Gan (gigaxonin) - Rat Genome Database

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Gene: Gan (gigaxonin) Rattus norvegicus
Analyze
Symbol: Gan
Name: gigaxonin
RGD ID: 1307766
Description: Predicted to enable ubiquitin-like ligase-substrate adaptor activity. Predicted to be involved in proteasome-mediated ubiquitin-dependent protein catabolic process and protein ubiquitination. Predicted to be located in cytoskeleton. Predicted to be part of Cul3-RING ubiquitin ligase complex. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in giant axonal neuropathy 1. Orthologous to human GAN (gigaxonin); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: giant axonal neuropathy; LOC307893
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
GRCr81962,116,600 - 62,173,879 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1962,116,600 - 62,163,083 (+)EnsemblGRCr8
mRatBN7.21945,207,783 - 45,265,066 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1945,207,184 - 45,254,107 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1952,017,893 - 52,064,198 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01952,670,909 - 52,717,223 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01954,915,137 - 54,961,451 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01949,692,790 - 49,746,178 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1949,695,579 - 49,741,965 (+)Ensemblrn6Rnor6.0
Rnor_5.01960,480,642 - 60,533,157 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41947,263,532 - 47,310,683 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1944,479,857 - 44,526,017 (+)NCBICelera
RGSC_v3.11947,268,492 - 47,315,557 (+)NCBI
Cytogenetic Map19q12NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15983046   PMID:19424503  


Genomics

Comparative Map Data
Gan
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81962,116,600 - 62,173,879 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1962,116,600 - 62,163,083 (+)EnsemblGRCr8
mRatBN7.21945,207,783 - 45,265,066 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1945,207,184 - 45,254,107 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1952,017,893 - 52,064,198 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01952,670,909 - 52,717,223 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01954,915,137 - 54,961,451 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01949,692,790 - 49,746,178 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1949,695,579 - 49,741,965 (+)Ensemblrn6Rnor6.0
Rnor_5.01960,480,642 - 60,533,157 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41947,263,532 - 47,310,683 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1944,479,857 - 44,526,017 (+)NCBICelera
RGSC_v3.11947,268,492 - 47,315,557 (+)NCBI
Cytogenetic Map19q12NCBI
GAN
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381681,314,962 - 81,390,809 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1681,314,944 - 81,390,884 (+)Ensemblhg38GRCh38
GRCh371681,348,567 - 81,424,414 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361679,906,076 - 79,971,441 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341679,906,075 - 79,971,441NCBI
Celera1665,645,867 - 65,711,100 (+)NCBICelera
Cytogenetic Map16q23.2NCBI
HuRef1667,103,386 - 67,168,596 (+)NCBIHuRef
CHM1_11682,759,876 - 82,825,083 (+)NCBICHM1_1
T2T-CHM13v2.01687,375,728 - 87,451,557 (+)NCBIT2T-CHM13v2.0
Gan
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398117,884,720 - 117,932,573 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8117,884,874 - 117,942,736 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm388117,157,981 - 117,205,834 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8117,158,135 - 117,215,997 (+)Ensemblmm10GRCm38
MGSCv378119,682,035 - 119,729,086 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv368120,044,112 - 120,091,163 (+)NCBIMGSCv36mm8
Celera8121,377,818 - 121,424,875 (+)NCBICelera
Cytogenetic Map8E1NCBI
cM Map863.71NCBI
Gan
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555224,035,672 - 4,090,630 (+)Ensembl
ChiLan1.0NW_0049555224,035,672 - 4,096,845 (+)NCBIChiLan1.0ChiLan1.0
GAN
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21891,056,924 - 91,140,629 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11696,976,406 - 97,060,039 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01661,919,004 - 61,994,811 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11681,347,221 - 81,410,363 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1681,347,215 - 81,410,363 (+)EnsemblpanPan2panpan1.1
GAN
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1570,518,667 - 70,579,398 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl570,530,396 - 70,579,567 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha570,488,907 - 70,528,607 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0570,823,382 - 70,884,349 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl570,827,374 - 70,884,517 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1570,766,100 - 70,826,821 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0570,601,294 - 70,662,010 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0571,079,113 - 71,139,854 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Gan
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934930,609,452 - 30,661,047 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647528,945,908 - 28,967,653 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647528,913,132 - 28,979,656 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GAN
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl66,933,503 - 6,989,653 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.166,921,446 - 6,989,670 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.267,466,847 - 7,524,943 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GAN
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1566,754,752 - 66,820,933 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl566,754,893 - 66,816,761 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660479,017,449 - 9,081,670 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gan
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247466,081,033 - 6,126,858 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247466,070,680 - 6,126,949 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Gan
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11736,808,569 - 36,855,965 (+)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:501
Count of miRNA genes:261
Interacting mature miRNAs:332
Transcripts:ENSRNOT00000016963
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
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)191922068964220689Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191032907674246245Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)194622677874246245Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)193236531174246245Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)193628974246245Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)192409397369093973Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191083361874246245Rat
2303628Vencon9Ventilatory control QTL 90.005respiration trait (VT:0001943)minute ventilation (CMO:0000132)192318858668188586Rat
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)194438513474246245Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)193253961574246245Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)196124916174246245Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)193177788874246245Rat
1554318Bmd5Bone mineral density QTL 512.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)192318858668188586Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)192010930665109306Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19219431774246245Rat
1549835Tcas7Tongue tumor susceptibility QTL 70.001tongue integrity trait (VT:0010553)squamous cell carcinoma of the head and neck tumor number (CMO:0001876)194172254674246245Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19219431774246245Rat

Markers in Region
AU047749  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21945,219,809 - 45,220,021 (+)MAPPERmRatBN7.2
Rnor_6.01949,707,511 - 49,707,722NCBIRnor6.0
Rnor_5.01960,494,570 - 60,494,781UniSTSRnor5.0
RGSC_v3.41947,275,479 - 47,275,690UniSTSRGSC3.4
Celera1944,491,791 - 44,492,002UniSTS
Cytogenetic Map19q12UniSTS
BQ193745  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21945,205,999 - 45,206,175 (+)MAPPERmRatBN7.2
Rnor_6.01949,693,715 - 49,693,890NCBIRnor6.0
Rnor_5.01960,480,774 - 60,480,949UniSTSRnor5.0
RGSC_v3.41947,261,668 - 47,261,843UniSTSRGSC3.4
Celera1944,477,993 - 44,478,168UniSTS
RH 3.4 Map19631.7UniSTS
Cytogenetic Map19q12UniSTS


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: ENSRNOT00000016963   ⟹   ENSRNOP00000016963
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1962,135,029 - 62,163,083 (+)Ensembl
mRatBN7.2 Ensembl1945,207,184 - 45,254,107 (+)Ensembl
Rnor_6.0 Ensembl1949,695,579 - 49,741,965 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000172870   ⟹   ENSRNOP00000112441
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1962,116,600 - 62,163,083 (+)Ensembl
RefSeq Acc Id: NM_001414939   ⟹   NP_001401868
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81962,116,600 - 62,173,879 (+)NCBI
mRatBN7.21945,207,783 - 45,265,066 (+)NCBI
RefSeq Acc Id: XM_039097773   ⟹   XP_038953701
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81962,147,610 - 62,173,879 (+)NCBI
mRatBN7.21945,238,804 - 45,258,831 (+)NCBI
RefSeq Acc Id: XM_039097774   ⟹   XP_038953702
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81962,116,797 - 62,173,879 (+)NCBI
mRatBN7.21945,207,982 - 45,258,831 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001401868 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953701 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953702 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL92649 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000016963.7
  ENSRNOP00000112441
  ENSRNOP00000112441.1
Ensembl Acc Id: ENSRNOP00000016963   ⟸   ENSRNOT00000016963
RefSeq Acc Id: XP_038953702   ⟸   XM_039097774
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038953701   ⟸   XM_039097773
- Peptide Label: isoform X2
RefSeq Acc Id: NP_001401868   ⟸   NM_001414939
- UniProtKB: A6IZH1 (UniProtKB/TrEMBL),   D3ZRI9 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000112441   ⟸   ENSRNOT00000172870
Protein Domains
BTB

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZRI9-F1-model_v2 AlphaFold D3ZRI9 1-603 view protein structure

Transcriptome

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

Promoters
RGD ID:13701171
Promoter ID:EPDNEW_R11694
Type:single initiation site
Name:Gan_1
Description:gigaxonin
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_6.01949,695,498 - 49,695,558EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307766 AgrOrtholog
BioCyc Gene G2FUF-5554 BioCyc
Ensembl Genes ENSRNOG00000012671 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016963.7 UniProtKB/TrEMBL
  ENSRNOT00000172870 ENTREZGENE
  ENSRNOT00000172870.1 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.420 UniProtKB/TrEMBL
  2.120.10.80 UniProtKB/TrEMBL
  Potassium Channel Kv1.1, Chain A UniProtKB/TrEMBL
InterPro BACK UniProtKB/TrEMBL
  BTB/POZ-like UniProtKB/TrEMBL
  BTB/POZ_fold UniProtKB/TrEMBL
  Kelch-like_gigaxonin UniProtKB/TrEMBL
  Kelch-typ_b-propeller UniProtKB/TrEMBL
  Kelch_1 UniProtKB/TrEMBL
  KLHL16 UniProtKB/TrEMBL
  KLHL16_BTB_POZ UniProtKB/TrEMBL
NCBI Gene 307893 ENTREZGENE
PANTHER KELCH PROTEIN UniProtKB/TrEMBL
  KELCH-LIKE PROTEIN 31 UniProtKB/TrEMBL
  LD33804P UniProtKB/TrEMBL
  PTHR24412:SF232 UniProtKB/TrEMBL
Pfam BACK UniProtKB/TrEMBL
  BTB UniProtKB/TrEMBL
  Kelch_KLHDC2_KLHL20_DRC7 UniProtKB/TrEMBL
PhenoGen Gan PhenoGen
PIRSF Kelch-like_protein_gigaxonin UniProtKB/TrEMBL
PROSITE BTB UniProtKB/TrEMBL
RatGTEx ENSRNOG00000012671 RatGTEx
SMART BACK UniProtKB/TrEMBL
  BTB UniProtKB/TrEMBL
  Kelch UniProtKB/TrEMBL
Superfamily-SCOP BTB/POZ_fold UniProtKB/TrEMBL
  SSF117281 UniProtKB/TrEMBL
UniProt A0ABK0LN48_RAT UniProtKB/TrEMBL
  A6IZH1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZRI9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-17 Gan  gigaxonin  Gan  giant axonal neuropathy   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Gan  giant axonal neuropathy   Gan_predicted  giant axonal neuropathy (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Gan_predicted  giant axonal neuropathy (predicted)      Symbol and Name status set to approved 70820 APPROVED