Rogdi (rogdi atypical leucine zipper)

Gene: Rogdi (rogdi atypical leucine zipper) Ictidomys tridecemlineatus

Analyze

Symbol:

Rogdi

Name:

rogdi atypical leucine zipper

RGD ID:

12733989

Description:

INVOLVED IN amelogenesis (ortholog); bone mineralization (ortholog); circadian behavior (ortholog); ASSOCIATED WITH autism spectrum disorder (ortholog); COVID-19 (ortholog); epilepsy (ortholog); FOUND IN hippocampal mossy fiber to CA3 synapse (ortholog); presynapse (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

protein rogdi homolog; rogdi homolog

RGD Orthologs

Alliance Genes

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_024409344	106,910,628 - 106,916,187 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936530	4,753,751 - 4,761,695 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936530	4,756,069 - 4,761,484 (-)	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)

COVID-19 (ISO)

epilepsy (ISO)

genetic disease (ISO)

idiopathic generalized epilepsy (ISO)

Kohlschutter-Tonz syndrome (ISO)

Rubinstein-Taybi syndrome (ISO)

short-rib thoracic dysplasia 9 with or without polydactyly (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

amelogenesis (ISO)

bone mineralization (ISO)

brain development (IEA)

circadian behavior (ISO)

enamel mineralization (ISO)

gene expression (ISO)

hemopoiesis (IEA,ISO)

locomotory behavior (ISO)

memory (ISO)

neurogenesis (IEA)

neuromuscular process (ISO)

odontogenesis of dentin-containing tooth (IEA)

positive regulation of cell population proliferation (IEA,ISO)

regulation of pH (ISO)

Cellular Component

hippocampal mossy fiber to CA3 synapse (ISO)

nuclear envelope (IEA)

perikaryon (IEA)

presynapse (ISO)

RAVE complex (IEA)

synaptic vesicle (IEA)

Molecular Function

protein binding (ISO)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

Rogdi
(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_024409344	106,910,628 - 106,916,187 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936530	4,753,751 - 4,761,695 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936530	4,756,069 - 4,761,484 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

ROGDI
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	16	4,796,968 - 4,802,633 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	16	4,796,968 - 4,802,880 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	16	4,846,969 - 4,852,634 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	16	4,786,970 - 4,792,675 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	16	5,055,739 - 5,061,444 (-)	NCBI		Celera
Cytogenetic Map	16	p13.3	NCBI
HuRef	16	4,813,161 - 4,819,149 (-)	NCBI		HuRef
CHM1_1	16	4,847,809 - 4,853,797 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	16	4,826,450 - 4,832,187 (-)	NCBI		T2T-CHM13v2.0

Rogdi
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	16	4,826,593 - 4,831,438 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	16	4,826,594 - 4,831,417 (-)	Ensembl		GRCm39 Ensembl
GRCm38	16	5,008,729 - 5,013,574 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	16	5,008,730 - 5,013,553 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	16	5,008,822 - 5,013,646 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	16	4,924,066 - 4,928,840 (-)	NCBI		MGSCv36	mm8
Celera	16	5,640,103 - 5,644,927 (-)	NCBI		Celera
Cytogenetic Map	16	A1	NCBI
cM Map	16	2.49	NCBI

Rogdi
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	10	11,074,288 - 11,078,907 (+)	NCBI		GRCr8
mRatBN7.2	10	10,567,834 - 10,572,453 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	10	10,567,834 - 10,572,452 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	10	15,275,819 - 15,280,438 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	10	14,764,638 - 14,769,257 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	10	10,433,931 - 10,438,567 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	10	10,761,477 - 10,766,096 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	10,761,477 - 10,766,095 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	9,528,490 - 9,533,109 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	10,683,729 - 10,688,348 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	10	9,531,610 - 9,536,229 (+)	NCBI		Celera
Cytogenetic Map	10	q12	NCBI

Rogdi
(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_004955442	12,694,197 - 12,700,181 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955442	12,694,197 - 12,700,181 (+)	NCBI	ChiLan1.0	ChiLan1.0

ROGDI
(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	18	5,325,112 - 5,331,145 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	16	9,115,264 - 9,121,257 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	16	3,721,063 - 3,727,056 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	16	4,886,553 - 4,892,611 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	16	4,887,051 - 4,892,607 (-)	Ensembl	panpan1.1		panPan2

ROGDI
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	6	36,618,670 - 36,624,533 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	6	36,491,561 - 36,624,532 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	6	38,010,765 - 38,016,786 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	6	36,821,485 - 36,827,506 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	6	36,820,987 - 36,827,503 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	6	36,615,541 - 36,621,550 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	6	36,508,424 - 36,514,446 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	6	36,910,640 - 36,916,661 (+)	NCBI		UU_Cfam_GSD_1.0

ROGDI
(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	37,591,815 - 37,602,112 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	37,592,982 - 37,600,004 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	38,665,099 - 38,671,065 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

ROGDI
(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	5	4,466,954 - 4,472,967 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	5	4,466,824 - 4,472,780 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666068	26,186,555 - 26,192,558 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Rogdi
(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_004624824	2,650,116 - 2,655,716 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624824	2,649,694 - 2,655,728 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005327145	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010004404	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSTOT00000023283 ⟹ ENSSTOP00000023477

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936530	4,753,751 - 4,761,695 (-)	Ensembl

RefSeq Acc Id:

XM_005327145 ⟹ XP_005327202

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024409344	106,910,628 - 106,916,187 (-)	NCBI
SpeTri2.0	NW_004936530	4,756,069 - 4,761,484 (-)	NCBI

Sequence:

show sequence

TGAGGGACAGACGGCGGACCGCTGCGACCGGCGCTGGGCGGCGGCGATGGCGACCGCGATGGCA
GCGACCGCGGCGGAGCGAACGGTGCTGGAGGAGGAGTTCCGCTGGCTGCTGCACGCCGAGGTGC
ACGCCGTGCTGAGGCAGCTGCAGGACATCCTCAAGGAGGCATCCCTCCGCTTCACTCTTCCAGG
CTCAGGCACTGAGGGGCCTGCCAAGCAGGAGAACTTCATCCTGGGCAGCTGCAGCACAGACCAG
GTGAAGGGTGTGCTGACTCTGCAAGGAGATGCCCTCAGCCAGGCGGACGTGAATCTGAAGATGC
CCCGGAACAACCAGCTGCTGCACTTGGCCTTCAGAGAGGACAAGCAGTGGAAGCTGCAGCAGAT
CCAGGATGCGAGGAACCACGTGAGCCAAGCTATTTACCTCCTCGCCAACCGGGATGAGAACTAC
CAGTTCAAAACAGGCGCTGAAGTCCTCAAGCTCATGGACGCTGTGATGCTGCAGCTGACCCGAG
CCCGCAACCGGCTCACGACCCCCGCCACCCTCACCCTGCCTGAGATTGCCGCCAGCGGCCTCAC
GAGGATGTTTGCCCCCAGCCTGCCGTCGGACTTGCTGGTCAACGTCTACATCAACCTCAACAAG
CTGTGCCTCACGGTGTACCAGCTGCACGCCCTGCAGCCCAACTCCACCAAGAATTTCCGCCCAG
CTGGAGGCTCCGTGCTCCATAGCCCCGGGGCCATGTTCGAGTGGGGCGCCCAGCGCCTGGAGGT
GAGCCACGTACACAAGGTGGAGTGTGTGGTCCCCTGGCTCAATGACGCCCTGGTGTACTTCACC
GTCTCCCTGCAGCTCTGCCAGCAGCTCAAGGACAAGATCTCCGTGTTCTCCAGCTACTGGAGCT
ACAGACCCTTCTGAGCAGGCTGCCCCAGGAGCCTGGCCCCCGAGAGGGTGGCTCCTGCCCAATG
GAGGCCCTTCCCCATACACACTCCTCTGTGGTGCCCCTGGAGTGGGCACCTCATGCTGTTTCTC
CCCCTCGCCCCACCATTTGCACACCGGGATGAACTCTGGCAGCAGGGCTGGGAAGATGGCCCAG
GGTGTCCACAGCGCAGGCCCAGGGCCGCAGCTTCCTCCGGGAGATGAGAGGCAGCCCAGCCCAT
TTGGCAGAAGATGGCAGGAAGGAAGGAGGCTCAGCAGGTGGAAGCTGCTCGGGGAATGTGCTTA
GTGCCCTGACTTCGCTCTGCCCTGCGGGCAGCCTCTACGAAATAAAGATCATCAGGCTGCCTGC
A

hide sequence

Protein Sequences


Protein RefSeqs	XP_005327202	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000023477.1
GenBank Protein	KAG3259159	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_005327202 ⟸ XM_005327145

- UniProtKB:

I3NGI0 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MATAMAATAAERTVLEEEFRWLLHAEVHAVLRQLQDILKEASLRFTLPGSGTEGPAKQENFILG
SCSTDQVKGVLTLQGDALSQADVNLKMPRNNQLLHLAFREDKQWKLQQIQDARNHVSQAIYLLA
NRDENYQFKTGAEVLKLMDAVMLQLTRARNRLTTPATLTLPEIAASGLTRMFAPSLPSDLLVNV
YINLNKLCLTVYQLHALQPNSTKNFRPAGGSVLHSPGAMFEWGAQRLEVSHVHKVECVVPWLND
ALVYFTVSLQLCQQLKDKISVFSSYWSYRPF

hide sequence

RefSeq Acc Id:

ENSSTOP00000023477 ⟸ ENSSTOT00000023283

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000028093	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000023283.2	UniProtKB/TrEMBL
InterPro	RAVE2/Rogdi	UniProtKB/TrEMBL
NCBI Gene	Rogdi	ENTREZGENE
PANTHER	PROTEIN ROGDI HOMOLOG	UniProtKB/TrEMBL
	PTHR13618	UniProtKB/TrEMBL
Pfam	Rogdi_lz	UniProtKB/TrEMBL
UniProt	I3NGI0	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2018-11-29	Rogdi	rogdi atypical leucine zipper		rogdi homolog	Symbol and/or name change	5135510	APPROVED

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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Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM