Limd2 (LIM domain containing 2) - Rat Genome Database

Name: Limd2
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Limd2 (LIM domain containing 2) Ictidomys tridecemlineatus

Analyze

Symbol:

Limd2

Name:

LIM domain containing 2

RGD ID:

12456588

Description:

ENCODES a protein that exhibits actin filament binding (inferred); metal ion binding (inferred); INVOLVED IN actin filament bundle assembly (inferred); ASSOCIATED WITH Breast Neoplasms (ortholog); Neoplasm Recurrence, Local (ortholog); FOUND IN actin cytoskeleton (inferred); cytosol (inferred); nucleoplasm (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

LIM domain-containing protein 2

RGD Orthologs

Alliance Orthologs

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):	LIMD2 (LIM domain containing 2)	NCBI	Ortholog
Mus musculus (house mouse):	Limd2 (LIM domain containing 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Limd2 (LIM domain containing 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Limd2 (LIM domain containing 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LIMD2 (LIM domain containing 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	LIMD2 (LIM domain containing 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	LIMD2 (LIM domain containing 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	LIMD2 (LIM domain containing 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Limd2 (LIM domain containing 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline

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_024405602	14,845,157 - 14,847,961 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936541	4,346,644 - 4,348,120 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936541	4,346,633 - 4,348,367 (-)	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

Breast Neoplasms (ISO)

Neoplasm Recurrence, Local (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

actin filament bundle assembly (IEA)

Cellular Component

actin cytoskeleton (IEA)

cytosol (IEA)

nucleoplasm (IEA)

plasma membrane (IEA)

Molecular Function

actin filament binding (IEA)

metal ion binding (IEA)

protein binding (ISO)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

Limd2
(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_024405602	14,845,157 - 14,847,961 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936541	4,346,644 - 4,348,120 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936541	4,346,633 - 4,348,367 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

LIMD2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	17	63,695,888 - 63,701,155 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	17	63,695,888 - 63,701,172 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	17	61,773,248 - 61,777,485 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	17	59,126,981 - 59,131,251 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	17	56,161,369 - 56,165,639 (-)	NCBI		Celera
Cytogenetic Map	17	q23.3	NCBI
HuRef	17	57,141,395 - 57,145,601 (-)	NCBI		HuRef
CHM1_1	17	61,837,661 - 61,841,931 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	17	64,566,794 - 64,571,430 (-)	NCBI		T2T-CHM13v2.0

Limd2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	106,047,080 - 106,051,555 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	11	106,047,082 - 106,051,686 (-)	Ensembl		GRCm39 Ensembl
GRCm38	11	106,156,254 - 106,160,729 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	106,156,256 - 106,160,860 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	106,017,570 - 106,021,456 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	11	105,972,346 - 105,976,232 (-)	NCBI		MGSCv36	mm8
Celera	11	117,886,474 - 117,890,360 (-)	NCBI		Celera
Cytogenetic Map	11	E1	NCBI
cM Map	11	68.89	NCBI

Limd2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	10	91,590,079 - 91,592,747 (-)	NCBI		GRCr8
mRatBN7.2	10	91,090,279 - 91,092,772 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	10	91,090,280 - 91,092,775 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	10	96,144,910 - 96,146,990 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	10	95,608,080 - 95,610,160 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	10	91,018,839 - 91,020,919 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	10	94,350,789 - 94,353,301 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	94,350,817 - 94,352,880 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	94,099,457 - 94,101,947 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	95,552,509 - 95,554,534 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	10	95,566,878 - 95,568,904 (-)	NCBI
Celera	10	89,766,367 - 89,768,394 (-)	NCBI		Celera
Cytogenetic Map	10	q32.1	NCBI

Limd2
(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_004955478	8,120,156 - 8,121,826 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955478	8,120,405 - 8,121,826 (+)	NCBI	ChiLan1.0	ChiLan1.0

LIMD2
(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	19	79,870,010 - 79,873,296 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	17	84,687,464 - 84,690,750 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	17	57,778,107 - 57,781,401 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	17	62,924,378 - 62,926,236 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	17	62,924,378 - 62,926,236 (-)	Ensembl	panpan1.1		panPan2

LIMD2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	9	11,679,963 - 11,682,389 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	9	11,680,617 - 11,681,655 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	9	12,639,911 - 12,642,358 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	9	13,340,702 - 13,343,148 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	9	13,340,711 - 13,343,125 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	9	12,287,794 - 12,290,238 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	9	15,241,953 - 15,244,389 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	9	15,244,813 - 15,247,278 (+)	NCBI		UU_Cfam_GSD_1.0

LIMD2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	12	15,222,973 - 15,227,700 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	12	15,223,798 - 15,229,634 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	12	15,212,872 - 15,214,392 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

LIMD2
(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	16	57,588,067 - 57,593,032 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	16	57,590,699 - 57,592,469 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666077	28,201,352 - 28,204,052 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Limd2
(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_004624849	1,187,599 - 1,189,441 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624849	1,186,946 - 1,190,059 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005328196	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000662	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSTOT00000008880 ⟹ ENSSTOP00000007955

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936541	4,346,644 - 4,348,120 (-)	Ensembl

RefSeq Acc Id:

XM_005328196 ⟹ XP_005328253

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024405602	14,845,157 - 14,847,961 (+)	NCBI
SpeTri2.0	NW_004936541	4,346,633 - 4,348,367 (-)	NCBI

Sequence:

show sequence

CCAGCCTGCGGAGCGCACGAGGAGGCTGCGCGGGACCTTTTGTGCCCGGCCGCTGCCCCATAAC
TTTGTTCTTTTCCCACACATAGTTCCACTCCAGGACCCCTGTCCCTTGGGGAGCAGCGTGGGGG
ACGGGCAGGCAAGAGGGTGGGTGAGGGGCGGAAGTGGCAAAACCGAGAGCAACAGGAAATGACT
TAGGGAAAGTCCCAACCACAGCCCCCCAGCCCCCTGCCTGTAAACACCCCCACCCTGCAGCCTG
CAGAAGGCTCGTGGGGCCCCATCGACTGACTTCCCCTTGCAGAACCCAGCGGGTGCCGCGTCTC
TGCCTGGGGCCTCCATCACCTCCGACAAGCCATGTTCCAGGCTTCGGGAGCCGCCCAGGCCACC
CCATCTCATGAAGCCAAAAGCAGCGGTGGCAACAGCGCTGTGCAGCGCTCCAAGTCCTTCAGCC
TGCGGGCCCAGGTGAAGGAGACTTGTGCCGCCTGCCAGAAGACTGTGTACCCCATGGAGCGGCT
GGTGGCAGACAAGCTCATTTTCCACAACTCTTGCTTCTGCTGCAAGCACTGCCATACCAAGCTC
AGTCTGGGCAGCTATGCCGCGCTGCATGGTGAGTTTTACTGCAAACCCCACTTTCAGCAGCTGT
TTAAGAGCAAAGGCAACTACGATGAGGGATTCGGCCGAAAACAGCACAAGGAGCTCTGGGCCCA
CAAAGAGGTGGACCCCGGCACCAAGACAGCCTGAGGCCCCTCTGACCATCCACTCCCTCAGCGG
AGGGCCTGGAACTGGGCGGTGGGAAGGGCGGGAAAAAGATTCTCTGGGTTTGAGTAGGGGGCAG
GGTGGGAAGGGGGAGGCTTGCTCAGGCAGAAGGTTCCGGGGCAGGGCTCTGCTCCAGGATTCCT
TCCTTCTCCTTCAGTGGGGGTCAAGGGGTGGGAACCAGGATTGGGGTTTGCTCACCCTGCTTCC
TTCAGCCCACCCCACCTCACCACATGGCCCCCTGGGAGGCCGCCAAGCCCAGCTTCCCTTTTTA
GGTGCCTTTTCTCCAGCAAGGAGTCAGCATGCCCCCCTCAGGGTCCCAAGCTCCCTTACTGCCA
CCTGGGCCATGTTGGCCCCCATGTCTCCCCATCTACCTCTGTCCTTAGCCTGGTCCTGAGCCAC
AGACTGGGAGGAAGGAGAGTGAGAGTGTCACCTGCTGGACCTCAAGGATGCCACAGCAGCTGAT
GGGGGAGGGAATGGGGAAGTAGAAGGCAAAGCAGGGCCCACTGCCTTGGGGCCGGGACCCCCTT
GCACCATGAAGCTAAAGTCCCCGCCAGGCTGAGCGCTTCTGAGACCTTCGGGGGCCAGCAGCAG
CCGTGCCCCCTCCTCTCCCTCATTTCTGCCTTCTGACTGTTGTGATAACCCTGTTTTAAACATG
TTTAAACAGATCCTGACTCTA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005328253	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000007955.2
GenBank Protein	KAG3268671	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_005328253 ⟸ XM_005328196
- UniProtKB:	I3MCG8 (UniProtKB/TrEMBL)
- Sequence:	show sequence MFQASGAAQATPSHEAKSSGGNSAVQRSKSFSLRAQVKETCAACQKTVYPMERLVADKLIFHNS CFCCKHCHTKLSLGSYAALHGEFYCKPHFQQLFKSKGNYDEGFGRKQHKELWAHKEVDPGTKTA hide sequence

RefSeq Acc Id:

ENSSTOP00000007955 ⟸ ENSSTOT00000008880

Protein Domains

LIM zinc-binding

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000008884	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000008880.3	UniProtKB/TrEMBL
Gene3D-CATH	Cysteine Rich Protein	UniProtKB/TrEMBL
InterPro	LIM_LIMD2	UniProtKB/TrEMBL
	Znf_LIM	UniProtKB/TrEMBL
NCBI Gene	Limd2	ENTREZGENE
PANTHER	LIM ZINC-BINDING DOMAIN-CONTAINING PROTEIN	UniProtKB/TrEMBL
	OS06G0237300 PROTEIN	UniProtKB/TrEMBL
Pfam	LIM	UniProtKB/TrEMBL
PROSITE	LIM_DOMAIN_1	UniProtKB/TrEMBL
	LIM_DOMAIN_2	UniProtKB/TrEMBL
SMART	LIM	UniProtKB/TrEMBL
Superfamily-SCOP	Glucocorticoid receptor-like (DNA-binding domain)	UniProtKB/TrEMBL
UniProt	I3MCG8	ENTREZGENE, 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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