HABP4 (hyaluronan binding protein 4)

Gene: HABP4 (hyaluronan binding protein 4) Sus scrofa

Analyze

Symbol:

HABP4

Name:

hyaluronan binding protein 4

RGD ID:

14261662

Description:

ENCODES a protein that exhibits RNA binding (inferred); SUMO binding (inferred); INVOLVED IN cellular response to mechanical stimulus (ortholog); ASSOCIATED WITH genetic disease (ortholog); intellectual disability (ortholog); FOUND IN sarcomere (ortholog); synapse (ortholog)

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

intracellular hyaluronan-binding protein 4

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	10	25,598,175 - 25,636,046 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	10	25,599,413 - 25,636,000 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	10	29,514,408 - 29,538,323 (+)	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)

intellectual disability (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cellular response to mechanical stimulus (ISO)

PML body organization (IEA)

positive regulation of RNA splicing (IBA,IEA)

positive regulation of translational initiation (IBA,IEA)

regulation of translation (IEA)

Cellular Component

Cajal body (IEA)

cytoplasm (IBA,IEA)

cytoplasmic stress granule (IEA)

cytosol (IEA)

Gemini of coiled bodies (IEA)

nuclear membrane (IEA)

nuclear speck (IEA)

nucleolus (IEA)

nucleus (IBA,IEA)

sarcomere (ISO)

synapse (ISO)

Molecular Function

protein binding (ISO)

RNA binding (IBA,IEA)

SUMO binding (IEA)

References

Additional References at PubMed

PMID:14681463	PMID:17145712	PMID:30032202

Genomics

Comparative Map Data

HABP4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	10	25,598,175 - 25,636,046 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	10	25,599,413 - 25,636,000 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	10	29,514,408 - 29,538,323 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

HABP4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	9	96,450,102 - 96,491,336 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	9	96,450,169 - 96,491,336 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	9	99,212,451 - 99,253,618 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	9	98,252,235 - 98,293,439 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	9	96,292,041 - 96,332,342	NCBI
Celera	9	69,653,998 - 69,695,193 (+)	NCBI		Celera
Cytogenetic Map	9	q22.32	NCBI
HuRef	9	68,823,310 - 68,864,515 (+)	NCBI		HuRef
CHM1_1	9	99,359,257 - 99,400,445 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	9	108,621,878 - 108,663,114 (+)	NCBI		T2T-CHM13v2.0

Habp4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	64,309,680 - 64,334,351 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	13	64,309,638 - 64,334,351 (+)	Ensembl		GRCm39 Ensembl
GRCm38	13	64,161,866 - 64,186,537 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	64,161,824 - 64,186,537 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	13	64,263,174 - 64,287,845 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	13	64,171,142 - 64,195,756 (+)	NCBI		MGSCv36	mm8
Celera	13	65,825,382 - 65,849,877 (+)	NCBI		Celera
Cytogenetic Map	13	B3	NCBI
cM Map	13	33.26	NCBI

Habp4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	17	940,672 - 963,358 (-)	NCBI		GRCr8
mRatBN7.2	17	934,931 - 957,604 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	17	935,654 - 957,565 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	17	954,331 - 976,245 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	17	2,496,907 - 2,518,821 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	17	951,753 - 973,667 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	17	1,679,561 - 1,702,245 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	17	1,679,627 - 1,701,623 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	17	1,669,161 - 1,691,807 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	6,462,632 - 6,484,546 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	17	6,461,911 - 6,484,529 (-)	NCBI
Celera	17	1,559,641 - 1,581,556 (+)	NCBI		Celera
Cytogenetic Map	17	p14	NCBI

Habp4
(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_004955422	23,450,251 - 23,475,984 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955422	23,449,175 - 23,475,919 (-)	NCBI	ChiLan1.0	ChiLan1.0

HABP4
(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	11	42,960,697 - 43,002,100 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	9	42,963,075 - 43,004,476 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	9	67,545,866 - 67,587,270 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	9	95,640,088 - 95,708,956 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	9	95,668,184 - 95,707,653 (+)	Ensembl	panpan1.1		panPan2

HABP4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	1	70,339,386 - 70,381,694 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	1	70,340,627 - 70,377,204 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	1	71,102,548 - 71,145,168 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	1	70,638,461 - 70,681,245 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	1	70,638,461 - 70,681,444 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	1	70,451,726 - 70,494,546 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	1	70,214,850 - 70,257,618 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	1	70,925,886 - 70,968,739 (-)	NCBI		UU_Cfam_GSD_1.0

Habp4
(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_024404944	6,186,158 - 6,207,913 (+)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936487	402,701 - 424,399 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

HABP4
(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	12	106,645,715 - 106,685,444 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	12	106,643,424 - 106,685,417 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666038	95,044,457 - 95,084,354 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Habp4
(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_004624753	18,047,970 - 18,078,150 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624753	18,048,042 - 18,077,322 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in HABP4
891 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						16	2
Low	9	4	3	5	2	7		3	3
Below cutoff	1

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001244681	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AEMK02000074	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK232758	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK345592	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK345827	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK391863	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK400673	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FP340273	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GFLN01044528	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSSCT00000039933 ⟹ ENSSSCP00000034911

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	10	25,598,175 - 25,636,048 (-)	Ensembl

RefSeq Acc Id:

ENSSSCT00000054110 ⟹ ENSSSCP00000046537

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	10	25,598,175 - 25,636,046 (-)	Ensembl

RefSeq Acc Id:

NM_001244681 ⟹ NP_001231610

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1	10	25,599,413 - 25,636,000 (-)	NCBI

Sequence:

show sequence

TTAGCTGCGGGTAGGATGGGTCCTCGCCGCCGGCTTCGTTGAGACTTGCTCGCGTGGGCTGCCC
TCGGCGGGCCCGCAGTGGCCGCGGCGGCATGAAGGGCGCTCTGGGGAGTCCTGTGGCCGCGGCC
GCCGCAGGCGCCGTGATGCAGGAGAGTTTCGGCTGCGTAGTGGCCAACCGCTTCCACCAGCTGC
TGGACGACGGGTCAGACCCGTTCGACATCCTGCGCGAGGCCGAGCGCCGGCGCCAGCAGCAGCT
GCAGCGCAAGAGGCGCGACGAGGCGGCGGCGGCGGTGGCAGCGGGGACCGGCAACCGCGGTGGC
AGGAGCCCGGCTGGGGCTTCGGGCCACAGACCCGGCGCGGGCGGCGGCCGGAGGGAGTCCCAGA
AGGAGCGCAAGAGCCTCCCGGCCCCCGGCGCACAGCAGCCGGACAGCCCCGGGGGCGGCCCGCA
GCCGCCTGGCCAGAAGCGAACTCCCAGAAGAGGGGAGCAGCAAGGATGGAGTGATAGCCGCGGC
ACAGAGGTGGCGCTTGATAGAGCAGAGCGGAGATCCTACAGGGAATATCGACCCTACGAGACCG
AGAGGCAGGCGGACTTTACACCTGAGAAGTTTACAGATGAAAAACCAGTTGACAGATTTGATCG
AGACAGACCACTGAGAGGACGTGGAGGCCCAAGAGGGGGCATGCGAAGCAGAGGCAGAGGTGGT
CTTGGGAACAGAGCTTTTGACGGTTTTGACCAGAGAGGGAAACGAGAATTTGAGAGATACGGTG
GCAGTGATAAAATAGCAATCAGAACTGAAGACAACACGGGTGGATATGGAGTTCGCACCTGGGG
ATCAGGTAAAGATACCAGTGATGTGGACCCAACTGCTCCGATGGAGGAGGCCACAGCCGTGGAC
GAGTCCCTGTGCCCCCTGGAGGAGGAAGCTCCAGCCAAAGTTCCTGACTTGGAGGTAGAAGAAG
AAAACCAAGTTCAAGAGATGACCCTAGATGAGTGGAAAAATCTTCAAGAACAGACCAGACCAAA
GCCTGAATTTAACATCCGGAAACCTGAGTCCACTGTCCCTTCCAAAGCAGTGGTGATACACAAG
GCCAGATATAGAGATGATATGGTAAAGGATGACTATGAGGATGATGCCCATGTTTTCCGGAAAG
CGGCCAACGACATCACATCCCAGCTGGAGATTAACTTTGGTAACCTCCCTCGTCCCGGGCGTGG
AGCCAGAGGTGGCACCCGGGGAGGCCGGGGAAGGATCAGAAGGGCAGAAAACTACGTCCCCAGA
GCAGAAGTGGTGACACAAGATGTCGCTCCAAACCCAGATGACCCTGAAGACTTTCCTGCTCTGG
CATGAGCGCCCGATTTCCTTGGCCACATCCAACAGCACTGGCCAACCTACCAAGAAGACTTCTC
TTGCTCTGGGGAAGAGAGTCAGACTCTAAGAACAATAGATGTTGCTTTTTCCCGTGTAAAAAAA
AAAAAAAAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001231610	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSSCP00000046537
	ENSSSCP00000046537.1
	ENSSSCP00050017899.1

RefSeq Acc Id:

NP_001231610 ⟸ NM_001244681

- UniProtKB:

A0A8D1M3Q5 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MKGALGSPVAAAAAGAVMQESFGCVVANRFHQLLDDGSDPFDILREAERRRQQQLQRKRRDEAA
AAVAAGTGNRGGRSPAGASGHRPGAGGGRRESQKERKSLPAPGAQQPDSPGGGPQPPGQKRTPR
RGEQQGWSDSRGTEVALDRAERRSYREYRPYETERQADFTPEKFTDEKPVDRFDRDRPLRGRGG
PRGGMRSRGRGGLGNRAFDGFDQRGKREFERYGGSDKIAIRTEDNTGGYGVRTWGSGKDTSDVD
PTAPMEEATAVDESLCPLEEEAPAKVPDLEVEEENQVQEMTLDEWKNLQEQTRPKPEFNIRKPE
STVPSKAVVIHKARYRDDMVKDDYEDDAHVFRKAANDITSQLEINFGNLPRPGRGARGGTRGGR
GRIRRAENYVPRAEVVTQDVAPNPDDPEDFPALA

hide sequence

RefSeq Acc Id:

ENSSSCP00000034911 ⟸ ENSSSCT00000039933

RefSeq Acc Id:

ENSSSCP00000046537 ⟸ ENSSSCT00000054110

Protein Domains

Hyaluronan/mRNA-binding protein

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSSCG00000035956	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
	ENSSSCG00050032291	UniProtKB/TrEMBL
Ensembl Transcript	ENSSSCT00000054110	ENTREZGENE
	ENSSSCT00000054110.3	UniProtKB/TrEMBL
	ENSSSCT00050043348.1	UniProtKB/TrEMBL
InterPro	HABP4/SERBP1	UniProtKB/TrEMBL
	HABP4_PAIRBP1-bd	UniProtKB/TrEMBL
	IHABP4_N	UniProtKB/TrEMBL
NCBI Gene	HABP4	ENTREZGENE
PANTHER	INTRACELLULAR HYALURONAN-BINDING PROTEIN 4	UniProtKB/TrEMBL
	PTHR12299	UniProtKB/TrEMBL
Pfam	HABP4_PAI-RBP1	UniProtKB/TrEMBL
	IHABP4_N	UniProtKB/TrEMBL
SMART	HABP4_PAI-RBP1	UniProtKB/TrEMBL
UniProt	A0A287AR46_PIG	UniProtKB/TrEMBL
	A0A8D1M3Q5	ENTREZGENE, UniProtKB/TrEMBL
VGNC ID	VGNC:95828	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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