Nalf1 (NALCN channel auxiliary factor 1) - Rat Genome Database

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Gene: Nalf1 (NALCN channel auxiliary factor 1) Rattus norvegicus
Analyze
Symbol: Nalf1
Name: NALCN channel auxiliary factor 1
RGD ID: 1559498
Description: Predicted to be located in plasma membrane. Orthologous to human NALF1 (NALCN channel auxiliary factor 1); INTERACTS WITH 6-propyl-2-thiouracil; amitrole; atrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Fam155a; family with sequence similarity 155, member A; LOC103694014; LOC498667; RGD1559498; similar to expressed sequence AW121567; Tmem28; transmembrane protein 28; transmembrane protein FAM155A; transmembrane protein FAM155A-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81686,415,540 - 86,938,150 (+)NCBIGRCr8
mRatBN7.21679,713,577 - 80,236,295 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1679,713,724 - 80,235,120 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1684,993,958 - 85,516,527 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01688,446,594 - 88,969,153 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01683,690,061 - 84,212,353 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01685,528,126 - 86,053,447 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01684,966,856 - 85,487,855 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41685,100,812 - 85,106,968 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1677,498,065 - 78,017,222 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Nalf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81686,415,540 - 86,938,150 (+)NCBIGRCr8
mRatBN7.21679,713,577 - 80,236,295 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1679,713,724 - 80,235,120 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1684,993,958 - 85,516,527 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01688,446,594 - 88,969,153 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01683,690,061 - 84,212,353 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01685,528,126 - 86,053,447 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01684,966,856 - 85,487,855 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41685,100,812 - 85,106,968 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1677,498,065 - 78,017,222 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
NALF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3813107,163,510 - 107,867,496 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl13107,163,510 - 107,867,496 (-)EnsemblGRCh38hg38GRCh38
GRCh3713107,815,858 - 108,519,844 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3613106,618,880 - 107,317,084 (-)NCBINCBI36Build 36hg18NCBI36
Celera1388,665,078 - 89,363,877 (-)NCBICelera
Cytogenetic Map13q33.3NCBI
HuRef1388,412,090 - 89,109,979 (-)NCBIHuRef
CHM1_113107,789,293 - 108,488,213 (-)NCBICHM1_1
T2T-CHM13v2.013106,389,828 - 107,093,540 (-)NCBIT2T-CHM13v2.0
Nalf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3989,256,006 - 9,823,329 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl89,255,902 - 9,821,161 (-)EnsemblGRCm39 Ensembl
GRCm3889,206,006 - 9,773,329 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl89,205,902 - 9,771,161 (-)EnsemblGRCm38mm10GRCm38
MGSCv3789,206,010 - 9,771,023 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3689,205,982 - 9,770,995 (-)NCBIMGSCv36mm8
Celera89,378,395 - 9,946,389 (-)NCBICelera
Cytogenetic Map8A1.1NCBI
cM Map83.9NCBI
Nalf1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554043,861,460 - 4,441,184 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554043,860,933 - 4,443,068 (+)NCBIChiLan1.0ChiLan1.0
NALF1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v214108,493,364 - 109,353,492 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan113107,338,572 - 108,034,078 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01388,136,013 - 88,995,995 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.113107,441,496 - 108,134,034 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl13107,443,343 - 108,133,895 (-)Ensemblpanpan1.1panPan2
NALF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12256,134,925 - 56,757,072 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2256,134,878 - 56,756,612 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2255,904,012 - 56,529,559 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02256,651,717 - 57,277,138 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2256,651,050 - 57,277,119 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12256,251,687 - 56,877,517 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02256,238,481 - 56,863,749 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02256,277,267 - 56,903,858 (-)NCBIUU_Cfam_GSD_1.0
Nalf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945191,328,315 - 191,876,216 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364724,076,633 - 4,621,946 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364724,075,926 - 4,623,726 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NALF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1174,743,587 - 75,344,229 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11174,742,319 - 75,344,699 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21182,188,591 - 82,230,906 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NALF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1385,572,404 - 86,263,309 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366604642,143,803 - 42,916,490 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nalf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247933,964,654 - 4,540,949 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247933,964,136 - 4,542,192 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Nalf1
3673 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:22
Count of miRNA genes:21
Interacting mature miRNAs:21
Transcripts:ENSRNOT00000057354
Prediction methods:Miranda, Rnahybrid
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
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163528887080288870Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165272646484729064Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165272646484729064Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165272646484729064Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165571108783402471Rat

Markers in Region
D16Ulb3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21679,862,313 - 79,862,493 (+)MAPPERmRatBN7.2
Rnor_6.01685,679,031 - 85,679,210NCBIRnor6.0
Rnor_5.01685,114,266 - 85,114,445UniSTSRnor5.0
RGSC_v3.41685,249,670 - 85,249,849UniSTSRGSC3.4
Celera1677,647,142 - 77,647,321UniSTS
Cytogenetic Map16q12.5UniSTS
BE102083  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21679,730,132 - 79,730,306 (+)MAPPERmRatBN7.2
Rnor_6.01685,544,384 - 85,544,557NCBIRnor6.0
Rnor_5.01684,982,592 - 84,982,765UniSTSRnor5.0
RGSC_v3.41685,117,797 - 85,117,970UniSTSRGSC3.4
Celera1677,514,596 - 77,514,769UniSTS
RH 3.4 Map16769.4UniSTS
Cytogenetic Map16q12.5UniSTS
BF387963  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21679,947,516 - 79,947,678 (+)MAPPERmRatBN7.2
Rnor_6.01685,764,345 - 85,764,506NCBIRnor6.0
Rnor_5.01685,199,110 - 85,199,271UniSTSRnor5.0
RGSC_v3.41685,350,504 - 85,350,665UniSTSRGSC3.4
Celera1677,731,031 - 77,731,192UniSTS
RH 3.4 Map16774.7UniSTS
Cytogenetic Map16q12.5UniSTS
BF400915  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21679,868,503 - 79,868,741 (+)MAPPERmRatBN7.2
Rnor_6.01685,685,221 - 85,685,458NCBIRnor6.0
Rnor_5.01685,120,456 - 85,120,693UniSTSRnor5.0
RGSC_v3.41685,255,860 - 85,256,097UniSTSRGSC3.4
Celera1677,653,332 - 77,653,569UniSTS
RH 3.4 Map16772.3UniSTS
Cytogenetic Map16q12.5UniSTS
BE119293  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21680,058,883 - 80,059,079 (+)MAPPERmRatBN7.2
Rnor_6.01685,875,416 - 85,875,611NCBIRnor6.0
Rnor_5.01685,309,921 - 85,310,116UniSTSRnor5.0
RGSC_v3.41685,462,466 - 85,462,661UniSTSRGSC3.4
Celera1677,841,163 - 77,841,358UniSTS
RH 3.4 Map16773.9UniSTS
Cytogenetic Map16q12.5UniSTS
D13S619  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21679,713,880 - 79,714,096 (+)MAPPERmRatBN7.2
Rnor_6.01685,528,449 - 85,528,664NCBIRnor6.0
Rnor_5.01684,967,171 - 84,967,386UniSTSRnor5.0
RGSC_v3.41685,101,023 - 85,101,238UniSTSRGSC3.4
Celera1677,498,802 - 77,499,017UniSTS
Cytogenetic Map16q12.5UniSTS


Expression


Sequence


RefSeq Acc Id: ENSRNOT00000109798   ⟹   ENSRNOP00000083842
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1679,713,724 - 80,235,120 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000115375   ⟹   ENSRNOP00000084738
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1679,713,724 - 80,235,120 (+)Ensembl
RefSeq Acc Id: NM_001402488   ⟹   NP_001389417
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81686,415,540 - 86,938,150 (+)NCBI
mRatBN7.21679,713,577 - 80,236,295 (+)NCBI
RefSeq Acc Id: NM_001402489   ⟹   NP_001389418
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81686,415,540 - 86,938,150 (+)NCBI
mRatBN7.21679,713,577 - 80,236,295 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001389417 (Get FASTA)   NCBI Sequence Viewer  
  NP_001389418 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM08797 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000083842
  ENSRNOP00000083842.1
  ENSRNOP00000084738
  ENSRNOP00000084738.1
RefSeq Acc Id: ENSRNOP00000084738   ⟸   ENSRNOT00000115375
RefSeq Acc Id: ENSRNOP00000083842   ⟸   ENSRNOT00000109798
RefSeq Acc Id: NP_001389418   ⟸   NM_001402489
- Peptide Label: isoform 2
- UniProtKB: A0A8I5ZZY6 (UniProtKB/TrEMBL),   A6IWS4 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001389417   ⟸   NM_001402488
- Peptide Label: isoform 1
- UniProtKB: A0A8I5ZWL6 (UniProtKB/TrEMBL)

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1559498 AgrOrtholog
BioCyc Gene G2FUF-10610 BioCyc
Ensembl Genes ENSRNOG00000066120 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000109798 ENTREZGENE
  ENSRNOT00000109798.1 UniProtKB/TrEMBL
  ENSRNOT00000115375 ENTREZGENE
  ENSRNOT00000115375.1 UniProtKB/TrEMBL
KEGG Report rno:498667 UniProtKB/TrEMBL
NCBI Gene 498667 ENTREZGENE
PANTHER PTHR15819:SF9 UniProtKB/TrEMBL
  TRANSMEMBRANE PROTEIN FAM155 UniProtKB/TrEMBL
PhenoGen Nalf1 PhenoGen
RatGTEx ENSRNOG00000066120 RatGTEx
Superfamily-SCOP beta-sandwich domain of Sec23/24 UniProtKB/TrEMBL
UniProt A0A8I5ZWL6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I5ZZY6 ENTREZGENE, UniProtKB/TrEMBL
  A6IWS4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Nalf1  NALCN channel auxiliary factor 1  Fam155a  family with sequence similarity 155, member A  Data merged from RGD:149736375 737654 PROVISIONAL
2021-08-09 Fam155a  family with sequence similarity 155, member A      Symbol and Name status set to provisional 45752 PROVISIONAL
2021-04-29 Nalf1  NALCN channel auxiliary factor 1  Fam155a  family with sequence similarity 155, member A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2021-03-09 Fam155a  family with sequence similarity 155, member A  LOC103694014  transmembrane protein FAM155A-like  Data merged from RGD:9431515 737654 PROVISIONAL
2014-08-25 LOC103694014  transmembrane protein FAM155A-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-09-25 Fam155a  family with sequence similarity 155, member A  Tmem28  transmembrane protein 28  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-06 Tmem28  transmembrane protein 28  RGD1559498_predicted  similar to expressed sequence AW121567 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1559498_predicted  similar to expressed sequence AW121567 (predicted)  LOC498667  similar to expressed sequence AW121567  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498667  similar to expressed sequence AW121567      Symbol and Name status set to provisional 70820 PROVISIONAL