
	ENSSSCT00015065489.1	UniProtKB/TrEMBL
	ENSSSCT00025029189.1	UniProtKB/TrEMBL
	ENSSSCT00030004558.1	UniProtKB/TrEMBL
	ENSSSCT00035018258.1	UniProtKB/TrEMBL
	ENSSSCT00040005546.1	UniProtKB/TrEMBL
	ENSSSCT00045000881.1	UniProtKB/TrEMBL
	ENSSSCT00050091896.1	UniProtKB/TrEMBL
	ENSSSCT00055026803.1	UniProtKB/TrEMBL
	ENSSSCT00060085674.1	UniProtKB/TrEMBL
	ENSSSCT00065013302.1	UniProtKB/TrEMBL
	ENSSSCT00070057322.1	UniProtKB/TrEMBL
InterPro	LAPS18-like	UniProtKB/TrEMBL
KEGG Report	ssc:100513987	UniProtKB/TrEMBL
NCBI Gene	LLPH	ENTREZGENE
PANTHER	PROTEIN LLP HOMOLOG	UniProtKB/TrEMBL
	PTHR34253	UniProtKB/TrEMBL
Pfam	Laps	UniProtKB/TrEMBL
UniProt	A0A287B8Z8	ENTREZGENE, UniProtKB/TrEMBL
	A0A4X1W2N8	ENTREZGENE
	A0A8D0U5J7	ENTREZGENE, UniProtKB/TrEMBL
	A0A8D1BWV2	ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary	A0A4X1W2N8	UniProtKB/TrEMBL
VGNC ID	VGNC:103297	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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