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Gene: LOC101970102 (cytochrome P450 27C1) Ictidomys tridecemlineatus

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Symbol:

LOC101970102

Name:

cytochrome P450 27C1

RGD ID:

12448660

Description:

ENCODES a protein that exhibits 11-cis retinal binding (ortholog); 11-cis-retinal 3,4-desaturase activity (ortholog); all-trans retinal 3,4-desaturase activity (ortholog); INVOLVED IN retinal metabolic process (ortholog); retinoic acid metabolic process (ortholog); retinol metabolic process (ortholog); ASSOCIATED WITH autism spectrum disorder (ortholog); autosomal dominant thrombophilia due to protein C deficiency (ortholog); autosomal recessive limb-girdle muscular dystrophy type 2W (ortholog); FOUND IN intracellular membrane-bounded organelle (ortholog); mitochondrion (ortholog)

Type:

protein-coding

RefSeq Status:

RGD Orthologs

Alliance Orthologs

More Info

more info ...

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_024405303	97,573,590 - 97,600,989 (-)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936469	44,016,925 - 44,042,569 (+)	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

autism spectrum disorder (ISO)

autosomal dominant thrombophilia due to protein C deficiency (ISO)

autosomal recessive limb-girdle muscular dystrophy type 2W (ISO)

centronuclear myopathy 2 (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

retinal metabolic process (ISO)

retinoic acid metabolic process (ISO)

retinol metabolic process (ISO)

Cellular Component

intracellular membrane-bounded organelle (ISO)

mitochondrion (ISO)

Molecular Function

11-cis retinal binding (ISO)

11-cis-retinal 3,4-desaturase activity (ISO)

all-trans retinal 3,4-desaturase activity (ISO)

all-trans retinal binding (ISO)

all-trans retinoic acid 3,4-desaturase activity (ISO)

all-trans retinol 3,4-desaturase activity (ISO)

all-trans-retinol binding (ISO)

retinoic acid binding (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

LOC101970102
(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_024405303	97,573,590 - 97,600,989 (-)	NCBI		HiC_Itri_2
SpeTri2.0	NW_004936469	44,016,925 - 44,042,569 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CYP27C1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	127,183,832 - 127,220,299 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	127,183,832 - 127,220,313 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	127,941,408 - 127,977,875 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	127,657,882 - 127,679,813 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	2	121,253,198 - 121,275,097 (-)	NCBI		Celera
Cytogenetic Map	2	q14.3	NCBI
HuRef	2	120,248,817 - 120,270,922 (-)	NCBI		HuRef
CHM1_1	2	127,945,967 - 127,967,944 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	2	127,618,738 - 127,655,536 (-)	NCBI		T2T-CHM13v2.0

CYP27C1
(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	13	48,425,871 - 48,463,442 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2B	48,440,906 - 48,478,397 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2B	33,057,718 - 33,092,809 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2B	127,852,615 - 127,872,160 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2B	127,859,318 - 127,872,150 (-)	Ensembl	panpan1.1		panPan2

CYP27C1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	19	23,374,295 - 23,400,054 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	19	23,601,591 - 23,641,130 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	19	24,701,004 - 24,726,736 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	19	24,701,664 - 24,727,634 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	19	23,404,465 - 23,430,198 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	19	23,579,961 - 23,619,674 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	19	24,711,166 - 24,750,748 (+)	NCBI		UU_Cfam_GSD_1.0

LOC100517560
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1	15	25,244,585 - 25,259,545 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	15	28,904,526 - 28,938,881 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CYP27C1
(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	10	2,998,621 - 3,035,268 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666061	19,700,727 - 19,735,204 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

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_013357149	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000362	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

XM_013357149 ⟹ XP_013212603

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024405303	97,573,590 - 97,600,989 (-)	NCBI
SpeTri2.0	NW_004936469	44,016,925 - 44,042,569 (+)	NCBI

Sequence:

show sequence

ATGGCTCTGCTGGCGCGGATCCTGAAAGCTACTCGCCGCCCCGCTCCCGGGCGGGGCAGGCTTC
TGGGCTCTGGGCTCCTATTGGGGGCGCGGGCCCAGGACAAAGGATCTGGGCGACCCGGGGCGCC
ACGGGCCGGAGACAGGGCCGAGGGGCCCCGGAGTCTCGCGGCCATGCCGGGGCCGCGAACCCTC
GCCAACCTGGTGGAGTTTTTCTGCAAGGACGGTTTCAGCCGAATCCACGAGATCCAGCAGAAGC
ACACACAGGAATATGGAAAAATCTTCAAGTCTCACTTTGGTCCTCAGTTTGTAGTATCTATTGC
AGACCGCGACATGGTGGCTCAGGTGCTCCGGGCGGAGGGGGTCGCGCCCCAGAGAGCCAACATG
GAGTCCTGGCAGGAGTACCGAGACTTACGAGGGAGAGCCACCGGGCTCATCTCAGCGGAAGGTG
AACAGTGGCTCAAGATGAGAAGTGTATTCAGACAAAGAATTCTGAAACCGACAGATGTGGCCAT
TTTCTCTGGAGAAGTCAACCAAGTTATTGCTGATTTGATTAAAAAAATCTACATCCTCAGGAGC
CATGCAGAAGATGGGGAAACAGTGACTAATGTCAATGATCTTTTCTTCAAATATTCAATGGAAG
GTGTGGCCACCATCCTTTACGAGAGTCGCTTAGGATGCCTGGAGAACCACATCCCCCAGACAAC
AGTGGAGTACACTGAAGCCCTGGAGCTCATGTTCAGCATGTTCAAGACCTCCATGTACGCAGGT
GCCATCCCCAGATGGCTCCGCCCCTTCATCCCCAAACCCTGGCGAGAATTCTGCAGGTCCTGGG
ATGGACTCTTCAAATTCAGCCAAATTCATGTCGACAACAAGTTGAGGGACATACAGTGCCAATT
GGACCGAGGGGAGAGGGTGAGCGGGGGACTTCTCACCTACCTCTTCCTTAGCCAGACACTGACG
CTGGAAGAGATCTATGCCAACATGACGGAGATGCTGCTGGCCGGCGTTGACACAACATCGTTCA
CGTTATCCTGGGCAGTGTATCTCCTGGCAAGGCACCCAGAAGTGCAGCAGACCGTGTATCGGGA
GATAGTCAAGAATTTGGGGGAAAGGCATGTTCCAACTGCAGCAGATGTTCCCAAAGTCCCGCTG
GTCAGAGCTCTCCTGAAGGAAACCCTGAGGCTGTTTCCAGTGCTACCAGGGAATGGCCGTGTCA
CCCAAGAAGACCTGGTTATTGGGGGATATCTGATTCCCAAAGGCACCCAGCTGGCCCTCTGCCA
CTATGCCACCTCTTACGAGGATGAGAACTTCCCTCGGGCCAAGGAGTTCAGGCCTGAGCGCTGG
CTTCGGAAAGGAAACCTGGACAGAGTCGACAATTTTGGGTCCATCCCCTTTGGCTATGGGGTGC
GCAGTTGCATTGGGCGGAGAATCGCAGAGCTGGAAATTCACCTGGTCATGATCCAGTTGCTTCA
GCATTTTGAGATCAAAACATCTTCTTGGACTAAAGCTGTTCACGCAAAAACCCATGGGCTTCTG
ACCCCGGCGGAGCCCATCCACGTACGTTTTGTTAACAGAAAGTAAGCCTGGCTTTGGAACCCGG
GCTGGTGGAGCGGAGCTGGCTCGTCAGCATGCACTAGGTGTGTGTGTATCCCTGGCCACAGCAG
TGGAGGAGGGGCTCTAGAGCCTGCCTTGGGATCAACTGGCCTTCCCGGCTCTTGAAGACTTGGA
AATCATGCTAAGGAATGCAGTGAGAGGGCTATTTTACTTTTGCCTGCCAGAAGTTGCCTTTTCT
TTGGGGAAACAGCTGTTTAAAAAGCAGTGGCACTGAACTCTCAAGTGCCATACTGTCCTCTACT
CCGTTTTTAGTGACTGGATGTATTCTGTACATTTGTGTAAAGAAATGGTTTAGACAAATTCAGT
TCTTGAACATATATGTTCTCTAATACTGACATCAGGGCTTAGGTAGAAGGCAACTTATTTTTTT
TCTAATTTGAAGAGGGAACACTAAGAATGTCTCTTGTAATGCTGTGATCATGGGATGAAAACAC
CAGAAACAATGTTTTATCCTGAGCATCAGATTTCGATCCCAAAAGAAGGGTTCACAAATTAAAA
GGATGGTACTCTTATTCTCCTCTCCAAACCAGAGCTTGCCTTTCTAGTCATAGCTCCTAAAGAA
GATGA

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Protein Sequences


Protein RefSeqs	XP_013212603	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_013212603 ⟸ XM_013357149

- Sequence:

show sequence

MALLARILKATRRPAPGRGRLLGSGLLLGARAQDKGSGRPGAPRAGDRAEGPRSLAAMPGPRTL
ANLVEFFCKDGFSRIHEIQQKHTQEYGKIFKSHFGPQFVVSIADRDMVAQVLRAEGVAPQRANM
ESWQEYRDLRGRATGLISAEGEQWLKMRSVFRQRILKPTDVAIFSGEVNQVIADLIKKIYILRS
HAEDGETVTNVNDLFFKYSMEGVATILYESRLGCLENHIPQTTVEYTEALELMFSMFKTSMYAG
AIPRWLRPFIPKPWREFCRSWDGLFKFSQIHVDNKLRDIQCQLDRGERVSGGLLTYLFLSQTLT
LEEIYANMTEMLLAGVDTTSFTLSWAVYLLARHPEVQQTVYREIVKNLGERHVPTAADVPKVPL
VRALLKETLRLFPVLPGNGRVTQEDLVIGGYLIPKGTQLALCHYATSYEDENFPRAKEFRPERW
LRKGNLDRVDNFGSIPFGYGVRSCIGRRIAELEIHLVMIQLLQHFEIKTSSWTKAVHAKTHGLL
TPAEPIHVRFVNRK

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Additional Information

External Database Links

Database	Acc Id	Source(s)
NCBI Gene	LOC101970102	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)

Imported Disease Annotations - ClinVar

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