Ctns (cystinosin, lysosomal cystine transporter) - Rat Genome Database

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Gene: Ctns (cystinosin, lysosomal cystine transporter) Rattus norvegicus
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Symbol: Ctns
Name: cystinosin, lysosomal cystine transporter
RGD ID: 1308466
Description: Predicted to enable L-cystine transmembrane transporter activity and solute:proton symporter activity. Involved in several processes, including negative regulation of hydrogen peroxide biosynthetic process; positive regulation of mitochondrial membrane potential; and positive regulation of thyroid hormone generation. Predicted to be located in cytoplasmic vesicle; lysosome; and plasma membrane. Predicted to be active in lysosomal membrane. Used to study Fanconi syndrome and cystinosis. Human ortholog(s) of this gene implicated in cystinosis. Orthologous to human CTNS (cystinosin, lysosomal cystine transporter); PARTICIPATES IN cysteine metabolic pathway; mercaptolactate-cysteine disulfiduria pathway; ocular nonnephropathic cystinosis pathway; INTERACTS WITH 2,2',5,5'-tetrachlorobiphenyl; 2,3,7,8-tetrachlorodibenzodioxine; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: cystinosin; cystinosis, nephropathic; LOC287478; similar to Cystinosin
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Ctnsem2Vjupk ; Ctnsem3Vjupk ; Ctnsem4Vjupk ; Ctnsem1Odev
Genetic Models: CD-Ctnsem2Vjupk ; CD-Ctnsem4Vjupk ; CD-Ctnsem3Vjupk ; SD-Ctnsem1Odev
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81058,300,069 - 58,315,725 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1058,299,967 - 58,321,661 (-)EnsemblGRCr8
mRatBN7.21057,801,551 - 57,817,213 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1057,801,456 - 57,817,120 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1062,457,670 - 62,472,814 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01061,946,129 - 61,961,279 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01057,445,282 - 57,460,420 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01059,749,250 - 59,772,475 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1059,749,256 - 59,764,868 (-)Ensemblrn6Rnor6.0
Rnor_5.01059,488,895 - 59,503,993 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41060,060,254 - 60,075,352 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1056,924,889 - 56,939,979 (-)NCBICelera
RGSC_v3.11060,074,699 - 60,089,377 (-)NCBI
Cytogenetic Map10q24NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Identification and detection of the common 65-kb deletion breakpoint in the nephropathic cystinosis gene (CTNS). Anikster Y, etal., Mol Genet Metab. 1999 Feb;66(2):111-6.
2. Ocular nonnephropathic cystinosis: clinical, biochemical, and molecular correlations. Anikster Y, etal., Pediatr Res. 2000 Jan;47(1):17-23.
3. Intralysosomal cystine accumulation in mice lacking cystinosin, the protein defective in cystinosis. Cherqui S, etal., Mol Cell Biol. 2002 Nov;22(21):7622-32.
4. 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.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. Gene transfer may be preventive but not curative for a lysosomal transport disorder. Hippert C, etal., Mol Ther. 2008 Aug;16(8):1372-81. doi: 10.1038/mt.2008.126. Epub 2008 Jun 24.
7. Cystinosin-deficient rats recapitulate the phenotype of nephropathic cystinosis. Hollywood JA, etal., Am J Physiol Renal Physiol. 2022 Aug 1;323(2):F156-F170. doi: 10.1152/ajprenal.00277.2021. Epub 2022 Jun 13.
8. Cathepsin gene expression profile in rat acute pneumococcal otitis media. Li-Korotky HS, etal., Laryngoscope 2004 Jun;114(6):1032-6.
9. Cystine accumulation attenuates insulin release from the pancreatic ß-cell due to elevated oxidative stress and decreased ATP levels. McEvoy B, etal., J Physiol. 2015 Dec 1;593(23):5167-82. doi: 10.1113/JP271237. Epub 2015 Nov 18.
10. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
11. Impairment of chaperone-mediated autophagy leads to selective lysosomal degradation defects in the lysosomal storage disease cystinosis. Napolitano G, etal., EMBO Mol Med. 2015 Feb;7(2):158-74. doi: 10.15252/emmm.201404223.
12. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
13. SMPDB Annotation Import Pipeline Pipeline to import SMPDB annotations from SMPDB into RGD
14. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
15. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
16. Comprehensive gene review and curation RGD comprehensive gene curation
17. Treatment of Inherited Eye Defects by Systemic Hematopoietic Stem Cell Transplantation. Rocca CJ, etal., Invest Ophthalmol Vis Sci. 2015 Nov;56(12):7214-23. doi: 10.1167/iovs.15-17107.
18. A G339R mutation in the CTNS gene is a common cause of nephropathic cystinosis in the south western Ontario Amish Mennonite population. Rupar CA, etal., J Med Genet. 2001 Sep;38(9):615-6.
19. CTNS mutations in an American-based population of cystinosis patients. Shotelersuk V, etal., Am J Hum Genet. 1998 Nov;63(5):1352-62.
20. A novel gene encoding an integral membrane protein is mutated in nephropathic cystinosis. Town M, etal., Nat Genet. 1998 Apr;18(4):319-24.
Additional References at PubMed
PMID:7112129   PMID:11150305   PMID:11855931   PMID:12138135   PMID:15128704   PMID:15956064   PMID:16439594   PMID:17471495   PMID:17897319   PMID:17977621   PMID:18337546   PMID:19056867  
PMID:21897743   PMID:30591971  


Genomics

Comparative Map Data
Ctns
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81058,300,069 - 58,315,725 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1058,299,967 - 58,321,661 (-)EnsemblGRCr8
mRatBN7.21057,801,551 - 57,817,213 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1057,801,456 - 57,817,120 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1062,457,670 - 62,472,814 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01061,946,129 - 61,961,279 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01057,445,282 - 57,460,420 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01059,749,250 - 59,772,475 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1059,749,256 - 59,764,868 (-)Ensemblrn6Rnor6.0
Rnor_5.01059,488,895 - 59,503,993 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41060,060,254 - 60,075,352 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1056,924,889 - 56,939,979 (-)NCBICelera
RGSC_v3.11060,074,699 - 60,089,377 (-)NCBI
Cytogenetic Map10q24NCBI
CTNS
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38173,636,459 - 3,663,103 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl173,636,459 - 3,663,103 (+)Ensemblhg38GRCh38
GRCh37173,539,753 - 3,566,397 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36173,486,511 - 3,513,146 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34173,486,764 - 3,511,581NCBI
Celera173,553,503 - 3,580,136 (+)NCBICelera
Cytogenetic Map17p13.2NCBI
HuRef173,431,470 - 3,458,104 (+)NCBIHuRef
CHM1_1173,550,519 - 3,577,033 (+)NCBICHM1_1
T2T-CHM13v2.0173,525,479 - 3,552,155 (+)NCBIT2T-CHM13v2.0
Ctns
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391173,073,959 - 73,089,869 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1173,074,422 - 73,089,868 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381173,183,133 - 73,199,115 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1173,183,596 - 73,199,042 (-)Ensemblmm10GRCm38
MGSCv371172,996,635 - 73,012,521 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361172,999,328 - 73,015,214 (-)NCBIMGSCv36mm8
Celera1180,720,225 - 80,736,105 (-)NCBICelera
Cytogenetic Map11B4NCBI
cM Map1145.25NCBI
Ctns
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546713,151,957 - 13,168,696 (-)Ensembl
ChiLan1.0NW_00495546713,151,663 - 13,169,005 (-)NCBIChiLan1.0ChiLan1.0
CTNS
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21911,248,304 - 11,273,241 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11713,214,005 - 13,238,748 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0173,686,903 - 3,711,857 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1173,683,562 - 3,708,253 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl173,683,575 - 3,708,253 (+)EnsemblpanPan2panpan1.1
CTNS
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1947,474,488 - 47,490,951 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl947,473,901 - 47,490,252 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha946,636,879 - 46,653,680 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0948,319,984 - 48,336,779 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl948,320,217 - 48,336,770 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1947,097,771 - 47,114,551 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0947,386,873 - 47,403,672 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0947,442,508 - 47,459,300 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Ctns
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560255,540,083 - 55,557,805 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936677343,042 - 360,879 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936677342,964 - 360,890 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CTNS
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1249,730,955 - 49,753,043 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11249,730,741 - 49,754,362 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21251,592,126 - 51,613,331 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CTNS
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1163,138,716 - 3,164,512 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl163,138,734 - 3,164,625 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605918,663,688 - 18,691,499 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ctns
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247866,298,243 - 6,317,743 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247866,296,975 - 6,318,266 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Ctns
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1942,313,719 - 42,329,589 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Ctns
160 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:289
Count of miRNA genes:185
Interacting mature miRNAs:211
Transcripts:ENSRNOT00000030343
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
61441Btemp1Thermal response to stress QTL 14body temperature trait (VT:0005535)core body temperature (CMO:0001036)103589345164140567Rat
1549846Scl47Serum cholesterol level QTL 473.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)105107189796071897Rat
152025229Scl83Serum cholesterol level QTL 834.33blood cholesterol amount (VT:0000180)103621155669161158Rat
1578779Tcas10Tongue tumor susceptibility QTL 103.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)103179628176796281Rat
152025227Bw195Body weight QTL 1955.73body mass (VT:0001259)104748901769161158Rat
631564Apr3Acute phase response QTL 33.9blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)101577675460776754Rat
1298069Bp168Blood pressure QTL 1685.5blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)102702353598502431Rat
2293669Bmd33Bone mineral density QTL 334.50.0001femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)102744378772443787Rat
152025224Bw193Body weight QTL 1936.47body mass (VT:0001259)105216243375582749Rat
631552Vetf2Vascular elastic tissue fragility QTL 24.50.0002aorta elastic tissue integrity trait (VT:0010556)artery internal elastic lamina non-tumorous lesion count (CMO:0001913)103550938391417879Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10125055464349221Rat
631557Bp136Blood pressure QTL 1360.003arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)105686844076129113Rat
61325Aia5Adjuvant induced arthritis QTL 50.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
2293679Bmd30Bone mineral density QTL 303.50.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)102744378772443787Rat
1298078Stresp5Stress response QTL 52.990.00025blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1042546145107713808Rat
1549831Bss6Bone structure and strength QTL 64lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)1058073360103073360Rat
1578762Toxo1Toxoplasma gondii resistance QTL 1brain integrity trait (VT:0010579)percentage of study population displaying Toxoplasma gondii brain cysts at a point in time (CMO:0002028)105269900459876693Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)101993920764939207Rat
61332Eau3Experimental allergic uveoretinitis QTL 30.004uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)101803578263035782Rat
70164Bw21Body weight QTL 214.360.00005body mass (VT:0001259)body weight (CMO:0000012)105429633699451733Rat
61463Bp12Blood pressure QTL 126.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104183127886831278Rat
1579919Bp281Blood pressure QTL 2810.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105046480295464802Rat
8694173Bw149Body weight QTL 1494.380.001body mass (VT:0001259)body weight gain (CMO:0000420)104493935989939359Rat
2300218Hpcl2Hepatic cholesterol level QTL 2liver cholesterol amount (VT:0010498)liver cholesterol level (CMO:0001597)104552916496099749Rat
70171Cari1Carrageenan-induced inflammation QTL 14.90.0005hypodermis integrity trait (VT:0010550)inflammatory exudate volume (CMO:0001429)1054296227107713808Rat
1598852Anxrr19Anxiety related response QTL 195.07body movement coordination trait (VT:0005424)number of rearing movements in an experimental apparatus (CMO:0001752)101866841963668419Rat
1581497Esta1Estrogen-induced thymic atrophy QTL 1thymus mass (VT:0004954)thymus wet weight (CMO:0000855)102183375861843633Rat
10450493Bp382Blood pressure QTL 3820.002arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105086028895860288Rat
724527Bp148Blood pressure QTL 1480.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)102895035373950353Rat
1358897Stresp6Stress response QTL 64.170.022blood norepinephrine amount (VT:0005663)plasma norepinephrine level (CMO:0001010)103589326364653589Rat
1331762Rf40Renal function QTL 403.873kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)102980091064653589Rat
2300171Bmd58Bone mineral density QTL 584.90.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)102744378772443787Rat
61354Pia10Pristane induced arthritis QTL 100.01joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101499153586964295Rat
70188BpQTLcluster1Blood pressure QTL cluster 14.864arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)14282327487823274Rat
9589030Epfw9Epididymal fat weight QTL 919.240.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)104493935989939359Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014991535107556066Rat
2293652Bmd22Bone mineral density QTL 224.90.0001femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)102744378772443787Rat
70198BpQTLcluster9Blood pressure QTL cluster 92.94arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)104282327487823274Rat
2306787Ean3Experimental allergic neuritis QTL 33.1nervous system integrity trait (VT:0010566)body weight loss (CMO:0001399)105429622767476781Rat
724556Pur2Proteinuria QTL 25.5urine protein amount (VT:0005160)urine protein level (CMO:0000591)102293137391127454Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10666092373950353Rat
2306792Ean4Experimental allergic neuritis QTL 44nervous system integrity trait (VT:0010566)IFNG-secreting splenocyte count (CMO:0002122)104949549294495492Rat
61387Bp1Blood pressure QTL 15.1arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)1052269185107713808Rat
1354585Eae18aExperimental allergic encephalomyelitis QTL 18a7.50.0004nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)105429622758944345Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)101465354159653541Rat
1354587Kidm21Kidney mass QTL 213.3kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)101553301273695498Rat
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)102466212373695339Rat
70224Eae3Experimental allergic encephalomyelitis QTL 34.1nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)102702353561843633Rat
2298480Eau7Experimental allergic uveoretinitis QTL 70.0049uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)103550938380509383Rat
1331791Cm31Cardiac mass QTL 313.84606heart mass (VT:0007028)heart wet weight (CMO:0000069)102980091091417879Rat
2298495Eae23Experimental allergic encephalomyelitis QTL 2316.93nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis duration (CMO:0001424)101617552561175525Rat
2313087Bmd80Bone mineral density QTL 803.20.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)102011061465110614Rat
631530Tls3T-lymphoma susceptibility QTL 300.0001thymus integrity trait (VT:0010555)percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)102758722696099902Rat
2289985Bp305Blood pressure QTL 305arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102907697874076978Rat
1354608Cm33Cardiac mass QTL 332.8heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)105530797293608131Rat
631532Cm50Cardiac mass QTL 506.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)101803578263035782Rat
8552805Bw145Body weight QTL 1452.2body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)104360879388608793Rat
631267Cia20Collagen induced arthritis QTL 203.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1023948641107713808Rat
2293705Bmd25Bone mineral density QTL 257.10.0001femur mineral mass (VT:0010011)compact volumetric bone mineral density (CMO:0001730)102744378772443787Rat
631269Cia22Collagen induced arthritis QTL 228.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040535708107713808Rat
1576308Schws1Schwannoma susceptibility QTL 10.0041nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)1040535708107713808Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014991535107713808Rat
7207811Bmd90Bone mineral density QTL 905.2femur size trait (VT:1000369)femoral neck cross-sectional area (CMO:0001697)104994371094943710Rat
1576311Pia26Pristane induced arthritis QTL 26joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)103112911376129113Rat
631270Cia23Collagen induced arthritis QTL 233.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1040535708107713808Rat
7411614Foco18Food consumption QTL 180.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)104493935989939359Rat
631547Bp87Blood pressure QTL 874.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)104786912992869129Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10686461896620484Rat
12880050Am10Aortic mass QTL 100.016aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)103950348784503487Rat
2292436Bp310Blood pressure QTL 310arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)105060467795604677Rat
6893342Cm78Cardiac mass QTL 780.10.88heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)103550938388177745Rat
2313055Bw96Body weight QTL 963.60.0001body mass (VT:0001259)body weight (CMO:0000012)102011061465110614Rat
631542Bp82Blood pressure QTL 826.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)102702353599451848Rat

Markers in Region
RH137201  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21057,801,582 - 57,801,787 (+)MAPPERmRatBN7.2
Rnor_6.01059,749,282 - 59,749,486NCBIRnor6.0
Rnor_5.01059,488,456 - 59,488,660UniSTSRnor5.0
RGSC_v3.41060,059,815 - 60,060,019UniSTSRGSC3.4
Celera1056,924,479 - 56,924,683UniSTS
Cytogenetic Map10q24UniSTS


Genetic Models
This gene Ctns is modified in the following models/strains:
CD-Ctnsem2Vjupk     CD-Ctnsem4Vjupk     CD-Ctnsem3Vjupk     SD-Ctnsem1Odev    


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 67 162 91 90 59 92 59 6 355 192 11 141 80 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000030343   ⟹   ENSRNOP00000031580
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1058,299,967 - 58,315,632 (-)Ensembl
mRatBN7.2 Ensembl1057,801,456 - 57,817,120 (-)Ensembl
Rnor_6.0 Ensembl1059,749,256 - 59,764,868 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000083390   ⟹   ENSRNOP00000072510
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1059,749,957 - 59,762,644 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000121873   ⟹   ENSRNOP00000111479
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1058,300,534 - 58,321,661 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000172593   ⟹   ENSRNOP00000103251
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1058,299,967 - 58,321,661 (-)Ensembl
RefSeq Acc Id: NM_001191647   ⟹   NP_001178576
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81058,300,534 - 58,315,632 (-)NCBI
mRatBN7.21057,802,022 - 57,817,120 (-)NCBI
Rnor_6.01059,749,721 - 59,764,819 (-)NCBI
Rnor_5.01059,488,895 - 59,503,993 (-)NCBI
Celera1056,924,889 - 56,939,979 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017597112   ⟹   XP_017452601
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81058,300,069 - 58,315,725 (-)NCBI
mRatBN7.21057,801,551 - 57,817,213 (-)NCBI
Rnor_6.01059,749,250 - 59,764,902 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063268672   ⟹   XP_063124742
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81058,300,069 - 58,309,522 (-)NCBI
RefSeq Acc Id: NP_001178576   ⟸   NM_001191647
- Peptide Label: precursor
- UniProtKB: A6HGI6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017452601   ⟸   XM_017597112
- Peptide Label: isoform X1
- UniProtKB: D3ZG79 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000031580   ⟸   ENSRNOT00000030343
Ensembl Acc Id: ENSRNOP00000072510   ⟸   ENSRNOT00000083390
RefSeq Acc Id: XP_063124742   ⟸   XM_063268672
- Peptide Label: isoform X2
Ensembl Acc Id: ENSRNOP00000103251   ⟸   ENSRNOT00000172593
Ensembl Acc Id: ENSRNOP00000111479   ⟸   ENSRNOT00000121873

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K358-F1-model_v2 AlphaFold A0A0G2K358 1-377 view protein structure

Transcriptome

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

Promoters
RGD ID:13697406
Promoter ID:EPDNEW_R7930
Type:initiation region
Name:Ctns_1
Description:cystinosin, lysosomal cystine transporter
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_6.01059,764,877 - 59,764,937EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308466 AgrOrtholog
BioCyc Gene G2FUF-24333 BioCyc
Ensembl Genes ENSRNOG00000028688 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000030343 ENTREZGENE
  ENSRNOT00000030343.9 UniProtKB/TrEMBL
  ENSRNOT00000121873 ENTREZGENE
  ENSRNOT00000121873.1 UniProtKB/TrEMBL
  ENSRNOT00000172593.1 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1280.290 UniProtKB/TrEMBL
InterPro CTNS UniProtKB/TrEMBL
  LC_transporter UniProtKB/TrEMBL
KEGG Report rno:287478 UniProtKB/TrEMBL
NCBI Gene 287478 ENTREZGENE
PANTHER CYSTINOSIN UniProtKB/TrEMBL
  PTHR13131 UniProtKB/TrEMBL
Pfam PQ-loop UniProtKB/TrEMBL
PhenoGen Ctns PhenoGen
RatGTEx ENSRNOG00000028688 RatGTEx
SMART CTNS UniProtKB/TrEMBL
UniProt A0ABK0LND5_RAT UniProtKB/TrEMBL
  A0ABK0M6P0_RAT UniProtKB/TrEMBL
  A6HGI6 ENTREZGENE, UniProtKB/TrEMBL
  D3ZG79 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-24 Ctns  cystinosin, lysosomal cystine transporter  LOC365969  similar to Cystinosin  Data merged from RGD:1590823 1643240 APPROVED
2011-08-02 Ctns  cystinosin, lysosomal cystine transporter  Ctns  cystinosis, nephropathic  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Ctns  cystinosis, nephropathic   Ctns_predicted  cystinosis, nephropathic (predicted)  'predicted' is removed 2292626 APPROVED
2006-11-20 LOC365969  similar to Cystinosin      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-12 Ctns_predicted  cystinosis, nephropathic (predicted)      Symbol and Name status set to approved 70820 APPROVED