Nexmif (neurite extension and migration factor) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Nexmif (neurite extension and migration factor) Rattus norvegicus
Analyze
Symbol: Nexmif
Name: neurite extension and migration factor
RGD ID: 1561931
Description: Involved in negative regulation of cell adhesion and negative regulation of neuron migration. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in non-syndromic X-linked intellectual disability 98. Orthologous to human NEXMIF (neurite extension and migration factor); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acrylamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: KIAA2022; KIDLIA; LOC302396; RGD1561931; similar to KIAA2022 protein; XLMR protein related to neurite extension; Xpn
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
GRCr8X73,153,786 - 73,284,943 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX73,153,786 - 73,178,639 (-)EnsemblGRCr8
mRatBN7.2X69,088,076 - 69,219,253 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX69,088,076 - 69,112,930 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX70,597,183 - 70,622,041 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X74,097,485 - 74,122,346 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X71,658,669 - 71,683,534 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X74,943,440 - 75,053,559 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX74,945,082 - 74,968,405 (-)Ensemblrn6Rnor6.0
Rnor_5.0X75,748,099 - 75,852,569 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X92,073,589 - 92,081,623 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX70,444,945 - 70,469,768 (-)NCBICelera
Cytogenetic MapXq22NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
cytoplasm  (IEA)
nucleoplasm  (ISO)
nucleus  (IBA,IEA)

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. XLMR protein related to neurite extension (Xpn/KIAA2022) regulates cell-cell and cell-matrix adhesion and migration. Magome T, etal., Neurochem Int. 2013 Nov;63(6):561-9. doi: 10.1016/j.neuint.2013.09.011. Epub 2013 Sep 24.
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. GOA pipeline RGD automated data pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:8889548   PMID:23615299   PMID:27822498  


Genomics

Comparative Map Data
Nexmif
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X73,153,786 - 73,284,943 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX73,153,786 - 73,178,639 (-)EnsemblGRCr8
mRatBN7.2X69,088,076 - 69,219,253 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX69,088,076 - 69,112,930 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX70,597,183 - 70,622,041 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X74,097,485 - 74,122,346 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X71,658,669 - 71,683,534 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X74,943,440 - 75,053,559 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX74,945,082 - 74,968,405 (-)Ensemblrn6Rnor6.0
Rnor_5.0X75,748,099 - 75,852,569 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X92,073,589 - 92,081,623 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX70,444,945 - 70,469,768 (-)NCBICelera
Cytogenetic MapXq22NCBI
NEXMIF
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X74,732,856 - 74,925,452 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX74,732,856 - 74,925,472 (-)Ensemblhg38GRCh38
GRCh37X73,952,691 - 74,145,287 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X73,870,137 - 74,061,709 (-)NCBIBuild 36Build 36hg18NCBI36
CeleraX74,236,153 - 74,428,748 (-)NCBICelera
Cytogenetic MapXq13.3NCBI
HuRefX67,587,986 - 67,778,886 (-)NCBIHuRef
CHM1_1X73,845,555 - 74,038,181 (-)NCBICHM1_1
T2T-CHM13v2.0X73,166,463 - 73,359,096 (-)NCBIT2T-CHM13v2.0
Nexmif
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X103,120,367 - 103,245,403 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX103,121,040 - 103,244,791 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38X104,076,761 - 104,201,783 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX104,077,434 - 104,201,185 (-)Ensemblmm10GRCm38
MGSCv37X101,272,774 - 101,396,456 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36X100,285,909 - 100,403,904 (-)NCBIMGSCv36mm8
CeleraX90,976,514 - 91,092,555 (-)NCBICelera
Cytogenetic MapXDNCBI
cM MapX46.48NCBI
Nexmif
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955562780,189 - 968,083 (-)Ensembl
ChiLan1.0NW_004955562780,172 - 786,049 (-)NCBIChiLan1.0ChiLan1.0
NEXMIF
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X74,415,648 - 74,608,170 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X74,419,979 - 74,611,783 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X63,985,226 - 64,177,750 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X74,107,799 - 74,292,323 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX74,107,799 - 74,114,635 (-)EnsemblpanPan2panpan1.1
NEXMIF
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X57,986,884 - 58,120,453 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX57,992,476 - 58,013,478 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_TashaX49,165,913 - 49,299,478 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0X59,225,238 - 59,358,844 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX59,230,777 - 59,358,928 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X56,945,135 - 57,078,689 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X58,524,242 - 58,664,141 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X58,131,656 - 58,265,221 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Nexmif
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X43,790,406 - 43,907,835 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366831,042,288 - 1,157,377 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366831,041,739 - 1,157,382 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NEXMIF
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX59,972,373 - 60,120,021 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1X59,967,712 - 60,013,938 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X68,178,778 - 68,329,023 (-)NCBISscrofa10.2Sscrofa10.2susScr3
NEXMIF
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X64,332,957 - 64,530,082 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX64,334,196 - 64,340,549 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366606717,196,621 - 17,395,597 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nexmif
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248366,067,156 - 6,073,035 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248365,907,848 - 6,075,518 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Nexmif
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1X66,637,998 - 66,774,791 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Nexmif
473 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:16
Count of miRNA genes:14
Interacting mature miRNAs:16
Transcripts:ENSRNOT00000035653
Prediction methods:Miranda, Pita, 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
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX45182909117740458Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X4493088389930883Rat

Markers in Region
RH36660  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X69,088,791 - 69,088,866 (+)MAPPERmRatBN7.2
Rnor_6.0X74,944,156 - 74,944,230NCBIRnor6.0
Rnor_5.0X75,746,740 - 75,746,814UniSTSRnor5.0
RGSC_v3.4X92,070,106 - 92,070,180UniSTSRGSC3.4
CeleraX70,445,661 - 70,445,735UniSTS
Cytogenetic MapXq31UniSTS
C77370  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X69,099,540 - 69,100,267 (+)MAPPERmRatBN7.2
Rnor_6.0X74,954,905 - 74,955,631NCBIRnor6.0
Rnor_5.0X75,757,489 - 75,758,215UniSTSRnor5.0
RGSC_v3.4X92,080,855 - 92,081,581UniSTSRGSC3.4
CeleraX70,456,380 - 70,457,106UniSTS
Cytogenetic MapXq31UniSTS


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
15 11 66 147 69 68 37 33 37 6 270 130 10 127 80 92 31 13 13

Sequence


Ensembl Acc Id: ENSRNOT00000035653   ⟹   ENSRNOP00000036176
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX73,153,786 - 73,178,639 (-)Ensembl
mRatBN7.2 EnsemblX69,088,076 - 69,112,930 (-)Ensembl
Rnor_6.0 EnsemblX74,945,082 - 74,968,405 (-)Ensembl
RefSeq Acc Id: NM_001313815   ⟹   NP_001300744
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X73,153,786 - 73,178,639 (-)NCBI
mRatBN7.2X69,088,076 - 69,112,930 (-)NCBI
Rnor_6.0X74,943,440 - 74,968,405 (-)NCBI
CeleraX70,444,945 - 70,469,768 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039099590   ⟹   XP_038955518
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X73,153,786 - 73,284,943 (-)NCBI
mRatBN7.2X69,088,076 - 69,219,253 (-)NCBI
RefSeq Acc Id: XM_039099591   ⟹   XP_038955519
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X73,153,786 - 73,284,943 (-)NCBI
mRatBN7.2X69,088,076 - 69,219,253 (-)NCBI
RefSeq Acc Id: XM_039099592   ⟹   XP_038955520
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X73,153,786 - 73,284,943 (-)NCBI
mRatBN7.2X69,088,076 - 69,219,253 (-)NCBI
RefSeq Acc Id: NP_001300744   ⟸   NM_001313815
- UniProtKB: D3ZGX1 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSRNOP00000036176   ⟸   ENSRNOT00000035653
RefSeq Acc Id: XP_038955520   ⟸   XM_039099592
- Peptide Label: isoform X1
- UniProtKB: D3ZGX1 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038955518   ⟸   XM_039099590
- Peptide Label: isoform X1
- UniProtKB: D3ZGX1 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038955519   ⟸   XM_039099591
- Peptide Label: isoform X1
- UniProtKB: D3ZGX1 (UniProtKB/Swiss-Prot)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZGX1-F1-model_v2 AlphaFold D3ZGX1 1-1517 view protein structure

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:1561931 AgrOrtholog
BioCyc Gene G2FUF-1993 BioCyc
Ensembl Genes ENSRNOG00000021589 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000035653 ENTREZGENE
  ENSRNOT00000035653.7 UniProtKB/Swiss-Prot
InterPro DUF4683 UniProtKB/Swiss-Prot
  Nexmif UniProtKB/Swiss-Prot
KEGG Report rno:302396 UniProtKB/Swiss-Prot
NCBI Gene 302396 ENTREZGENE
PANTHER NEURITE EXTENSION AND MIGRATION FACTOR UniProtKB/Swiss-Prot
  PTHR46946 UniProtKB/Swiss-Prot
Pfam DUF4683 UniProtKB/Swiss-Prot
PhenoGen Nexmif PhenoGen
RatGTEx ENSRNOG00000021589 RatGTEx
UniProt D3ZGX1 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-06-20 Nexmif  neurite extension and migration factor  RGD1561931  similar to KIAA2022 protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1561931  similar to KIAA2022 protein   RGD1561931_predicted  similar to KIAA2022 protein (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1561931_predicted  similar to KIAA2022 protein (predicted)  LOC302396  similar to KIAA2022 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC302396  similar to KIAA2022 protein      Symbol and Name status set to provisional 70820 PROVISIONAL