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

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Gene: Lrrc14b (leucine rich repeat containing 14B) Rattus norvegicus
Analyze
Symbol: Lrrc14b
Name: leucine rich repeat containing 14B
RGD ID: 1564978
Description: Predicted to be active in cytoplasm. Orthologous to human LRRC14B (leucine rich repeat containing 14B); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acrylamide; bisphenol A.
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
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8130,748,103 - 30,754,236 (+)NCBIGRCr8
mRatBN7.2128,921,475 - 28,925,646 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl128,921,416 - 28,925,378 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx128,722,629 - 28,726,801 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0134,722,483 - 34,726,655 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0128,923,251 - 28,927,423 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0131,531,143 - 31,535,314 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl131,531,143 - 31,535,314 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0132,957,291 - 32,961,462 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4129,724,871 - 29,729,042 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera127,573,322 - 27,577,493 (+)NCBICelera
Cytogenetic Map1p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Cellular Component
cytoplasm  (IBA)

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 (+)NCBIGRCr8
mRatBN7.2128,921,475 - 28,925,646 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl128,921,416 - 28,925,378 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx128,722,629 - 28,726,801 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0134,722,483 - 34,726,655 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0128,923,251 - 28,927,423 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0131,531,143 - 31,535,314 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl131,531,143 - 31,535,314 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0132,957,291 - 32,961,462 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4129,724,871 - 29,729,042 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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 (+)EnsemblGRCh38hg38GRCh38
GRCh375191,610 - 196,449 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365244,626 - 248,468 (+)NCBINCBI36Build 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 Ensembl
GRCm381374,359,582 - 74,364,000 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1374,359,578 - 74,364,005 (-)EnsemblGRCm38mm10GRCm38
MGSCv371374,497,030 - 74,501,448 (-)NCBIGRCm37MGSCv37mm9NCBIm37
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 (+)EnsemblChiLan1.0
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 (+)Ensemblpanpan1.1panPan2
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 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3416,491,590 - 16,504,184 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03411,883,384 - 11,892,615 (-)NCBIROS_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_1.0
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 (-)EnsemblSpeTri2.0SpeTri2.0 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 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475129,373 - 32,944 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Lrrc14b
17 total Variants
miRNA Target Status

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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2313053Bss51Bone structure and strength QTL 513.80.0001tibia length (VT:0004357)tibia length (CMO:0000450)1132356093Rat
2313070Bss52Bone structure and strength QTL 524.40.0001body length (VT:0001256)body length (CMO:0000013)1132356093Rat
2313090Bmd69Bone mineral density QTL 694.40.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)1132356093Rat
738020Pia8Pristane induced arthritis QTL 84.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1165833076Rat
1578650Bmd6Bone mineral density QTL 612.2femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)150910843284926Rat
1578651Bmd7Bone mineral density QTL 714.2femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)150910843284926Rat
1578669Bss9Bone structure and strength QTL 96.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)150910843284926Rat
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat
1600360Mcs16Mammary carcinoma susceptibility QTL 162.4mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)1224439043433040Rat
7421626Bp360Blood pressure QTL 3600.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1439328949393289Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
631508Sald1Serum aldosterone level QTL 13.7blood aldosterone amount (VT:0005346)serum aldosterone level (CMO:0000487)1985600154856001Rat
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)11099206555992065Rat
1300167Hrtrt2Heart rate QTL 24.35heart pumping trait (VT:2000009)heart rate (CMO:0000002)11148131275088344Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)11148131282174945Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11148131282174945Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11148131282174945Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11148131282174945Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2317755Glom22Glomerulus QTL 223.8urine protein amount (VT:0005160)urine protein level (CMO:0000591)11148148232355910Rat
1578756Iddm22Insulin dependent diabetes mellitus QTL 222.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)11183518156835181Rat
5684998Bss101Bone structure and strength QTL 1013.6tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)11543162149361612Rat
5684999Bss102Bone structure and strength QTL 1025.50.00000072tibia strength trait (VT:1000284)tibia stiffness (CMO:0001735)11543162149361612Rat
631494Bp95Blood pressure QTL 95400.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)11620621049268520Rat
634353Rends2Renal damage susceptibility QTL 20.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)11933357156983283Rat
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)12076315844095856Rat
724520Bp145Blood pressure QTL 1452.10.0024arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12078482865784828Rat
1357397Bw41Body weight QTL 414.190.0001body mass (VT:0001259)body weight (CMO:0000012)12234064749361612Rat
1357401Bw43Body weight QTL 433.75body mass (VT:0001259)body weight (CMO:0000012)12234064749361612Rat
1357400Bw62Body weight QTL624.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)12234064767340647Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)122340647102268831Rat
1331785Rf27Renal function QTL 274.643urine sodium amount (VT:0006274)urine sodium level (CMO:0000129)12887978078430678Rat

Markers in Region
RH133522  
Rat AssemblyChrPosition (strand)SourceJBrowse
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
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 23 8 11 8
Low 3 20 25 9 19 9 11 11 11 11
Below cutoff 4 4 4 36 11

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000034704   ⟹   ENSRNOP00000032819
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
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
  ENSRNOP00000032819.4
Reference Protein Sequences
RefSeq Acc Id: NP_001102803   ⟸   NM_001109333
- UniProtKB: D3ZJ80 (UniProtKB/TrEMBL),   A6JUU3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq 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
  ENSRNOT00000034704.7 UniProtKB/TrEMBL
Gene3D-CATH 3.80.10.10 UniProtKB/TrEMBL
InterPro L_dom-like 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