OR4C6 Olfactory Receptor

Gene Symbol	OR4C6¹ (View this gene in GeneCards)
Family	4
Subfamily	C
Pseudogene	No
CORP pseudogene probability score	0.03 (functional)
Aliases	OR11-138, HsOR11.11.20, ORL3425
External Ids	HGNC: 14743 GeneBank: AB065517, BK004330, CR593785, NM_001004704 ORDB: ORL3425
Build #39 labels	OR4C6
Chromosomal location	11:55,665,167-55,666,093 (+)
Cluster	11@56
Synteny	CLIC#26
Remarks

Most Similar ORs in Humans (Paralogs)

Symbol	Percent	Length
OR4C14P	69.26%	309

Most Similar ORs in other species (Orthologs)

Specie	Symbol	Percent	Length
Dog	OR4C142P	79%	309
Mouse	Or4c102	78%	302
Rat	Or4c102	77%	302
Cow	OR4C163P	68%	313
Orang	OR4C9P	61%	302
Horse	OR4C6P	82%	309
Chimp	OR4C14P	69%	310

Expression evidences

Source	Accession
ESTs	BX330269
mRNA	AB463962

Sequence information

Nucleotide sequence

ATGGAAAATCAAAACAATGTGACTGAATTCATTCTTCTGGGTCTCACAGAGAACCTGGAG
CTGTGGAAAATATTTTCTGCTGTGTTTCTTGTCATGTATGTAGCCACAGTGCTGGAAAAT
CTACTTATTGTGGTAACTATTATCACAAGTCAGAGTCTGAGGTCACCTATGTATTTTTTT
CTTACCTTCTTGTCCCTTTTGGATGTCATGTTCTCATCTGTCGTTGCCCCCAAGGTGATT
GTAGACACCCTCTCCAAGAGCACTACCATCTCTCTCAAAGGCTGCCTCACCCAGCTGTTT
GTGGAGCATTTCTTTGGTGGTGTGGGGATCATCCTCCTCACTGTGATGGCCTATGACCGC
TACGTGGCCATCTGTAAGCCCCTGCACTACACGATCATCATGAGTCCACGGGTGTGCTGC
CTAATGGTAGGAGGGGCTTGGGTGGGGGGATTTATGCACGCAATGATACAACTTCTCTTC
ATGTATCAAATACCCTTCTGTGGTCCTAATATCATAGATCACTTTATATGTGATTTGTTT
CAGTTGTTGACACTTGCCTGCACGGACACCCACATCCTGGGCCTCTTAGTTACCCTCAAC
AGTGGGATGATGTGTGTGGCCATCTTTCTTATCTTAATTGCGTCCTACACGGTCATCCTA
TGCTCCCTGAAGTCTTACAGCTCTAAAGGGCGGCACAAAGCCCTCTCTACCTGCAGCTCC
CACCTCACGGTGGTTGTATTGTTCTTTGTCCCCTGTATTTTCTTGTACATGAGGCCTGTG
GTCACTCACCCCATAGACAAGGCAATGGCTGTGTCAGACTCAATCATCACACCCATGTTA
AATCCCTTGATCTATACACTGAGGAATGCAGAGGTGAAAAGTGCCATGAAGAAACTCTGG
ATGAAATGGGAGGCTTTGGCTGGGAAA

Conceptual translation

MENQNNVTEFILLGLTENLELWKIFSAVFLVMYVATVLENLLIVVTIITSQSLRSPMYFF
LTFLSLLDVMFSSVVAPKVIVDTLSKSTTISLKGCLTQLFVEHFFGGVGIILLTVMAYDR
YVAICKPLHYTIIMSPRVCCLMVGGAWVGGFMHAMIQLLFMYQIPFCGPNIIDHFICDLF
QLLTLACTDTHILGLLVTLNSGMMCVAIFLILIASYTVILCSLKSYSSKGRHKALSTCSS
HLTVVVLFFVPCIFLYMRPVVTHPIDKAMAVSDSIITPMLNPLIYTLRNAEVKSAMKKLW
MKWEALAGK

Protein domains and features

Variations - SNPs

Chr	Start	End	Type	Variation	AA Change	SNP IDs
11	55,432,668	55,432,668	NS	A/C	E/A	rs61729625 (DbSNP)
11	55,433,505	55,433,505	NS	A/G	K/R	rs12363829 (DbSNP)
11	55,433,040	55,433,040	NS	C/T	T/I	rs11230600 (DbSNP)
11	55,432,876	55,432,876	SYN	A/G	K/K	rs61995720 (DbSNP)
11	55,432,930	55,432,930	SYN	C/G	L/L	rs61995737 (DbSNP)
11	55,665,917	55,665,917	NS	C/T	P/S	1000GP (CEU)
11	55,665,564	55,665,564	NS	T/C	I/T	1000GP (CEU, CHBJPT)
11	55,665,914	55,665,914	NS	G/T	V/F	1000GP (CHBJPT)
11	100	-100	SYN	C/T	T/T	1000GP (YRI)
11	100	-100	NS	T/C	I/T	1000GP (YRI, YRI)

Variations - CNVs

Chr	Start	End	Type	Sources
11	55,153,930	55,816,828	CopyNumber	Variation_0308 (DGV)
11	55,359,025	55,470,359	CopyNumber	Variation_0419 (DGV), Variation_34977 (DGV)
11	55,339,702	55,638,112	CopyNumber	Variation_2926 (DGV)
11	55,222,420	55,621,884	CopyNumber	Variation_3852 (DGV)
11	55,382,681	55,548,038	CopyNumber	Variation_4743 (DGV)
11	55,367,167	55,452,993	CopyNumber	Variation_6923 (DGV)
11	54,835,623	55,879,426	CopyNumber	Variation_8690 (DGV)
11	55,377,006	55,620,699	CopyNumber	Variation_9188 (DGV)
11	55,360,213	55,447,427	CopyNumber	Variation_9663 (DGV), Variation_48827 (DGV)
11	55,371,021	55,447,427	CopyNumber	Variation_10359 (DGV), Variation_48834 (DGV), Variation_48835 (DGV)
11	55,422,586	55,596,313	CopyNumber	Variation_10360 (DGV)
11	55,360,213	55,447,426	CopyNumber	Variation_29606 (DGV)
11	55,371,020	55,460,788	CopyNumber	Variation_29910 (DGV)
11	55,422,585	55,596,313	CopyNumber	Variation_29911 (DGV)
11	55,367,884	55,459,183	CopyNumber	Variation_31823 (DGV)
11	55,362,651	55,460,561	CopyNumber	Variation_34978 (DGV)
11	55,432,955	55,495,323	Inversion	Variation_37124 (DGV)
11	55,358,496	55,434,466	CopyNumber	Variation_37484 (DGV)
11	55,374,032	55,453,009	CopyNumber	Variation_38079 (DGV)
11	55,368,154	55,450,788	CopyNumber	Variation_38972 (DGV)
11	55,335,878	55,453,486	CopyNumber	Variation_48051 (DGV)
11	55,381,588	55,474,194	CopyNumber	Variation_48053 (DGV)
11	55,422,490	55,475,200	CopyNumber	Variation_48055 (DGV)
11	55,360,213	55,442,368	CopyNumber	Variation_48826 (DGV)
11	55,360,213	55,470,003	CopyNumber	Variation_48828 (DGV)
11	55,371,021	55,437,126	CopyNumber	Variation_48832 (DGV)
11	55,371,021	55,442,368	CopyNumber	Variation_48833 (DGV)
11	55,371,021	55,460,095	CopyNumber	Variation_48836 (DGV)
11	55,383,157	55,447,427	CopyNumber	Variation_48837 (DGV), Variation_53573 (DGV)
11	55,396,041	55,442,368	CopyNumber	Variation_48839 (DGV)
11	55,339,829	55,447,427	CopyNumber	Variation_53140 (DGV)
11	55,408,664	55,447,427	CopyNumber	Variation_53178 (DGV)
11	55,360,213	55,490,377	CopyNumber	Variation_53507 (DGV)
11	55,360,213	55,460,788	CopyNumber	Variation_53994 (DGV)
11	55,360,213	55,470,994	CopyNumber	Variation_54018 (DGV)
11	55,364,677	55,453,061	CopyNumber	Variation_65955 (DGV)
11	55,422,345	55,603,590	CopyNumber	Variation_65956 (DGV)
11	55,366,131	55,452,023	CopyNumber	Variation_75644 (DGV)
11	55,421,049	55,452,023	CopyNumber	Variation_75645 (DGV)
11	55,422,701	55,509,962	CopyNumber	Variation_85778 (DGV)
11	55,365,707	55,452,023	CopyNumber	Variation_85779 (DGV)
			Deletion	255 (Hasin)
11	55,432,543	55,435,569	Deletion	#310 (Waszak)

Haplotypes

Protein haplotypes were calculated using the 1000 genomes project as described in Olender T. et. al. BMC Genomics 2012.

	L112V	I133T	A154T	I208M	R231W	% Freq	CORP
1	L	I	A	I	R	71.97	0.044
2	L	T	A	I	R	25.73	0.044
3	L	I	T	I	R	1.38	0.044
4	V	I	A	I	R	0.31	0.044
5	L	I	A	I	W	0.23	0.037
6	L	I	A	M	R	0.15	0.044
7	V	T	A	I	R	0.15	0.044
8	L	T	A	M	R	0.08	0.044

AceView Gene Models

The information is based on AceView gene models, constructed from cDNA sequences. The information might be incomplete.

Accession	Type		Chr	Start	End	Strand
OR4C6.aApr07	exon_5UTR		chr11	55,658,268	55,658,392	+
	exon_5UTR		chr11	55,662,151	55,662,248	+
	main_exon	5UTR	chr11	55,665,125	55,665,167	+
		CDS	chr11	55,665,167	55,666,093	+
		3UTR	chr11	55,666,093	55,666,686	+

HORDE

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