Defb123 (defensin beta 123) - Rat Genome Database

Name: Defb123
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

Gene: Defb123 (defensin beta 123) Chinchilla lanigera

Analyze

Symbol:

Defb123

Name:

defensin beta 123

RGD ID:

8724206

Description:

ASSOCIATED WITH genetic disease (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

beta-defensin 123; defensin, beta 123

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):	DEFB123 (defensin beta 123)	NCBI	Ortholog
Mus musculus (house mouse):	Defb36 (defensin beta 36)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus norvegicus (Norway rat):	Defb36 (defensin beta 36)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	LOC100967439 (beta-defensin 123)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	DEFB123 (defensin, beta 123)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Defb123 (defensin beta 123)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	DEFB123 (defensin beta 123)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	DEFB123 (defensin beta 123)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Defb123 (defensin beta 123)	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_004955422	29,494,119 - 29,496,857 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955422	29,494,221 - 29,496,697 (-)	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

genetic disease (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:22301074

Genomics

Comparative Map Data

Defb123
(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_004955422	29,494,119 - 29,496,857 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955422	29,494,221 - 29,496,697 (-)	NCBI	ChiLan1.0	ChiLan1.0

DEFB123
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	20	31,440,632 - 31,450,257 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	20	31,440,632 - 31,450,257 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	20	30,028,435 - 30,038,060 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	20	29,492,072 - 29,501,721 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	20	29,492,071 - 29,501,720	NCBI
Celera	20	26,784,635 - 26,794,282 (+)	NCBI		Celera
Cytogenetic Map	20	q11.21	NCBI
HuRef	20	26,817,157 - 26,826,807 (+)	NCBI		HuRef
CHM1_1	20	29,932,419 - 29,942,067 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	20	33,164,768 - 33,174,395 (+)	NCBI		T2T-CHM13v2.0

Defb36
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	152,446,247 - 152,454,649 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	2	152,446,247 - 152,454,649 (+)	Ensembl		GRCm39 Ensembl
GRCm38	2	152,604,327 - 152,612,729 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	152,604,327 - 152,612,729 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	152,430,063 - 152,438,465 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	2	153,407,994 - 153,416,201 (+)	NCBI		MGSCv36	mm8
MGSCv36	2	152,295,814 - 152,304,169 (+)	NCBI		MGSCv36	mm8
Celera	2	158,417,922 - 158,426,247 (+)	NCBI		Celera
Cytogenetic Map	2	H1	NCBI
cM Map	2	75.41	NCBI

Defb36
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	3	161,538,276 - 161,547,107 (+)	NCBI		GRCr8
mRatBN7.2	3	141,078,001 - 141,086,832 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	3	141,086,058 - 141,086,728 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	3	144,982,953 - 144,991,786 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	3	153,566,799 - 153,575,633 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	3	151,307,064 - 151,315,886 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	3	148,082,790 - 148,091,621 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	148,082,790 - 148,091,619 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	3	154,488,910 - 154,496,899 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	142,946,483 - 142,959,997 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	3	139,827,880 - 139,836,380 (+)	NCBI		Celera
Cytogenetic Map	3	q41	NCBI

LOC100967439
(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	21	37,134,966 - 37,145,487 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	20	37,128,063 - 37,138,584 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	20	27,732,784 - 27,742,477 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	20	28,368,839 - 28,379,007 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	20	28,368,839 - 28,379,007 (+)	Ensembl	panpan1.1		panPan2

DEFB123
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	24	20,959,413 - 20,970,829 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	24	20,607,848 - 20,618,870 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	24	21,646,683 - 21,657,704 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	24	21,646,819 - 21,683,952 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	24	20,925,000 - 20,936,020 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	24	21,030,238 - 21,041,312 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	24	21,460,160 - 21,471,251 (+)	NCBI		UU_Cfam_GSD_1.0

Defb123
(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	170,049,418 - 170,056,598 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936485	18,481,031 - 18,487,862 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936485	18,481,031 - 18,487,862 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

DEFB123
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	17	35,185,273 - 35,191,549 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	17	35,185,257 - 35,190,686 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	17	39,872,173 - 39,877,529 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

DEFB123
(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	2	35,860,581 - 35,868,274 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	2	35,861,049 - 35,868,322 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666050	91,089,926 - 91,097,217 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Defb123
(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_004624741	1,078,332 - 1,081,071 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624741	1,078,458 - 1,081,062 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005384919	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01023399	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBDF01049661	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000025036 ⟹ ENSCLAP00000024796

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955422	29,494,119 - 29,496,857 (-)	Ensembl

RefSeq Acc Id:

XM_005384919 ⟹ XP_005384976

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955422	29,494,221 - 29,496,697 (-)	NCBI

Sequence:

show sequence

TGGGCGCTGAGGGCACGTGGGCGTGACGCGTGAGCCACAGAGCCCGGGCGCTCCCCACTCCCCA
CTTGCTTTGTCTTCGCTTCTGCTTGCAGCTTCACTTTTGGCTGCACTCTCCAGCCATGAAGCTC
CTGGTGCTGTCGTTGGCCGTGCTGCTGCTCATGTCCCACCTCACCCCAGGTGTTGCCCAAAGAT
GCTGGAATCTTCTTGGCAAATGCCGCCACAGATGCTCCAGGAAGGAAAGTGTCTATGTTTACTG
CACCAATGGTAAAATGTGCTGCGTCAAACCCAAGTACCAGCCAAAACCAAAGCCATCGTGGTTA
TTTTGAGGGCTTTGAAGTCTGAAGCCAGGAAAATGCAGAAGTTGCCCAAACTCTGGCCCGAGTG
GATTCTTGAGCTGTGTCAATAAACACCTCTGGCTGATCA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005384976	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000024796
	ENSCLAP00000024796.1

RefSeq Acc Id:	XP_005384976 ⟸ XM_005384919
- UniProtKB:	A0A8C2W3W3 (UniProtKB/TrEMBL)
- Sequence:	show sequence MKLLVLSLAVLLLMSHLTPGVAQRCWNLLGKCRHRCSRKESVYVYCTNGKMCCVKPKYQPKPKP SWLF hide sequence

RefSeq Acc Id:

ENSCLAP00000024796 ⟸ ENSCLAT00000025036

Protein Domains

Beta-defensin

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000017024	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000025036	ENTREZGENE
	ENSCLAT00000025036.1	UniProtKB/TrEMBL
InterPro	Beta_defensin	UniProtKB/TrEMBL
NCBI Gene	LOC102023372	ENTREZGENE
PANTHER	BETA-DEFENSIN 123	UniProtKB/TrEMBL
	BETA-DEFENSIN 123-RELATED	UniProtKB/TrEMBL
Pfam	Defensin_beta_2	UniProtKB/TrEMBL
UniProt	A0A8C2W3W3	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-08-16	Defb123	defensin beta 123		defensin, beta 123	Symbol and/or name change	5135510	APPROVED
2015-08-25	Defb123	defensin, beta 123	LOC102023372	beta-defensin 36-like	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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