Fndc4 (fibronectin type III domain containing 4)

Gene: Fndc4 (fibronectin type III domain containing 4) Chinchilla lanigera

Analyze

Symbol:

Fndc4

Name:

fibronectin type III domain containing 4

RGD ID:

8972946

Description:

INVOLVED IN negative regulation of inflammatory response (ortholog); response to transforming growth factor beta (ortholog); ASSOCIATED WITH genetic disease (ortholog); lipid storage disease (ortholog); short-rib thoracic dysplasia 10 with or without polydactyly (ortholog); FOUND IN endoplasmic reticulum (ortholog); extracellular space (ortholog); plasma membrane (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

fibronectin type III domain-containing protein 4

RGD Orthologs

Alliance Genes

More Info

more info ...

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

NCBI Annotation Information:

Annotation category: partial on reference assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955469	9,456,236 - 9,459,721 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955469	9,456,964 - 9,459,721 (-)	NCBI	ChiLan1.0	ChiLan1.0

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)

lipid storage disease (ISO)

short-rib thoracic dysplasia 10 with or without polydactyly (ISO)

Tatton-Brown-Rahman syndrome (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

negative regulation of inflammatory response (ISO)

response to transforming growth factor beta (ISO)

Cellular Component

endoplasmic reticulum (ISO)

extracellular space (ISO)

plasma membrane (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species

Additional References at PubMed

PMID:22301074

Genomics

Comparative Map Data

Fndc4
(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_004955469	9,456,236 - 9,459,721 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955469	9,456,964 - 9,459,721 (-)	NCBI	ChiLan1.0	ChiLan1.0

FNDC4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	27,491,883 - 27,495,200 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	27,491,883 - 27,495,200 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	27,714,750 - 27,718,067 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	27,568,254 - 27,571,590 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	2	27,626,401 - 27,629,737	NCBI
Celera	2	27,560,925 - 27,564,301 (-)	NCBI		Celera
Cytogenetic Map	2	p23.3	NCBI
HuRef	2	27,456,639 - 27,460,015 (-)	NCBI		HuRef
CHM1_1	2	27,644,661 - 27,648,037 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	2	27,534,239 - 27,537,558 (-)	NCBI		T2T-CHM13v2.0

Fndc4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	31,449,589 - 31,453,279 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	31,449,586 - 31,453,424 (-)	Ensembl		GRCm39 Ensembl
GRCm38	5	31,292,242 - 31,295,935 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	31,292,242 - 31,296,080 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	31,594,619 - 31,598,250 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	5	31,568,827 - 31,572,458 (-)	NCBI		MGSCv36	mm8
Celera	5	28,771,535 - 28,775,167 (-)	NCBI		Celera
Cytogenetic Map	5	B1	NCBI
cM Map	5	17.27	NCBI

Fndc4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	30,797,102 - 30,800,782 (+)	NCBI		GRCr8
mRatBN7.2	6	25,077,155 - 25,080,812 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	25,077,349 - 25,080,675 (+)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	6	26,387,284 - 26,389,524 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	26,387,877 - 26,389,518 (+)	NCBI	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	36,207,846 - 36,209,615 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Cytogenetic Map	6	q14	NCBI

FNDC4
(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	12	99,016,732 - 99,020,113 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2A	99,020,727 - 99,024,086 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2A	27,494,396 - 27,497,747 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2A	27,582,484 - 27,585,288 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	27,583,044 - 27,585,288 (-)	Ensembl	panpan1.1		panPan2

FNDC4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	17	21,428,771 - 21,431,813 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	17	21,429,348 - 21,431,461 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	17	21,320,535 - 21,323,572 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	17	21,750,138 - 21,753,175 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	17	21,750,127 - 21,752,990 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	17	21,436,741 - 21,439,783 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	17	21,446,221 - 21,449,258 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	17	21,494,475 - 21,497,512 (-)	NCBI		UU_Cfam_GSD_1.0

Fndc4
(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_024406292	65,732,810 - 65,735,907 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936493	5,103,538 - 5,106,800 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936493	5,103,613 - 5,106,755 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

FNDC4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	111,678,892 - 111,682,426 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	111,677,569 - 111,682,496 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	118,790,416 - 118,794,209 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

FNDC4
(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	14	80,124,900 - 80,128,383 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666045	32,028,367 - 32,032,020 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Fndc4
(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_004624738	9,547,801 - 9,550,310 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005400508	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01052503	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBCB01056372	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBDJ01318705	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000018042 ⟹ ENSCLAP00000017864

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955469	9,456,236 - 9,459,721 (-)	Ensembl

RefSeq Acc Id:

XM_005400508 ⟹ XP_005400565

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955469	9,456,964 - 9,459,721 (-)	NCBI

Sequence:

show sequence

CGCACGTCCCGGCCGGGCTGCGGCTGAGCGCGCGGGGCCGGCTCTGCGGAAGGCGGCGGCCGGC
TGGCCCGGACGGTCACATCCCGCTGCAGGCCGACCAGACAGCCGCACTGCCCTCCGCACTGGGG
ACCGAGGCCAGCGGCCAGGCCGCGCCGGCGACGCCCCCTGCTCGGGGCCAGACGCCCGCGCTAG
GGGGCCTCGCAGACCCGCCGCCCGCGCGCACCCCGCTCTGCCCTCCGCCCGCACCTCGGCCCGC
GCCGCCCGCCTCGCCGGCCCGCGCCGGGATGGGGTAGGGACAGCGCCTCAGAGCCGGGCGATGG
GCCGCCCCCTGGGCGCCGAGCAGCCCCCCGAGGCCTGACCGGCTGCGAAGACAGGCGGAGGAGC
TCCGCCTGGATGTCAAGCGCAAGCCCCAGTGCCCCCCAGCGGACTCGGTGGGACCATGGCTTCT
CTGATGCCCCTCTCCCCATATCTGAGCCCCACGGTCCTCCTGCTGGTCAGCTGTGACCTGGGCT
TCCTGAGAGCAGATCGACCTCCCTCTCCTGTGAATGTGACGGTCACTCACCTCAGAGCCAACTC
TGCTACTGTGTCCTGGGATGTCCCAGAAGGCAACATCGTCATTGGCTACTCCATTTCCCAGCAA
CGACAGAATGGCCCTGGGCAGCGTGTGATCCGGGAGGTGAACACCACCACCAGGGCTTGTGCCC
TCTGGGGTCTGGCTGAAGACAGTGACTACACGGTGCAGGTCAGGAGCATCGGCCTTCGGGGTGA
AAGCCCACCAGGGCCCCGGGTGCACTTCCGAACTCTCAAGGGCTCTGACAGGCTGCCCTCCAAC
AGCTCCAGCCCAGGGGACATCACAGTGGAGGGTCTGGATGGAGAGCAGCCGCTGCAGACGGGGG
AAGTGGTCATCATCGTGGTGGTGTTGCTCATGTGGGCTGCTGTAATTGGGCTGTTCTGCCGTCA
GTATGACATCATCAAGGACAACGACTCCAACAACAACCCCAAGGAGAAGGGGAAGGGGCCGGAG
CACAGTCCTCAGGGAAGGCCAGTAGGGACAAGACAGAAAAAGTCACCATCGATCAACACCATCG
ATGTTTGAGTGAACTGCGTTTGGGTGAAACAACGGAACCAGAAGAGAGCTGCACTAACAACATG
GGGATGGGGATGGGGTCAGGGAGAGCCTAAGATGGTGATTTGCCCAAGACTCCCAGAGGGTAAT
GTACTTCCACAATCTCAGGCTGGTGCCCATCCTCCTTCCACTGTGAGCAGGGCCAGAAGGTAGG
TCTGTTAGAGTCTGCACCCCTGGACCTGGAGAGTGGATATCGGATGGAACATCTCTTCCCATCC
CCCAGGTCCAGGGAGAGTCACTTGTCTAACCCTATCCCATTAGGTCCCAAATAGGGGCCCCATT
TCACCCACATCAGGACACTTGGCATCCCCCGCTACCCCAACGTCTTGCCTCTGGGTCTCAGAGA
AGGGTGTTTCTATGGGTACTCACCCTCCTCCAGGAAATAAAAGGAATCACCTAGGCCTAGAGGC
AGACGTTACACTGCACTACTCCAATGTCTTCCATGGAGCCTCCGGTGCTCCCCCTCACTTGGTA
GCCCGCCCAGCTGCTGGTGATCTCACCCCTTGGACATTTTTCCAATAAAGGTTCTTGAGCAAAC
TGGA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005400565	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000017864
	ENSCLAP00000017864.1

RefSeq Acc Id:

XP_005400565 ⟸ XM_005400508

- UniProtKB:

A0A8C2VPT7 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MASLMPLSPYLSPTVLLLVSCDLGFLRADRPPSPVNVTVTHLRANSATVSWDVPEGNIVIGYSI
SQQRQNGPGQRVIREVNTTTRACALWGLAEDSDYTVQVRSIGLRGESPPGPRVHFRTLKGSDRL
PSNSSSPGDITVEGLDGEQPLQTGEVVIIVVVLLMWAAVIGLFCRQYDIIKDNDSNNNPKEKGK
GPEHSPQGRPVGTRQKKSPSINTIDV

hide sequence

RefSeq Acc Id:

ENSCLAP00000017864 ⟸ ENSCLAT00000018042

Protein Domains

Fibronectin type-III

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000012255	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000018042	ENTREZGENE
	ENSCLAT00000018042.1	UniProtKB/TrEMBL
Gene3D-CATH	2.60.40.10	UniProtKB/TrEMBL
InterPro	FN3_dom	UniProtKB/TrEMBL
	FN3_sf	UniProtKB/TrEMBL
	Ig-like_fold	UniProtKB/TrEMBL
NCBI Gene	Fndc4	ENTREZGENE
PANTHER	FIBRONECTIN TYPE III DOMAIN-CONTAINING PROTEIN	UniProtKB/TrEMBL
	FIBRONECTIN TYPE III DOMAIN-CONTAINING PROTEIN 4	UniProtKB/TrEMBL
Pfam	fn3	UniProtKB/TrEMBL
PROSITE	FN3	UniProtKB/TrEMBL
SMART	FN3	UniProtKB/TrEMBL
Superfamily-SCOP	SSF49265	UniProtKB/TrEMBL
UniProt	A0A8C2VPT7	ENTREZGENE, UniProtKB/TrEMBL

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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD