C9 (complement C9) - Rat Genome Database

Name: C9
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: C9 (complement C9) Ictidomys tridecemlineatus

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Symbol:

Name:

complement C9

RGD ID:

12662076

Description:

INVOLVED IN innate immune response (ortholog); ASSOCIATED WITH age related macular degeneration 15 (ortholog); autosomal dominant polycystic kidney disease (ortholog); complement component 9 deficiency (ortholog); FOUND IN extracellular region (inferred); extracellular space (inferred); membrane (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

complement component C9

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	C9 (complement C9)	NCBI	Ortholog
Mus musculus (house mouse):	C9 (complement component 9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	C9 (complement C9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	C9 (complement C9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	C9 (complement C9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	C9 (complement C9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	C9 (complement C9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	C9 (complement C9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	C9 (complement C9)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024407213	228,373,978 - 228,423,999 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936518	2,958,995 - 2,994,880 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936518	2,947,956 - 2,994,892 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autosomal dominant polycystic kidney disease (ISO)

complement component 9 deficiency (ISO)

dermatomyositis (ISO)

Erythema (ISO)

facial dermatosis (ISO)

genetic disease (ISO)

hepatocellular carcinoma (ISO)

macular degeneration (ISO)

malignant mesothelioma (ISO)

meningococcal meningitis (ISO)

Neurodevelopmental Disorders (ISO)

opiate dependence (ISO)

polycystic kidney disease (ISO)

primary immunodeficiency disease (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cell killing (IEA)

complement activation (IEA)

complement activation, alternative pathway (IEA)

complement activation, classical pathway (IEA)

immune response (IEA)

innate immune response (ISO)

killing of cells of another organism (IEA)

protein homooligomerization (IEA)

Cellular Component

extracellular region (IEA)

extracellular space (IEA)

membrane (IEA)

membrane attack complex (IEA)

other organism cell membrane (IEA)

plasma membrane (IEA)

Molecular Function

protein binding (ISO)

References

Additional References at PubMed

PMID:22301074

Genomics

Comparative Map Data

C9
(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_024407213	228,373,978 - 228,423,999 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936518	2,958,995 - 2,994,880 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936518	2,947,956 - 2,994,892 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

C9
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	5	39,284,140 - 39,364,495 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	5	39,284,140 - 39,371,324 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	5	39,284,242 - 39,364,597 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	5	39,320,758 - 39,400,412 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	5	39,320,764 - 39,400,412	NCBI
Celera	5	39,170,963 - 39,251,580 (-)	NCBI		Celera
Cytogenetic Map	5	p13.1	NCBI
HuRef	5	39,235,660 - 39,316,262 (-)	NCBI		HuRef
CHM1_1	5	39,286,294 - 39,366,561 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	5	39,533,654 - 39,614,008 (-)	NCBI		T2T-CHM13v2.0

C9
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	6,474,827 - 6,528,306 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	15	6,474,808 - 6,528,232 (+)	Ensembl		GRCm39 Ensembl
GRCm38	15	6,445,346 - 6,498,825 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	6,445,327 - 6,498,751 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	15	6,395,333 - 6,448,476 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	15	6,392,548 - 6,445,691 (+)	NCBI		MGSCv36	mm8
Celera	15	6,294,488 - 6,347,559 (+)	NCBI		Celera
Cytogenetic Map	15	A1	NCBI
cM Map	15	2.79	NCBI

C9
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	2	57,300,510 - 57,348,759 (+)	NCBI		GRCr8
mRatBN7.2	2	55,573,094 - 55,621,345 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	2	55,572,992 - 55,621,338 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	2	62,673,026 - 62,721,273 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	2	60,746,574 - 60,794,844 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	2	55,749,037 - 55,797,274 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	2	55,775,562 - 55,823,807 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	55,775,274 - 55,823,826 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	2	75,517,644 - 75,565,566 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	55,743,084 - 55,791,148 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	2	55,671,316 - 55,719,381 (+)	NCBI
Celera	2	51,194,591 - 51,242,839 (+)	NCBI		Celera
Cytogenetic Map	2	q16	NCBI

C9
(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_004955426	23,790,792 - 23,824,117 (-)	NCBI	ChiLan1.0	ChiLan1.0

C9
(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	4	70,971,579 - 71,054,978 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	5	69,128,522 - 69,208,611 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	5	71,011,961 - 71,090,243 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	5	76,051,911 - 76,130,725 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	5	76,051,911 - 76,130,725 (+)	Ensembl	panpan1.1		panPan2

C9
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	4	69,660,861 - 69,719,793 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	4	69,660,907 - 69,719,562 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	4	69,337,298 - 69,397,077 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	4	70,176,511 - 70,236,336 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	4	70,176,550 - 70,235,863 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	4	69,925,818 - 69,985,575 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	4	70,038,157 - 70,097,881 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	4	70,577,290 - 70,637,100 (+)	NCBI		UU_Cfam_GSD_1.0

C9
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	16	24,520,634 - 24,590,338 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	16	24,521,318 - 24,575,939 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	16	25,800,236 - 25,823,336 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

C9
(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	4	38,082,751 - 38,165,886 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	4	38,082,457 - 38,164,164 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666071	28,458,276 - 28,543,866 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

C9
(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_004624759	15,534,660 - 15,624,381 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624759	15,534,743 - 15,623,767 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005325672	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010002273	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSSTOT00000002454 ⟹ ENSSTOP00000002194

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936518	2,958,995 - 2,994,880 (+)	Ensembl

RefSeq Acc Id:

XM_005325672 ⟹ XP_005325729

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024407213	228,373,978 - 228,423,999 (-)	NCBI
SpeTri2.0	NW_004936518	2,947,956 - 2,994,892 (+)	NCBI

Sequence:

show sequence

ATGTCCCCCAGCAAGCCCTTCATCTTTGCAATCAGCATTTTAGAAATAAGTCTCCTTGCTTCAC
TGCCCACATCCAGTTTTTGCCAAGAGCCAATACAAGGAAATGGCTCTCCATTGCCCATAGACTG
CAGAATGAGCCCTTGGAGTGGATGGTCACAGTGTGATCCTTGCCTCAGACAAAGGTTTCGCTCA
AGGACCATCGAAGTCTTTGGACAATTTAATGGGAAAAGTTGCCTGGATGCTCTGGGAGATAGAC
AGCAGTGTGTGCCCACCCAGCCTTGTGAGGAGGTCAGGGACAACTGTGGAAACGACTTTGAGTG
CAATACAGGCAGATGCATAAAGAGGCGACTTTTGTGCAATGGCGACAATGACTGCGGAGACTTT
TCAGATGAGGATCATTGTGACAGTGATCCCCGTCCGCCTTGCCGTGACCGAGTGGTGGAAGAGT
CTGAGCTGGCACGAACGGCTGGCTATGGAATCAACATTTTAGGGATGGATCCCTTAACCACACC
TTTCGACAACGAGTTCTACAATGGACTCTGCGACAGGGTTCGGGATGGAAACACTTTGACGTAC
TACCGAAGACCCTGGAATGTGGCTTCTTTGGCCTATGAAACCAAAGTTGATAAAAATTTGAGAA
CCGAAAATTTTGAAGAAGAGATTCAAGTATTCGAAAGCTTTCTCCGACAGAAGACATCAAGTTT
CAATACAGATATCTCGCTGAAATTTACACTCACTGAAGCAATTAAAAATACTGCAGTTGAGGAA
ACCTCTCAGGAAACAAACTCTTCAAATCGCAAAAATACCAGGAATAGTTTTCAATTTTCATATT
TGAAAACTGAAGCTTATCAGAAATTGTTGTCATACTCTTCAAAGAAGGAAAAAATGTTTCTGCG
TGTGAAAGGAGTGATTGATCTGGGTCGATTTCTGATGAGAAATCGAAATATCATGCTGACAACA
ACTTTCCTAGATGACATAAAAGCTCTGCCAACTACCTATGAGAAGGGAGAATATTTTGGATTTT
TGGAAACCTATGGAACCCACTACAGCAGCTCTGGGTCTCTAGGAGGACTCTATGAGGTCATATA
TGTTTTGAATAAAGCTTCCATGAAGGAGAAAGATGTTGAACTAGAAGACATAAAGAGATGCCTC
GGGTATAATCTGGATTTCTCTCTACATACCCCTGGGACTTCCGAAGGACTCGAAGTCTCGGCAA
AAATTAATAAAACTGATTGTTTAAAGAACCATCATGGTAAAACTGTAAACATCACCAGCGACAA
CCTTATAGATGATGTTATTTCTTTCATAAGAGGAGGAACAAGGAAAGCTGCATTTGAACTGAAA
CAAAAGCTTCTCAAAGGAGCCAAAACCATCGATGTGACTGACTTTGAAAACTGGGCCTCTTCCC
TGAGTGATGCTCCGGTGCTCATTAGTCAAAAGTTGTCACCTATATACAATCTGATTCCTGTGCA
AATAAAAGATGCACATGTAAAGAAACAGAATTTGGAGAGAGCCATTGAAGACTACATCAATGAA
TTCAGTGTAAAAAAATGCCACCCATGCCAAAATGGAGGAACCAAGATTCTGCTGGACGGACAGT
GCCTGTGTTCCTGTCCCCTCACATTTAAGGGACTTGCCTGTGAAATCAACAAACAAAAAACATT
TTAG

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Protein Sequences


Protein RefSeqs	XP_005325729	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000002194.3
GenBank Protein	KAG3266839	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_005325729 ⟸ XM_005325672

- UniProtKB:

I3M0G2 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSPSKPFIFAISILEISLLASLPTSSFCQEPIQGNGSPLPIDCRMSPWSGWSQCDPCLRQRFRS
RTIEVFGQFNGKSCLDALGDRQQCVPTQPCEEVRDNCGNDFECNTGRCIKRRLLCNGDNDCGDF
SDEDHCDSDPRPPCRDRVVEESELARTAGYGINILGMDPLTTPFDNEFYNGLCDRVRDGNTLTY
YRRPWNVASLAYETKVDKNLRTENFEEEIQVFESFLRQKTSSFNTDISLKFTLTEAIKNTAVEE
TSQETNSSNRKNTRNSFQFSYLKTEAYQKLLSYSSKKEKMFLRVKGVIDLGRFLMRNRNIMLTT
TFLDDIKALPTTYEKGEYFGFLETYGTHYSSSGSLGGLYEVIYVLNKASMKEKDVELEDIKRCL
GYNLDFSLHTPGTSEGLEVSAKINKTDCLKNHHGKTVNITSDNLIDDVISFIRGGTRKAAFELK
QKLLKGAKTIDVTDFENWASSLSDAPVLISQKLSPIYNLIPVQIKDAHVKKQNLERAIEDYINE
FSVKKCHPCQNGGTKILLDGQCLCSCPLTFKGLACEINKQKTF

hide sequence

Ensembl Acc Id:

ENSSTOP00000002194 ⟸ ENSSTOT00000002454

Protein Domains

MACPF

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000002454	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000002454.3	UniProtKB/TrEMBL
Gene3D-CATH	2.20.100.10	UniProtKB/TrEMBL
	4.10.400.10	UniProtKB/TrEMBL
	Laminin	UniProtKB/TrEMBL
InterPro	Growth_fac_rcpt_cys_sf	UniProtKB/TrEMBL
	LDL_receptor-like_sf	UniProtKB/TrEMBL
	LDLR_class-A_CS	UniProtKB/TrEMBL
	LDrepeatLR_classA_rpt	UniProtKB/TrEMBL
	MAC_perforin	UniProtKB/TrEMBL
	MACPF	UniProtKB/TrEMBL
	MACPF_CS	UniProtKB/TrEMBL
	TSP1_rpt	UniProtKB/TrEMBL
	TSP1_rpt_sf	UniProtKB/TrEMBL
NCBI Gene	C9	ENTREZGENE
PANTHER	COMPLEMENT COMPONENT C6	UniProtKB/TrEMBL
	PTHR45742:SF3	UniProtKB/TrEMBL
Pfam	Ldl_recept_a	UniProtKB/TrEMBL
	MACPF	UniProtKB/TrEMBL
	TSP_1	UniProtKB/TrEMBL
PRINTS	COMPLEMENTC9	UniProtKB/TrEMBL
PROSITE	LDLRA_1	UniProtKB/TrEMBL
	LDLRA_2	UniProtKB/TrEMBL
	MACPF_1	UniProtKB/TrEMBL
	MACPF_2	UniProtKB/TrEMBL
	TSP1	UniProtKB/TrEMBL
SMART	LDLa	UniProtKB/TrEMBL
	MACPF	UniProtKB/TrEMBL
	TSP1	UniProtKB/TrEMBL
Superfamily-SCOP	SSF57184	UniProtKB/TrEMBL
UniProt	I3M0G2	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)

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