Lmnb1 (lamin B1) - Rat Genome Database

Name: Lmnb1
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Lmnb1 (lamin B1) Chinchilla lanigera

Analyze

Symbol:

Lmnb1

Name:

lamin B1

RGD ID:

8968369

Description:

ENCODES a protein that exhibits double-stranded DNA binding (ortholog); phospholipase binding (ortholog); sequence-specific double-stranded DNA binding (ortholog); INVOLVED IN cellular response to corticosterone stimulus (ortholog); cellular response to L-glutamate (ortholog); cellular response to organic cyclic compound (ortholog); ASSOCIATED WITH adult-onset autosomal dominant demyelinating leukodystrophy (ortholog); Animal Disease Models (ortholog); COVID-19 (ortholog); FOUND IN lamin filament (ortholog); nuclear envelope (ortholog); nuclear inner membrane (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

lamin-B1

RGD Orthologs

Alliance Genes

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):	LMNB1 (lamin B1)	NCBI	Ortholog
Mus musculus (house mouse):	Lmnb1 (lamin B1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Lmnb1 (lamin B1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LMNB1 (lamin B1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	LMNB1 (lamin B1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Lmnb1 (lamin B1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LMNB1 (lamin B1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LMNB1 (lamin B1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Lmnb1 (lamin B1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955521	4,583,671 - 4,612,271 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955521	4,583,691 - 4,612,271 (+)	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

adult-onset autosomal dominant demyelinating leukodystrophy (ISO)

Animal Disease Models (ISO)

COVID-19 (ISO)

familial adenomatous polyposis 1 (ISO)

genetic disease (ISO)

Hereditary Neoplastic Syndromes (ISO)

lung adenocarcinoma (ISO)

microcephaly (ISO)

Neurodevelopmental Disorders (ISO)

Pelizaeus-Merzbacher disease (ISO)

Primary Autosomal Recessive Microcephaly 26 (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

cellular response to corticosterone stimulus (ISO)

cellular response to L-glutamate (ISO)

cellular response to organic cyclic compound (ISO)

neurogenesis (ISO)

nuclear envelope organization (ISO)

response to xenobiotic stimulus (ISO)

Cellular Component

lamin filament (ISO)

nuclear envelope (ISO)

nuclear inner membrane (ISO)

nuclear lamina (ISO)

nuclear matrix (ISO)

nuclear membrane (ISO)

nuclear periphery (ISO)

nucleoplasm (ISO)

nucleus (ISO)

Molecular Function

double-stranded DNA binding (ISO)

phospholipase binding (ISO)

protein binding (ISO)

sequence-specific double-stranded DNA binding (ISO)

structural constituent of nuclear lamina (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Transitive Annotation Pipeline	Automated assignment of GO, PW and RDO ISO annotations across species
2.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline

Genomics

Comparative Map Data

Lmnb1
(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_004955521	4,583,671 - 4,612,271 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955521	4,583,691 - 4,612,271 (+)	NCBI	ChiLan1.0	ChiLan1.0

LMNB1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	5	126,776,623 - 126,837,020 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	5	126,776,623 - 126,837,020 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	5	126,112,315 - 126,172,712 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	5	126,140,732 - 126,200,608 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	5	126,140,731 - 126,200,608	NCBI
Celera	5	122,068,688 - 122,128,577 (+)	NCBI		Celera
Cytogenetic Map	5	q23.2	NCBI
HuRef	5	121,304,338 - 121,364,498 (+)	NCBI		HuRef
CHM1_1	5	125,544,889 - 125,605,473 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	5	127,296,579 - 127,357,028 (+)	NCBI		T2T-CHM13v2.0

Lmnb1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	18	56,840,885 - 56,886,496 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	18	56,840,885 - 56,886,496 (+)	Ensembl		GRCm39 Ensembl
GRCm38	18	56,707,813 - 56,753,424 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	18	56,707,813 - 56,753,424 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	18	56,867,467 - 56,913,078 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	18	56,833,242 - 56,878,791 (+)	NCBI		MGSCv36	mm8
Celera	18	58,016,751 - 58,063,869 (+)	NCBI		Celera
Cytogenetic Map	18	D3	NCBI
cM Map	18	30.84	NCBI

Lmnb1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	18	52,373,939 - 52,413,284 (+)	NCBI		GRCr8
mRatBN7.2	18	50,175,861 - 50,215,210 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	18	50,175,874 - 50,214,502 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	18	52,214,944 - 52,253,551 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	18	52,922,869 - 52,961,415 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	18	50,720,824 - 50,759,431 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	18	51,785,111 - 51,822,264 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	18	51,785,111 - 51,822,264 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	18	50,979,862 - 51,018,232 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	18	52,470,605 - 52,508,022 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	18	52,516,112 - 52,553,517 (+)	NCBI
Celera	18	48,320,757 - 48,358,598 (+)	NCBI		Celera
Cytogenetic Map	18	q12.1	NCBI

LMNB1
(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	122,088,569 - 122,150,100 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	5	120,228,131 - 120,289,089 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	5	122,179,513 - 122,240,848 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	5	127,949,457 - 128,010,721 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	5	127,949,457 - 128,010,721 (+)	Ensembl	panpan1.1		panPan2

LMNB1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	11	15,996,627 - 16,052,719 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	11	15,930,436 - 16,052,127 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	11	14,788,442 - 14,844,580 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	11	16,721,688 - 16,778,072 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	11	16,721,265 - 16,778,626 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	11	15,451,725 - 15,508,065 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	11	15,298,132 - 15,354,432 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	11	15,895,575 - 15,951,943 (+)	NCBI		UU_Cfam_GSD_1.0

Lmnb1
(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	138,583,486 - 138,637,939 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936504	157,453 - 211,967 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936504	157,459 - 211,916 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LMNB1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	129,807,318 - 129,872,270 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	129,807,228 - 129,862,211 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	2	135,104,017 - 135,158,937 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LMNB1
(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	23	29,759,133 - 29,814,332 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	23	29,759,514 - 29,814,314 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666034	48,254,893 - 48,313,748 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Lmnb1
(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_004624774	14,805,465 - 14,863,241 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624774	14,806,585 - 14,863,543 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_013507092	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01068273	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBBH01026773	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000003998 ⟹ ENSCLAP00000003922

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955521	4,583,671 - 4,612,271 (+)	Ensembl

RefSeq Acc Id:

XM_013507092 ⟹ XP_013362546

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955521	4,583,691 - 4,612,271 (+)	NCBI

Sequence:

show sequence

TTATGCTAAGAAAGAATCTGATCTTAATGGAGCCCAGATTAAGCTTCGAGAATATGAAGCAGCA
TTGAACTCTAAAGATGCAGCTCTGGCTACTGCACTTGGTGACAAAAAAAGTTTAGAAGGAGATT
TGGAGGATCTGAAGGATCAGATTGCTCAGTTGGAAGCCTCCTTAGCTGCTGCCAAAAAACAGTT
AGCAGATGAAACTTTGCTCAAAGTGGATTTGGAGAACCGTTGTCAGAGCCTTACTGAGGACTTG
GAGTTTCGTAAAAACATGTATGAAGAGGAGATTAATGAGACCAGAAGGAAGCATGAGACGCGCT
TGGTGGAAGTGGACTCCGGACGTCAGATTGAGTATGAGTACAAGCTGGCGCAGGCCCTGCACGA
GATGAGAGAGCAGCACGATGCCCAAGTGCGGCTGTACAAGGAGGAGCTGGAGCAGACGTACCAT
GCCAAGCTTGAGAATGCGAGACTGTCCTCAGAGATGAACACTTCCACTGTCAACAGCGCCAGAG
AAGAGCTGATGGAAAGTCGCATGAGAATCGAGAGCCTCTCGTCTCAGCTTTCTAGTCTTCAGAA
AGAGTCTAGAGCATGTTTGGAGAGGATTCAGGAGCTGGAGGACTTACTCGCCAAAGAACGGGAC
AACTCTCGCCGCATGCTGTCTGACAAAGAGAGAGAGATGGCCGAAATAAGGGATCAGATGCAGC
AGCAGCTGAACGATTATGAACAACTTCTTGACGTGAAACTAGCACTGGACATGGAGATCAGTGC
TTACAGGAAACTCTTAGAAGGCGAAGAAGAGAGGCTGAAGCTCTCTCCGAGCCCGTCCTCCAGG
GTGACGGTGTCGCGCGCGTCCTCCAGCCGCAGCGTGCGCACCACGAGGGGAAAGCGGAAGAGGG
TGGATGTGGAGGAGTCAGAGGCCAGCAGCAGTGTGAGCATCGCCCACTCCGCCTCGGCCACCGG
GAGCGTGTGCATCGAGGAGATCGATGTTGACGGCAAGTTCATCCGCCTGAAGAATACCTCCGAG
CAGGATCAACCAATGGGAGGCTGGGAGATGATCAGAAAAATTGGAGACACATCAGTCAGTTACA
AATATACCTCAAGATACGTGCTGAAGGCAGGCCAGACCGTTACAATTTGGGCTGCAAATGCTGG
TGTCACAGCCAGTCCTCCCACTGACCTCATCTGGAAGAACCAGAACTCTTGGGGCACTGGCGAG
GATGTGAAGGTTATATTGAAAAATTCTCAGGGAGAGGAGGTTGCACAAAGAAGTACAGTCTTTA
AAACAAGCATACCTGAGGAGGAGGAGGAGGAGGAGGAGCCGTCGGGAGTGGTTGTTGAGGAAGA
GCTTTTCCACCAGCAGGGAGCCCCAAGAGCGTCCAATAGAAGCTGTGCAATTATGTAAACTTCG
CAAGGCAGCTGTCTTCCTCAGTATAAAGAAGTGTGGTAATTCTTACCTGTATACAGTGCAGATC
CTTCTCAGAAGCACAGAGTATTTTTATATTTCCTTTATGTGAATTTTTAAGCTGCGAATCTGAT
GGCCTTAATTTCCTTTTTGACACTGAAAGTTTTGTAAAACAAATCCTATCCATACACTTTGTTG
CAAGATGTGAATTATTGACACTGAACTAACTGTGCTGTTCGGAAAGGGTCCCTCAAATTTTTTG
GCTTTTTTTGTAAGTGTGTACGTGTTTTCTGTTTTTTTAAGTTCTTATGAGAAGGGGGATAAAT
AAACCACTATGTGTCTGGCTATAAGTTGAAGATTGCTCCATCTAGATTGGCAATCTGCTCTTGA
GTCTTTTCTGCTCTATATAACGGTGCTGTGAGGGCGGGGAAAGCATTTTTCAATATATTGAACT
TTTGTACTGAATTTTTTTGTAATAAGCAATCAAGGTTACAAATTTTGTTTCGTTCTGTTTTTTA
AATAGAAAAGAAAAGAGAAATTTTGTAAGAAGGCAATATTAACCTAATCATCATGTAAGCACTC
TGGATGAAGGACTCCGCAAAGCTGTTCCATGGTTATTCCTCTTAGAATCTTAACTCATGAGGGC
AGTGGGGCCGGGCAGGGGTGGTGGGGCGAGGGAAGGGTTTCTCTATGAAAATGCATTAGTCGTG
TTTTTTAAGATAGTGTAACATGCTTACATTTCTTATGTGACATTAACAAATAAAAAGTTCTTTT
AATATTAA

hide sequence

Protein Sequences


Protein RefSeqs	XP_013362546	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000003922.1

RefSeq Acc Id:

XP_013362546 ⟸ XM_013507092

- Sequence:

show sequence

MYEEEINETRRKHETRLVEVDSGRQIEYEYKLAQALHEMREQHDAQVRLYKEELEQTYHAKLEN
ARLSSEMNTSTVNSAREELMESRMRIESLSSQLSSLQKESRACLERIQELEDLLAKERDNSRRM
LSDKEREMAEIRDQMQQQLNDYEQLLDVKLALDMEISAYRKLLEGEEERLKLSPSPSSRVTVSR
ASSSRSVRTTRGKRKRVDVEESEASSSVSIAHSASATGSVCIEEIDVDGKFIRLKNTSEQDQPM
GGWEMIRKIGDTSVSYKYTSRYVLKAGQTVTIWAANAGVTASPPTDLIWKNQNSWGTGEDVKVI
LKNSQGEEVAQRSTVFKTSIPEEEEEEEEPSGVVVEEELFHQQGAPRASNRSCAIM

hide sequence

RefSeq Acc Id:

ENSCLAP00000003922 ⟸ ENSCLAT00000003998

Protein Domains

IF rod LTD

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000002790	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000003998.1	UniProtKB/TrEMBL
Gene3D-CATH	1.20.5.170	UniProtKB/TrEMBL
	2.60.40.1260	UniProtKB/TrEMBL
	Single helix bin	UniProtKB/TrEMBL
	Vasodilator-stimulated phosphoprotein	UniProtKB/TrEMBL
InterPro	IF_conserved	UniProtKB/TrEMBL
	IF_rod_dom	UniProtKB/TrEMBL
	Lamin_tail_dom	UniProtKB/TrEMBL
	Lamin_tail_dom_sf	UniProtKB/TrEMBL
NCBI Gene	Lmnb1	ENTREZGENE
PANTHER	LAMIN DM0-RELATED	UniProtKB/TrEMBL
	LAMIN-B1	UniProtKB/TrEMBL
Pfam	Filament	UniProtKB/TrEMBL
	LTD	UniProtKB/TrEMBL
PROSITE	IF_ROD_1	UniProtKB/TrEMBL
	IF_ROD_2	UniProtKB/TrEMBL
	LTD	UniProtKB/TrEMBL
SMART	Filament	UniProtKB/TrEMBL
Superfamily-SCOP	Intermediate filament protein, coiled coil region	UniProtKB/TrEMBL
	SSF74853	UniProtKB/TrEMBL
UniProt	A0A8C2YJT7_CHILA	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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