Nufip1 (nuclear FMR1 interacting protein 1) - Rat Genome Database

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Gene: Nufip1 (nuclear FMR1 interacting protein 1) Rattus norvegicus
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Symbol: Nufip1
Name: nuclear FMR1 interacting protein 1
RGD ID: 1359440
Description: Predicted to enable several functions, including ATPase binding activity; identical protein binding activity; and protein-macromolecule adaptor activity. Predicted to contribute to snoRNA binding activity. Predicted to be involved in box C/D snoRNP assembly and positive regulation of transcription by RNA polymerase II. Located in presynaptic active zone. Orthologous to human NUFIP1 (nuclear FMR1 interacting protein 1); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: FMR1-interacting protein NUFIP1; MGC95323; nuclear FMRP-interacting protein 1; nuclear fragile X mental retardation protein interacting protein 1; nuclear fragile X mental retardation-interacting protein 1; NUFIP1, FMR1 interacting protein 1
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
GRCr81557,838,864 - 57,869,597 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1557,837,608 - 57,869,594 (+)EnsemblGRCr8
mRatBN7.21551,429,518 - 51,460,308 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1551,429,549 - 51,460,310 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1555,588,438 - 55,618,547 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01556,706,754 - 56,736,867 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01553,525,162 - 53,555,991 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01558,171,163 - 58,201,888 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1558,170,967 - 58,201,970 (+)Ensemblrn6Rnor6.0
Rnor_5.01561,872,647 - 61,903,369 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41557,028,109 - 57,058,834 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1551,055,918 - 51,086,640 (+)NCBICelera
RGSC_v3.11557,043,888 - 57,074,614 (+)NCBI
Cytogenetic Map15q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. NUFIP1 (nuclear FMRP interacting protein 1) is a nucleocytoplasmic shuttling protein associated with active synaptoneurosomes. Bardoni B, etal., Exp Cell Res. 2003 Sep 10;289(1):95-107.
2. A novel RNA-binding nuclear protein that interacts with the fragile X mental retardation (FMR1) protein. Bardoni B, etal., Hum Mol Genet 1999 Dec;8(13):2557-66.
3. 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.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. GOA pipeline RGD automated data pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:15107825   PMID:15489334   PMID:17636026  


Genomics

Comparative Map Data
Nufip1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81557,838,864 - 57,869,597 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1557,837,608 - 57,869,594 (+)EnsemblGRCr8
mRatBN7.21551,429,518 - 51,460,308 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1551,429,549 - 51,460,310 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1555,588,438 - 55,618,547 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01556,706,754 - 56,736,867 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01553,525,162 - 53,555,991 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01558,171,163 - 58,201,888 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1558,170,967 - 58,201,970 (+)Ensemblrn6Rnor6.0
Rnor_5.01561,872,647 - 61,903,369 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41557,028,109 - 57,058,834 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1551,055,918 - 51,086,640 (+)NCBICelera
RGSC_v3.11557,043,888 - 57,074,614 (+)NCBI
Cytogenetic Map15q11NCBI
NUFIP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381344,939,249 - 44,989,471 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1344,939,249 - 44,989,471 (-)Ensemblhg38GRCh38
GRCh371345,513,384 - 45,563,606 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361344,411,384 - 44,461,571 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341344,411,383 - 44,461,571NCBI
Celera1326,569,484 - 26,619,733 (-)NCBICelera
Cytogenetic Map13q14.12NCBI
HuRef1326,315,238 - 26,365,485 (-)NCBIHuRef
CHM1_11345,480,925 - 45,531,156 (-)NCBICHM1_1
T2T-CHM13v2.01344,159,312 - 44,209,553 (-)NCBIT2T-CHM13v2.0
Nufip1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391476,348,337 - 76,372,527 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1476,348,331 - 76,374,819 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381476,110,891 - 76,137,379 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1476,110,891 - 76,137,379 (+)Ensemblmm10GRCm38
MGSCv371476,510,698 - 76,537,186 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361474,845,046 - 74,871,534 (+)NCBIMGSCv36mm8
Celera1473,612,226 - 73,638,554 (+)NCBICelera
Cytogenetic Map14D3NCBI
cM Map1440.35NCBI
Nufip1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555182,760,606 - 2,801,398 (-)Ensembl
ChiLan1.0NW_0049555182,761,099 - 2,801,450 (-)NCBIChiLan1.0ChiLan1.0
NUFIP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21444,458,321 - 44,507,889 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11335,520,127 - 35,569,955 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01326,106,480 - 26,156,325 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.13197,915,424 - 197,964,823 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3197,915,448 - 197,962,867 (+)EnsemblpanPan2panpan1.1
NUFIP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1226,036,775 - 6,082,196 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl226,036,817 - 6,082,031 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha226,026,874 - 6,073,150 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0226,154,967 - 6,201,261 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl226,155,015 - 6,200,226 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1225,937,558 - 5,983,809 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0225,999,585 - 6,045,830 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0226,006,298 - 6,052,569 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Nufip1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404945155,174,009 - 155,218,417 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367911,094,224 - 1,138,984 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049367911,095,583 - 1,138,965 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NUFIP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1122,267,481 - 22,302,707 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11122,267,447 - 22,302,714 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21122,570,088 - 22,605,346 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NUFIP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1323,023,976 - 23,073,154 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl323,022,207 - 23,081,424 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605721,044,929 - 21,099,438 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Nufip1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247489,981,917 - 10,030,411 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247489,982,754 - 10,028,253 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Nufip1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11248,269,581 - 48,298,809 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Nufip1
192 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:90
Count of miRNA genes:80
Interacting mature miRNAs:84
Transcripts:ENSRNOT00000001366
Prediction methods:Microtar, 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
1300144Rf23Renal function QTL 233.61renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)1544806773104695021Rat
152025253Hrtrt24Heart rate QTL 243.82heart pumping trait (VT:2000009)153185580392671517Rat
724545Niddm54Non-insulin dependent diabetes mellitus QTL 540.02blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)155720389580107161Rat
10054130Srcrt8Stress Responsive Cort QTL 82.180.0085blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)152852773273527732Rat
1582227Gluco30Glucose level QTL 303.60.0003blood glucose amount (VT:0000188)absolute change in blood glucose level area under curve (CMO:0002034)154367724488677244Rat
1582228Epfw3Epididymal fat weight QTL 34.10.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)154367724488677244Rat
1578646Bmd18Bone mineral density QTL 185.2femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)1525285835104695021Rat
1578647Bmd17Bone mineral density QTL 174femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)1525285835104695021Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
1598828Glom14Glomerulus QTL 142.5kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)154046315285463152Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151492659471614418Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)152233635167336351Rat
1582242Gluco28Glucose level QTL 283.30.0008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)154367724488677244Rat
1578660Bss19Bone structure and strength QTL 194.3femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)1525285835104695021Rat
1582244Bw79Body weight QTL 7940.0002epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)154367724488677244Rat
1582214Stl21Serum triglyceride level QTL 213.10.022blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)154367724488677244Rat

Markers in Region
RH137036  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21551,460,090 - 51,460,279 (+)MAPPERmRatBN7.2
Rnor_6.01558,201,677 - 58,201,865NCBIRnor6.0
Rnor_5.01561,903,158 - 61,903,346UniSTSRnor5.0
RGSC_v3.41557,058,623 - 57,058,811UniSTSRGSC3.4
Celera1551,086,429 - 51,086,617UniSTS
RH 3.4 Map15465.09UniSTS
Cytogenetic Map15q11UniSTS
MARC_8253-8254:996688461:1  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21551,433,020 - 51,433,420 (+)MAPPERmRatBN7.2
mRatBN7.21087,243,003 - 87,243,388 (+)MAPPERmRatBN7.2
Rnor_6.01090,234,910 - 90,235,294NCBIRnor6.0
Rnor_6.01558,174,608 - 58,175,007NCBIRnor6.0
Rnor_5.01561,876,092 - 61,876,488UniSTSRnor5.0
Rnor_5.01090,021,427 - 90,021,811UniSTSRnor5.0
RGSC_v3.41091,369,102 - 91,369,486UniSTSRGSC3.4
RGSC_v3.41557,031,554 - 57,031,953UniSTSRGSC3.4
Celera1551,059,363 - 51,059,762UniSTS
Celera1085,958,438 - 85,958,822UniSTS
Cytogenetic Map15q11UniSTS
Cytogenetic Map10q32.1UniSTS


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 67 163 91 90 59 92 59 6 356 192 11 142 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000001366   ⟹   ENSRNOP00000001366
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1557,837,608 - 57,869,594 (+)Ensembl
mRatBN7.2 Ensembl1551,429,549 - 51,460,310 (+)Ensembl
Rnor_6.0 Ensembl1558,170,967 - 58,201,970 (+)Ensembl
RefSeq Acc Id: NM_001007758   ⟹   NP_001007759
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81557,838,864 - 57,869,591 (+)NCBI
mRatBN7.21551,429,576 - 51,460,302 (+)NCBI
Rnor_6.01558,171,163 - 58,201,888 (+)NCBI
Rnor_5.01561,872,647 - 61,903,369 (+)NCBI
RGSC_v3.41557,028,109 - 57,058,834 (+)RGD
Celera1551,055,918 - 51,086,640 (+)RGD
Sequence:
RefSeq Acc Id: XM_039093556   ⟹   XP_038949484
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81557,843,519 - 57,869,597 (+)NCBI
mRatBN7.21551,429,533 - 51,460,308 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001007759 (Get FASTA)   NCBI Sequence Viewer  
  XP_038949484 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH82111 (Get FASTA)   NCBI Sequence Viewer  
  EDM02311 (Get FASTA)   NCBI Sequence Viewer  
  EDM02312 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000001366
  ENSRNOP00000001366.3
GenBank Protein Q641W3 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001007759   ⟸   NM_001007758
- UniProtKB: Q641W3 (UniProtKB/Swiss-Prot),   A6HTU8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000001366   ⟸   ENSRNOT00000001366
RefSeq Acc Id: XP_038949484   ⟸   XM_039093556
- Peptide Label: isoform X1
Protein Domains
C2H2-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q641W3-F1-model_v2 AlphaFold Q641W3 1-486 view protein structure

Transcriptome

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

Promoters
RGD ID:13699838
Promoter ID:EPDNEW_R10361
Type:initiation region
Name:Nufip1_1
Description:NUFIP1, FMR1 interacting protein 1
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_6.01558,171,134 - 58,171,194EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359440 AgrOrtholog
BioCyc Gene G2FUF-13078 BioCyc
Ensembl Genes ENSRNOG00000001033 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000001366 ENTREZGENE
  ENSRNOT00000001366.6 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7135272 IMAGE-MGC_LOAD
InterPro NUFIP1-like UniProtKB/Swiss-Prot
  NUFIP1_cons_dom UniProtKB/Swiss-Prot
  Znf_C2H2_type UniProtKB/Swiss-Prot
KEGG Report rno:364430 UniProtKB/Swiss-Prot
MGC_CLONE MGC:95323 IMAGE-MGC_LOAD
NCBI Gene 364430 ENTREZGENE
PANTHER NUCLEAR FRAGILE X MENTAL RETARDATION PROTEIN INTERACTING PROTEIN 1 UniProtKB/Swiss-Prot
  NUCLEAR FRAGILE X MENTAL RETARDATION-INTERACTING PROTEIN 1 UniProtKB/Swiss-Prot
Pfam NUFIP1 UniProtKB/Swiss-Prot
PhenoGen Nufip1 PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000001033 RatGTEx
SMART ZnF_C2H2 UniProtKB/Swiss-Prot
UniProt A6HTU8 ENTREZGENE, UniProtKB/TrEMBL
  A6HTU9_RAT UniProtKB/TrEMBL
  NUFP1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-08-24 Nufip1  nuclear FMR1 interacting protein 1  Nufip1  NUFIP1, FMR1 interacting protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2016-05-12 Nufip1  NUFIP1, FMR1 interacting protein 1  Nufip1  nuclear fragile X mental retardation protein interacting protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Nufip1  nuclear fragile X mental retardation protein interacting protein 1      Symbol and Name status set to approved 1299863 APPROVED
2005-07-29 Nufip1  nuclear fragile X mental retardation protein interacting protein 1      Symbol and Name status set to provisional 70820 PROVISIONAL