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Defb1 defensin beta 1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 83687, updated on 18-Nov-2018

Summary

Official Symbol
Defb1provided by RGD
Official Full Name
defensin beta 1provided by RGD
Primary source
RGD:619943
See related
Ensembl:ENSRNOG00000013768
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
CDK4
Summary
cationic peptides with broad-spectrum antimicrobial activity; may mediate mucosal defenses of several organs [RGD, Feb 2006]
Expression
Restricted expression toward (RPKM 2123.5) See more

Genomic context

See Defb1 in Genome Data Viewer
Location:
16q12.5
Exon count:
2
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (75294385..75309127, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 16 NC_005115.3 (74908901..74923643, complement)

Chromosome 16 - NC_005115.4Genomic Context describing neighboring genes Neighboring gene defensin beta 2 Neighboring gene defensin beta 50 Neighboring gene defensin alpha 5 Neighboring gene defensin alpha 24

Genomic regions, transcripts, and products

Expression

  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

General gene information

Markers

Gene Ontology Provided by RGD

Function Evidence Code Pubs
CCR6 chemokine receptor binding ISO
Inferred from Sequence Orthology
more info
 
CCR6 chemokine receptor binding ISS
Inferred from Sequence or Structural Similarity
more info
 
double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
 
identical protein binding ISO
Inferred from Sequence Orthology
more info
 
identical protein binding ISS
Inferred from Sequence or Structural Similarity
more info
 
molecular_function ND
No biological Data available
more info
 
Process Evidence Code Pubs
acute inflammatory response IEP
Inferred from Expression Pattern
more info
PubMed 
antibacterial humoral response ISO
Inferred from Sequence Orthology
more info
 
antimicrobial humoral immune response mediated by antimicrobial peptide ISO
Inferred from Sequence Orthology
more info
 
cAMP-mediated signaling ISO
Inferred from Sequence Orthology
more info
 
cAMP-mediated signaling ISS
Inferred from Sequence or Structural Similarity
more info
 
calcium-mediated signaling using intracellular calcium source ISO
Inferred from Sequence Orthology
more info
 
calcium-mediated signaling using intracellular calcium source ISS
Inferred from Sequence or Structural Similarity
more info
 
defense response to Gram-negative bacterium ISO
Inferred from Sequence Orthology
more info
 
defense response to Gram-negative bacterium ISS
Inferred from Sequence or Structural Similarity
more info
 
defense response to Gram-positive bacterium ISO
Inferred from Sequence Orthology
more info
 
defense response to Gram-positive bacterium ISS
Inferred from Sequence or Structural Similarity
more info
 
defense response to bacterium ISO
Inferred from Sequence Orthology
more info
 
innate immune response IEA
Inferred from Electronic Annotation
more info
 
innate immune response ISO
Inferred from Sequence Orthology
more info
 
innate immune response in mucosa ISO
Inferred from Sequence Orthology
more info
 
killing of cells of other organism ISO
Inferred from Sequence Orthology
more info
 
positive regulation of flagellated sperm motility involved in capacitation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of flagellated sperm motility involved in capacitation ISS
Inferred from Sequence or Structural Similarity
more info
 
response to bacterium ISO
Inferred from Sequence Orthology
more info
 
response to testosterone IEP
Inferred from Expression Pattern
more info
PubMed 
Component Evidence Code Pubs
extracellular space ISO
Inferred from Sequence Orthology
more info
 
extrinsic component of membrane ISO
Inferred from Sequence Orthology
more info
 
extrinsic component of membrane ISS
Inferred from Sequence or Structural Similarity
more info
 
microvesicle ISO
Inferred from Sequence Orthology
more info
 
microvesicle ISS
Inferred from Sequence or Structural Similarity
more info
 
sperm midpiece ISO
Inferred from Sequence Orthology
more info
 
sperm midpiece ISS
Inferred from Sequence or Structural Similarity
more info
 

General protein information

Preferred Names
beta-defensin 1
Names
BD-1
rBD-1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_031810.1NP_113998.1  beta-defensin 1 precursor

    See identical proteins and their annotated locations for NP_113998.1

    Status: PROVISIONAL

    Source sequence(s)
    AF093536
    UniProtKB/Swiss-Prot
    O89117
    Related
    ENSRNOP00000018428.2, ENSRNOT00000018427.4
    Conserved Domains (1) summary
    pfam00711
    Location:3568
    Defensin_beta; Beta defensin

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005115.4 Reference Rnor_6.0 Primary Assembly

    Range
    75294385..75309127 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. AC_000084.1 Alternate Rn_Celera

    Range
    68171373..68186246 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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