Lcn6 (lipocalin 6) - Rat Genome Database

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Gene: Lcn6 (lipocalin 6) Heterocephalus glaber
Analyze
Symbol: Lcn6
Name: lipocalin 6
RGD ID: 18927139
Description: ENCODES a protein that exhibits small molecule binding (inferred); INVOLVED IN acrosome reaction (ortholog); calcium ion homeostasis (ortholog); cell maturation (ortholog); ASSOCIATED WITH Adams-Oliver Syndrome 5 (ortholog); autosomal dominant intellectual developmental disorder 8 (ortholog); autosomal dominant nocturnal frontal lobe epilepsy 5 (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: epididymal-specific lipocalin-6
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247601,066,532 - 1,070,083 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


1 to 11 of 11 rows
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Lcn6Naked Mole-RatAdams-Oliver Syndrome 5  ISORGD:13498158554872ClinVar Annotator: match by term: Adams-Oliver syndrome 5ClinVarPMID:16025100|PMID:19597493|PMID:19668216|PMID:21457232|PMID:22318994|PMID:23034536|PMID:23386033|PMID:25132448|PMID:25516202|PMID:25963545|PMID:26820064|PMID:28125082|PMID:28492532
Lcn6Naked Mole-Ratautosomal dominant intellectual developmental disorder 8  ISORGD:13498158554872ClinVar Annotator: match by term: Neurodevelopmental disorder with or without hyperkinetic movements and seizures, autosomal more ...ClinVarPMID:28492532
Lcn6Naked Mole-Ratautosomal dominant nocturnal frontal lobe epilepsy 5  ISORGD:13498158554872ClinVar Annotator: match by term: Autosomal dominant nocturnal frontal lobe epilepsy 5ClinVarPMID:28492532
Lcn6Naked Mole-Ratdevelopmental and epileptic encephalopathy 14  ISORGD:13498158554872ClinVar Annotator: match by term: Developmental and epileptic encephalopathy, 14 | ClinVar Annotator: match by more ...ClinVarPMID:19264732|PMID:27891178|PMID:28492532
Lcn6Naked Mole-Ratdevelopmental and epileptic encephalopathy 14  ISORGD:13498158554872ClinVar Annotator: match by term: Developmental and epileptic encephalopathy, 14 | ClinVar Annotator: match by more ...ClinVarPMID:16025100|PMID:19264732|PMID:19597493|PMID:19668216|PMID:21457232|PMID:22318994|PMID:23034536|PMID:23386033|PMID:25132448|PMID:25516202|PMID:25963545|PMID:26820064|PMID:27891178|PMID:28125082|PMID:28492532
Lcn6Naked Mole-RatJoubert syndrome 1  ISORGD:13498158554872ClinVar Annotator: match by term: Familial aplasia of the vermisClinVarPMID:16025100|PMID:19597493|PMID:19668216|PMID:21457232|PMID:22318994|PMID:23034536|PMID:23386033|PMID:25132448|PMID:25516202|PMID:25963545|PMID:26820064|PMID:28125082|PMID:28492532
Lcn6Naked Mole-RatKleefstra syndrome 1  ISORGD:13498158554872ClinVar Annotator: match by term: Kleefstra syndrome 1ClinVarPMID:19264732|PMID:22318994|PMID:22890305|PMID:25741868|PMID:27891178|PMID:28492532|PMID:31209758
Lcn6Naked Mole-RatLeigh disease  ISORGD:13498158554872ClinVar Annotator: match by term: Leigh syndromeClinVarPMID:28492532
Lcn6Naked Mole-Ratprimary coenzyme Q10 deficiency 7  ISORGD:13498158554872ClinVar Annotator: match by term: Neonatal encephalomyopathy-cardiomyopathy-respiratory distress syndromeClinVarPMID:28492532
Lcn6Naked Mole-RatRafiq syndrome  ISORGD:13498158554872ClinVar Annotator: match by term: Rafiq syndromeClinVarPMID:24566669|PMID:28492532|PMID:30982612
Lcn6Naked Mole-Rattuberous sclerosis 1  ISORGD:13498158554872ClinVar Annotator: match by term: Tuberous sclerosis 1ClinVarPMID:28492532
1 to 11 of 11 rows


Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Lcn6Naked Mole-Ratacrosome reaction acts_upstream_of_or_withinISORGD:16115079068941 PMID:29045572MGIPMID:29045572
Lcn6Naked Mole-Ratcalcium ion homeostasis acts_upstream_of_or_withinISORGD:16115079068941 PMID:29045572MGIPMID:29045572
Lcn6Naked Mole-Ratcell maturation acts_upstream_of_or_withinISORGD:16115079068941 PMID:29045572MGIPMID:29045572
Lcn6Naked Mole-Ratcellular homeostasis acts_upstream_of_or_withinISORGD:16115079068941 PMID:29045572MGIPMID:29045572
Lcn6Naked Mole-Ratresponse to calcium ion acts_upstream_of_or_withinISORGD:16115079068941 PMID:29045572MGIPMID:29045572

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Lcn6Naked Mole-Ratsmall molecule binding enablesIEAInterPro:IPR002345150520179 InterProGO_REF:0000002

PMID:30032202  



Lcn6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247601,066,532 - 1,070,083 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
LCN6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389136,744,017 - 136,748,525 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9136,744,017 - 136,748,525 (-)EnsemblGRCh38hg38GRCh38
GRCh379139,638,469 - 139,642,977 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369138,758,290 - 138,762,801 (-)NCBINCBI36Build 36hg18NCBI36
Build 349136,914,308 - 136,918,817NCBI
Celera9110,151,587 - 110,156,098 (-)NCBICelera
Cytogenetic Map9q34.3NCBI
HuRef9109,097,648 - 109,102,120 (-)NCBIHuRef
CHM1_19139,787,050 - 139,791,503 (-)NCBICHM1_1
T2T-CHM13v2.09148,977,195 - 148,981,703 (-)NCBIT2T-CHM13v2.0
Lcn6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39225,566,650 - 25,571,620 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl225,566,798 - 25,571,620 (+)EnsemblGRCm39 Ensembl
GRCm38225,676,638 - 25,681,608 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl225,676,786 - 25,681,608 (+)EnsemblGRCm38mm10GRCm38
MGSCv37225,532,306 - 25,537,128 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36225,498,795 - 25,503,330 (+)NCBIMGSCv36mm8
Celera225,404,979 - 25,409,801 (+)NCBICelera
Cytogenetic Map2A3NCBI
cM Map217.73NCBI
Lcn6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8328,882,133 - 28,887,697 (+)NCBIGRCr8
mRatBN7.238,484,013 - 8,489,577 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl38,484,013 - 8,489,574 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx311,589,395 - 11,594,959 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0320,175,629 - 20,181,193 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0318,365,471 - 18,371,035 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.032,888,103 - 2,893,498 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl32,888,103 - 2,893,495 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.032,869,516 - 2,874,911 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.433,836,357 - 3,841,922 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.133,836,356 - 3,841,919 (+)NCBI
Celera33,308,865 - 3,314,429 (+)NCBICelera
Cytogenetic Map3p13NCBI
Lcn6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555134,860,662 - 4,863,648 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555134,860,420 - 4,863,716 (-)NCBIChiLan1.0ChiLan1.0
LCN6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1948,800,699 - 48,805,946 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha948,014,314 - 48,019,558 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0949,678,843 - 49,684,086 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl949,678,859 - 49,684,086 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1948,454,986 - 48,460,230 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0948,753,645 - 48,758,888 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0948,800,675 - 48,805,909 (+)NCBIUU_Cfam_GSD_1.0
Lcn6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947202,228,597 - 202,231,218 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366691,143,840 - 1,146,529 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366691,143,840 - 1,146,461 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LCN6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa10.21313,834,487 - 313,839,782 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LCN6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1121,446,886 - 1,451,406 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl121,447,137 - 1,451,087 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660583,819,192 - 3,823,240 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

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RefSeq Transcripts XM_021261560 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AHKG01040408 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: XM_021261560   ⟹   XP_021117219
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_0046247601,066,532 - 1,070,083 (+)NCBI
Protein RefSeqs XP_021117219 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_021117219   ⟸   XM_021261560
- UniProtKB: A0AAX6T6P9 (UniProtKB/TrEMBL)



Database
Acc Id
Source(s)
Gene3D-CATH 2.40.128.20 UniProtKB/TrEMBL
InterPro Calycin UniProtKB/TrEMBL
  Lipocalin UniProtKB/TrEMBL
NCBI Gene Lcn6 ENTREZGENE
PANTHER EPIDIDYMAL-SPECIFIC LIPOCALIN-6 UniProtKB/TrEMBL
  LIPOCALIN UniProtKB/TrEMBL
Superfamily-SCOP Lipocalins UniProtKB/TrEMBL
UniProt A0AAX6T6P9 ENTREZGENE, UniProtKB/TrEMBL