Lrrc14b (leucine rich repeat containing 14B) - Rat Genome Database

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Gene: Lrrc14b (leucine rich repeat containing 14B) Rattus norvegicus
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Symbol: Lrrc14b
Name: leucine rich repeat containing 14B
RGD ID: 1564978
Description: Orthologous to human LRRC14B (leucine rich repeat containing 14B); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acrylamide; alpha-Zearalanol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC502225; leucine-rich repeat-containing protein 14-like; leucine-rich repeat-containing protein 14B; LOC502225; RGD1564978; similar to LOC432779 protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8130,748,103 - 30,754,236 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl130,749,746 - 30,755,258 (+)EnsemblGRCr8
mRatBN7.2128,921,475 - 28,925,646 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl128,921,416 - 28,925,378 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx128,722,629 - 28,726,801 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0134,722,483 - 34,726,655 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0128,923,251 - 28,927,423 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0131,531,143 - 31,535,314 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl131,531,143 - 31,535,314 (+)Ensemblrn6Rnor6.0
Rnor_5.0132,957,291 - 32,961,462 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4129,724,871 - 29,729,042 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera127,573,322 - 27,577,493 (+)NCBICelera
Cytogenetic Map1p11NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Lrrc14b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8130,748,103 - 30,754,236 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl130,749,746 - 30,755,258 (+)EnsemblGRCr8
mRatBN7.2128,921,475 - 28,925,646 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl128,921,416 - 28,925,378 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx128,722,629 - 28,726,801 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0134,722,483 - 34,726,655 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0128,923,251 - 28,927,423 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0131,531,143 - 31,535,314 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl131,531,143 - 31,535,314 (+)Ensemblrn6Rnor6.0
Rnor_5.0132,957,291 - 32,961,462 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4129,724,871 - 29,729,042 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera127,573,322 - 27,577,493 (+)NCBICelera
Cytogenetic Map1p11NCBI
LRRC14B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385191,495 - 196,334 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5191,495 - 196,334 (+)Ensemblhg38GRCh38
GRCh375191,610 - 196,449 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365244,626 - 248,468 (+)NCBIBuild 36Build 36hg18NCBI36
Celera5291,236 - 295,074 (+)NCBICelera
Cytogenetic Map5p15.33NCBI
HuRef5181,453 - 185,345 (+)NCBIHuRef
CHM1_15190,313 - 194,155 (+)NCBICHM1_1
T2T-CHM13v2.05182,851 - 187,790 (+)NCBIT2T-CHM13v2.0
Lrrc14b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391374,507,701 - 74,512,119 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1374,507,697 - 74,512,124 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381374,359,582 - 74,364,000 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1374,359,578 - 74,364,005 (-)Ensemblmm10GRCm38
MGSCv371374,497,030 - 74,501,448 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361374,825,584 - 74,830,002 (-)NCBIMGSCv36mm8
Celera1376,689,799 - 76,694,218 (-)NCBICelera
Cytogenetic Map13C1NCBI
cM Map1340.22NCBI
Lrrc14b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555049,014 - 13,759 (+)Ensembl
ChiLan1.0NW_0049555049,559 - 13,238 (+)NCBIChiLan1.0ChiLan1.0
LRRC14B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24411,315 - 416,117 (+)NCBINHGRI_mPanPan1-v2
PanPan1.1 Ensembl5332,054 - 336,881 (+)EnsemblpanPan2panpan1.1
LRRC14B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13411,978,345 - 11,990,951 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3411,982,394 - 11,985,329 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha3416,491,590 - 16,504,184 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03411,883,384 - 11,892,615 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3411,880,018 - 11,889,469 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13411,932,470 - 11,945,070 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03411,918,990 - 11,931,580 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03412,121,098 - 12,133,708 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Lrrc14b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213245,024,531 - 245,028,411 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049368151,185,409 - 1,189,669 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049368151,185,648 - 1,189,661 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LRRC14B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1679,877,256 - 79,882,960 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11679,877,618 - 79,883,027 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
LRRC14B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.14132,428 - 148,965 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl4133,339 - 143,458 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236669721,249 - 6,652 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Lrrc14b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475129,324 - 33,001 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462475129,373 - 32,944 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Lrrc14b
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v12203,788,277 - 203,792,236 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Lrrc14b
67 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:104
Count of miRNA genes:88
Interacting mature miRNAs:101
Transcripts:ENSRNOT00000034704
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1774611852746118Rat
1357397Bw41Body weight QTL 414.190.0001body mass (VT:0001259)body weight (CMO:0000012)12940927974409279Rat
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)1529322934184556Rat
4889451Eae29Experimental allergic encephalomyelitis QTL 295.51nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)1774612152746121Rat
70179Xhs2X-ray hypersensitivity QTL 23.2intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)1143965634Rat
1558642Prcr2Prostate cancer resistance QTL 24.3prostate integrity trait (VT:0010571)area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)11037949255379492Rat
7421626Bp360Blood pressure QTL 3600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1694102251941022Rat
1357401Bw43Body weight QTL 433.75body mass (VT:0001259)body weight (CMO:0000012)1690935351909353Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1529322934184556Rat
631494Bp95Blood pressure QTL 95400.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)11731537851816258Rat
5684998Bss101Bone structure and strength QTL 1013.6tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)1690935351909353Rat
5684999Bss102Bone structure and strength QTL 1025.57e-07tibia strength trait (VT:1000284)tibia stiffness (CMO:0001735)1690935351909353Rat
2302038Pia31Pristane induced arthritis QTL 315.50.001blood autoantibody amount (VT:0003725)serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)11282049457820494Rat
634353Rends2Renal damage susceptibility QTL 20.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)12065642065656420Rat
2317755Glom22Glomerulus QTL 223.8urine protein amount (VT:0005160)urine protein level (CMO:0000591)1134184556Rat
1578756Iddm22Insulin dependent diabetes mellitus QTL 222.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)12050832665508326Rat
1331785Rf27Renal function QTL 274.643urine sodium amount (VT:0006274)urine sodium level (CMO:0000129)13070837587558729Rat
631508Sald1Serum aldosterone level QTL 13.7blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)11168446456684464Rat
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1529322934184556Rat

Markers in Region
RH133522  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8130,754,130 - 30,754,327 (+)Marker Load Pipeline
mRatBN7.2128,925,540 - 28,925,737 (+)MAPPERmRatBN7.2
Rnor_6.0131,535,209 - 31,535,405NCBIRnor6.0
Rnor_5.0132,961,357 - 32,961,553UniSTSRnor5.0
RGSC_v3.4129,728,937 - 29,729,133UniSTSRGSC3.4
Celera127,577,388 - 27,577,584UniSTS
Cytogenetic Map1p11UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 66 132 56 55 24 86 24 6 283 185 11 111 50 72 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000034704   ⟹   ENSRNOP00000032819
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl130,749,746 - 30,755,258 (+)Ensembl
mRatBN7.2 Ensembl128,921,416 - 28,925,378 (+)Ensembl
Rnor_6.0 Ensembl131,531,143 - 31,535,314 (+)Ensembl
RefSeq Acc Id: NM_001109333   ⟹   NP_001102803
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8130,750,065 - 30,754,236 (+)NCBI
mRatBN7.2128,921,475 - 28,925,646 (+)NCBI
Rnor_6.0131,531,143 - 31,535,314 (+)NCBI
Rnor_5.0132,957,291 - 32,961,462 (+)NCBI
RGSC_v3.4129,724,871 - 29,729,042 (+)RGD
Celera127,573,322 - 27,577,493 (+)RGD
Sequence:
RefSeq Acc Id: XM_063271819   ⟹   XP_063127889
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8130,748,103 - 30,753,977 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001102803 (Get FASTA)   NCBI Sequence Viewer  
  XP_063127889 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL87686 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000032819
  ENSRNOP00000032819.5
RefSeq Acc Id: NP_001102803   ⟸   NM_001109333
- UniProtKB: D3ZJ80 (UniProtKB/TrEMBL),   A6JUU3 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000032819   ⟸   ENSRNOT00000034704
RefSeq Acc Id: XP_063127889   ⟸   XM_063271819
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZJ80-F1-model_v2 AlphaFold D3ZJ80 1-510 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13689552
Promoter ID:EPDNEW_R77
Type:single initiation site
Name:Lrrc14b_1
Description:leucine rich repeat containing 14B
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0131,531,092 - 31,531,152EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564978 AgrOrtholog
BioCyc Gene G2FUF-61948 BioCyc
Ensembl Genes ENSRNOG00000028357 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000034704 ENTREZGENE
  ENSRNOT00000034704.8 UniProtKB/TrEMBL
Gene3D-CATH 3.80.10.10 UniProtKB/TrEMBL
InterPro L_dom-like UniProtKB/TrEMBL
  PRAME_domain UniProtKB/TrEMBL
KEGG Report rno:502225 UniProtKB/TrEMBL
NCBI Gene 502225 ENTREZGENE
PANTHER LEUCINE-RICH REPEAT-CONTAINING PROTEIN 14B UniProtKB/TrEMBL
  SIMILAR TO PREFERENTIALLY EXPRESSED ANTIGEN IN MELANOMA-LIKE 3 UniProtKB/TrEMBL
PhenoGen Lrrc14b PhenoGen
RatGTEx ENSRNOG00000028357 RatGTEx
Superfamily-SCOP RNI-like UniProtKB/TrEMBL
UniProt A6JUU3 ENTREZGENE, UniProtKB/TrEMBL
  D3ZJ80 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2010-05-25 Lrrc14b  leucine rich repeat containing 14B  RGD1564978  similar to LOC432779 protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1564978  similar to LOC432779 protein   RGD1564978_predicted  similar to LOC432779 protein (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1564978_predicted  similar to LOC432779 protein (predicted)  LOC502225  similar to LOC432779 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC502225  similar to LOC432779 protein      Symbol and Name status set to provisional 70820 PROVISIONAL