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Gene: Rtn1 (reticulon 1) Chinchilla lanigera

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Symbol:

Rtn1

Name:

reticulon 1

RGD ID:

8740923

Description:

INVOLVED IN negative regulation of amyloid-beta formation (ortholog); neuron differentiation (ortholog); ASSOCIATED WITH Myocardial Ischemia (ortholog); FOUND IN dendrite (ortholog); endoplasmic reticulum (ortholog); endoplasmic reticulum membrane (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

reticulon-1

RGD Orthologs

Alliance Orthologs

More Info

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More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	RTN1 (reticulon 1)	NCBI	Ortholog
Mus musculus (house mouse):	Rtn1 (reticulon 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Rtn1 (reticulon 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	RTN1 (reticulon 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	RTN1 (reticulon 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Rtn1 (reticulon 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	RTN1 (reticulon 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	RTN1 (reticulon 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Rtn1 (reticulon 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

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	NW_004955466	13,290,419 - 13,454,387 (-)	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

Myocardial Ischemia (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

negative regulation of amyloid-beta formation (ISO)

neuron differentiation (ISO)

Cellular Component

dendrite (ISO)

endoplasmic reticulum (ISO)

endoplasmic reticulum membrane (ISO)

Golgi membrane (ISO)

neuronal cell body (ISO)

nuclear body (ISO)

smooth endoplasmic reticulum (ISO)

Molecular Function

protein binding (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:30032202

Genomics

Comparative Map Data

Rtn1
(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_004955466	13,290,419 - 13,454,387 (-)	NCBI	ChiLan1.0	ChiLan1.0

RTN1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	14	59,595,976 - 59,870,776 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	14	59,595,976 - 59,870,776 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	14	60,062,694 - 60,337,494 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	14	59,132,447 - 59,407,310 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	14	59,132,446 - 59,264,184	NCBI
Celera	14	40,111,786 - 40,386,796 (-)	NCBI		Celera
Cytogenetic Map	14	q23.1	NCBI
HuRef	14	40,226,493 - 40,501,076 (-)	NCBI		HuRef
CHM1_1	14	60,000,887 - 60,276,505 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	14	53,802,909 - 54,078,046 (-)	NCBI		T2T-CHM13v2.0

Rtn1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	12	72,258,523 - 72,455,828 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	12	72,258,526 - 72,455,828 (-)	Ensembl		GRCm39 Ensembl
GRCm38	12	72,211,749 - 72,409,054 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	12	72,211,752 - 72,409,054 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	12	73,312,739 - 73,509,926 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	12	73,130,590 - 73,327,777 (-)	NCBI		MGSCv36	mm8
Celera	12	73,325,053 - 73,524,502 (-)	NCBI		Celera
Cytogenetic Map	12	C3	NCBI
cM Map	12	30.2	NCBI

Rtn1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	6	96,499,137 - 96,719,340 (-)	NCBI		GRCr8
mRatBN7.2	6	90,763,212 - 90,983,436 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	6	90,763,216 - 90,983,436 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	6	91,133,739 - 91,354,049 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	6	91,433,206 - 91,653,513 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	6	90,866,371 - 91,081,461 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	6	94,951,016 - 95,177,477 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	6	94,951,020 - 95,061,174 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	6	104,395,865 - 104,615,609 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	6	94,397,061 - 94,682,308 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	6	94,400,519 - 94,685,764 (-)	NCBI
Celera	6	89,223,752 - 89,441,412 (-)	NCBI		Celera
Cytogenetic Map	6	q24	NCBI

RTN1
(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	15	60,728,297 - 61,002,261 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	14	59,944,811 - 60,218,775 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	14	40,198,279 - 40,472,255 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	14	58,463,335 - 58,737,309 (-)	NCBI	panpan1.1	PanPan1.1	panPan2

RTN1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	8	34,810,127 - 35,029,201 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	8	34,810,342 - 35,033,330 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	8	34,570,781 - 34,595,578 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	8	35,045,762 - 35,265,091 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	8	35,045,769 - 35,265,064 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	8	34,663,165 - 34,687,986 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	8	34,732,285 - 34,757,112 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	8	35,099,496 - 35,124,329 (-)	NCBI		UU_Cfam_GSD_1.0

Rtn1
(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_024408640	70,033,442 - 70,258,046 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936495	3,933,605 - 4,158,571 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936495	3,933,652 - 4,158,269 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

RTN1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	188,704,260 - 188,926,054 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	1	188,704,260 - 188,925,855 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	209,727,826 - 209,941,920 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

RTN1
(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	24	36,821,989 - 37,092,718 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
Vero_WHO_p1.0	NW_023666053	25,071,786 - 25,339,134 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Rtn1
(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_004624734	41,274,546 - 41,530,090 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624734	41,274,072 - 41,529,134 (+)	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_013522002	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01051156	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AGCD01051157	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AGCD01051158	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AGCD01051159	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AGCD01051160	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBBH01063056	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

XM_013522002 ⟹ XP_013377456

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955466	13,290,419 - 13,454,387 (-)	NCBI

Sequence:

show sequence

AGGACAAAGGCCAGAATGTGCAGCATTATCTGTGTGACAGTTCTCCCCAGTGGCTTGGATCACT
CCCTCTCGACAACACCAGAAGATGGGGAAGGAGCGTGTTATACATCTCTGATTTCCGACATCTG
TTACCCACCTCGAGAGGAGTCTACCTACTTCACTGGGATTCTTCAGAAGGAAAACGGTCACATC
ACTACTTCTGAGAGCTCGGAGGAGCTGGGGACCCCAGGACCCTCCTTACCAGATGTGCCTGTGA
TGGAGCCTCGTGGCTTATTTAGTTCTGATTCTGGAATAGAGATGACTCCTGCAGAGTCCACCGA
AGTGAACAAGGTCCTAGCTGACCCTCTGGGCCATATGAAAGCAGAAGCCTGTAAGTACATGGAT
ATAACGAGGCCAGAGGAGGTGAAATGTCAGGAGCAACATCGCCCTGAGTTGGAGGATAAAGACT
TGGACTTTAAGAGCAAGGACACTGAAATCTCAACAAAAGCAGGAGGCATCCGAGAACCTGACAA
ACCAGCTCCTGTGGAGGGGAAAATCATCAAGGACCACTTGTTTGAAGAATCCACCTTTGCTTCT
TACATAGATGATCTCTCTGAGGCCCAGCACAGTGCTCCTCTGGTCACGGCCCCCATCAAAATCA
CACTGACCGAAATTGAACCTGCTGTCATGACTGCTGTCCAAGACAAGACCCCAGAGAAGCAAGA
CGTCTGTCTGAAGCCAAGCCCTGACACAGTCCCCACCGTCACTGTTTCAGAGCCCGAAGATGAC
AGCCCAGGATCTGTCACTCCTCCATCTTCTGGAACAGAACCATCTGCTGCCGAGTCCCCAGGGA
AAGGCGGCGGGTCGGAGGACGAGCTCGTGACTGCCATCCAGGAAGCACAGGGGCTGTCCTTCGA
GCCCGCGAGGGGCCCGGCGGCCGGGGGGCCCGAGGCCAAGGCCAGGTCGGGGCTGCCCACCCTG
CCCGGGCCCCTGGACCACGAGGCGAGCAGCGCCGAGTCGGGGGACTCGGAGATCGAGCTGGTGT
CGGAGGACCCCCTGGCCGGCGAGGACGCGCTGCCCGCGGGGTTCGCGGCTTTCGGCTCTGGGGG
CGGCCCCCCGCCGTCGCCCGCCTCCCCGGGAGTGCAGTACAGCCTGCTGCGCGAGGAGCGCGAG
GCCGAGCTGGACAGCGAGCTCATCCTCGAGTCGGGCGACGCCTCCTCGGCCTCGGAGGAGAGCC
CCAAGCGCGAGCAGGACTCGCCGCCCGCGCGGCCCGGCGCCCCGGACCCCGGCCGCGAGCAGCC
CCGCGCCCCGGCGGAGGAGCAAGGCCCCTTCCGGTTCCCCGCGGGCGCGCCCCCGGGAGCCCGA
GACGGAGCTGCAGCAGGGGCCCCGGCGCCCGAGACGGCGAGCAGCTCTGCGCCCCGGGCGGCGG
CCGGCGAGGGCCCTGGAGCGCGCGGTCCCAGCGCCGTGCCCCCGCTGCCGTTCCTCAGCAGGCA
GAAAGCCATCGACCTGCTCTACTGGCGGGACATTAAGCAGACCGGGATCGTGTTTGGAAGCTTC
CTGCTCCTGCTCTTCTCCCTGACCCAGTTCAGCGTGGTGAGTGTCGTGGCCTACCTGGCCCTGG
CCGCACTCTCCGCCACCATCAGTTTCCGCATCTACAAGTCCGTGTTACAAGCTGTGCAGAAGAC
TGATGAGGGCCACCCTTTCAAGGCCTACCTGGAGCTCGAGATCAGCCTGTCACAGGAGCAAATC
CAGAAGTACACGGACTGCCTGCAGCTCTATGTGAACAGCACGCTGAAGGAACTGCGGAGACTGT
TCCTCGTCCAGGACCTCGTGGACTCCTTAAAATTTGCAGTGCTGATGTGGCTCCTGACTTATGT
TGGCGCGCTCTTCAACGGCCTGACCCTGCTTCTCATGGCTGTGGTTTCGATGTTTACTCTACCT
GTAGTGTATGTTAAGCACCAGGCACAGATTGACCAATACCTGGGACTTGTGAGGACTCACATAA
ATGCTGTCGTGGCAAAGATCCAGGCTAAAATCCCAGGTGCCAAAAGGCACGCCGAGTAGGTGGC
TGTCCCGGCGGGGACTGGACACACACAGGGATGTCTGAGTGGTAACAGCTTCCATCTTAATTGT
TACTGCAAATCGATCGTTTCCCCCACACCACCATAATCTTAGAGGCAAACTTTGAAACAGCTGT
TTTTAGGCTGTTCTTGTGCTCTTAGGATATTTGAGTCACTTGTGTCAAGCACTAAAGTATAGAG
AAAAGTGTATTAGACGTGGTTTTTAATTTCGTGTTGCGAACAAAAGTGCATGATGGTGCGAGCC
CATGTCGTCGTTCCTCCCTCGCTGCCCCCTCCTCTCCGCAGTGCTTCTTAGCTTCTCATGTCCC
TGCGGCCAGGCCCTTCCTGCCGAGTGCTGACGCAATAGTGGAAGTCGCTTCTGTGTCTTTGGGT
TGCTGGTTGGGTGAATCTTTAATAACACTATATAGAATTGTAGACTAATGTTTAGCGTTTTTTC
CAAAACACACAATGTAAAAATTTAAAATGTCCACCATACTTACAGTAATCGGTTTTGTATAACT
TAAAATAATTAAATGAATAAACCCAAAATGAACATGCAGTGCTTTTGTTGTATGGGATTGATGG
GCTGATTTACATGTGTGGTAACTGAAAAGTACCAGCATGTTAACTTTATTACAATTTGTATTAC
TTTCTCTGTAGTTCCTAATGGACTTAATTATGGACTCTGGATATTTGCACTTATGTACTTGATA
CTGAATGCATAAATAAATGTTACTAAATGTAGAAAG

hide sequence

Protein Sequences


Protein RefSeqs	XP_013377456	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_013377456 ⟸ XM_013522002

- Sequence:

show sequence

MCSIICVTVLPSGLDHSLSTTPEDGEGACYTSLISDICYPPREESTYFTGILQKENGHITTSES
SEELGTPGPSLPDVPVMEPRGLFSSDSGIEMTPAESTEVNKVLADPLGHMKAEACKYMDITRPE
EVKCQEQHRPELEDKDLDFKSKDTEISTKAGGIREPDKPAPVEGKIIKDHLFEESTFASYIDDL
SEAQHSAPLVTAPIKITLTEIEPAVMTAVQDKTPEKQDVCLKPSPDTVPTVTVSEPEDDSPGSV
TPPSSGTEPSAAESPGKGGGSEDELVTAIQEAQGLSFEPARGPAAGGPEAKARSGLPTLPGPLD
HEASSAESGDSEIELVSEDPLAGEDALPAGFAAFGSGGGPPPSPASPGVQYSLLREEREAELDS
ELILESGDASSASEESPKREQDSPPARPGAPDPGREQPRAPAEEQGPFRFPAGAPPGARDGAAA
GAPAPETASSSAPRAAAGEGPGARGPSAVPPLPFLSRQKAIDLLYWRDIKQTGIVFGSFLLLLF
SLTQFSVVSVVAYLALAALSATISFRIYKSVLQAVQKTDEGHPFKAYLELEISLSQEQIQKYTD
CLQLYVNSTLKELRRLFLVQDLVDSLKFAVLMWLLTYVGALFNGLTLLLMAVVSMFTLPVVYVK
HQAQIDQYLGLVRTHINAVVAKIQAKIPGAKRHAE

hide sequence

Additional Information

External Database Links

Database	Acc Id	Source(s)
NCBI Gene	Rtn1	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)

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Imported Disease Annotations - CTD