Clns1a (chloride nucleotide-sensitive channel 1A) - Rat Genome Database

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Gene: Clns1a (chloride nucleotide-sensitive channel 1A) Rattus norvegicus
Analyze
Symbol: Clns1a
Name: chloride nucleotide-sensitive channel 1A
RGD ID: 61884
Description: Predicted to enable several functions, including lipid binding activity; monoatomic ion channel activity; and splicing factor binding activity. Involved in cell volume homeostasis and chloride transport. Predicted to be located in membrane and nucleoplasm. Predicted to be part of methylosome; pICln-Sm protein complex; and spliceosomal complex. Predicted to be active in cytosol. Orthologous to human CLNS1A (chloride nucleotide-sensitive channel 1A); PARTICIPATES IN RNA transport pathway; INTERACTS WITH 3,4-methylenedioxymethamphetamine; ammonium chloride; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: chloride channel current inducer; chloride channel, nucleotide sensitive 1A; chloride channel, nucleotide-sensitive, 1A; chloride conductance regulatory protein ICln; Clci; Clcni; Clns 1a; i(Cln); Icln; methylosome subunit pICln; pICln
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81161,429,437 - 161,450,904 (+)NCBIGRCr8
mRatBN7.21152,019,369 - 152,039,670 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1152,019,378 - 152,039,661 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1160,006,279 - 160,026,510 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01167,186,457 - 167,206,690 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01160,059,944 - 160,080,176 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01162,676,246 - 162,696,549 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1162,676,269 - 162,696,544 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01168,883,031 - 168,903,326 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41154,946,713 - 154,966,947 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11155,025,118 - 155,045,353 (+)NCBI
Celera1150,113,083 - 150,133,297 (+)NCBICelera
Cytogenetic Map1q32NCBI
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

Biological Process

Cellular Component
cytoskeleton  (IEA)
cytosol  (IBA,IEA,ISO)
membrane  (ISO)
methylosome  (IEA,ISO,ISS)
nucleoplasm  (ISO)
nucleus  (ISO,ISS)
pICln-Sm protein complex  (IBA,IEA,ISO,ISS)
plasma membrane  (IEA)
protein-containing complex  (ISO)
spliceosomal complex  (IBA,IEA)

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Molecular characterization of a swelling-induced chloride conductance regulatory protein, pICln. Krapivinsky GB, etal., Cell 1994 Feb 11;76(3):439-48.
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
6. GOA pipeline RGD automated data pipeline
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. 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:7683461   PMID:8391324   PMID:12970357   PMID:15905169   PMID:18495660   PMID:18984161   PMID:21081503   PMID:22658674   PMID:35352799  


Genomics

Comparative Map Data
Clns1a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81161,429,437 - 161,450,904 (+)NCBIGRCr8
mRatBN7.21152,019,369 - 152,039,670 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1152,019,378 - 152,039,661 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1160,006,279 - 160,026,510 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01167,186,457 - 167,206,690 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01160,059,944 - 160,080,176 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01162,676,246 - 162,696,549 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1162,676,269 - 162,696,544 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01168,883,031 - 168,903,326 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41154,946,713 - 154,966,947 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11155,025,118 - 155,045,353 (+)NCBI
Celera1150,113,083 - 150,133,297 (+)NCBICelera
Cytogenetic Map1q32NCBI
CLNS1A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381177,614,530 - 77,637,794 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1177,514,936 - 77,637,794 (-)EnsemblGRCh38hg38GRCh38
GRCh371177,325,575 - 77,348,839 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361177,004,847 - 77,026,495 (-)NCBINCBI36Build 36hg18NCBI36
Build 341177,004,846 - 77,026,495NCBI
Celera1174,634,866 - 74,656,525 (-)NCBICelera
Cytogenetic Map11q14.1NCBI
HuRef1173,625,592 - 73,647,175 (-)NCBIHuRef
CHM1_11177,210,298 - 77,231,955 (-)NCBICHM1_1
T2T-CHM13v2.01177,547,583 - 77,570,850 (-)NCBIT2T-CHM13v2.0
Clns1a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39797,345,864 - 97,370,000 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl797,345,841 - 97,370,003 (+)EnsemblGRCm39 Ensembl
GRCm38797,696,657 - 97,720,793 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl797,696,634 - 97,720,796 (+)EnsemblGRCm38mm10GRCm38
MGSCv377104,845,201 - 104,867,389 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36797,571,883 - 97,594,071 (+)NCBIMGSCv36mm8
Celera798,016,504 - 98,038,808 (+)NCBICelera
Cytogenetic Map7E1NCBI
cM Map753.57NCBI
Clns1a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541414,219,909 - 14,238,806 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541414,219,909 - 14,239,450 (+)NCBIChiLan1.0ChiLan1.0
CLNS1A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2978,548,712 - 78,572,293 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11179,597,103 - 79,620,658 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01172,680,122 - 72,701,752 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11176,321,769 - 76,343,055 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1176,321,769 - 76,343,059 (-)Ensemblpanpan1.1panPan2
CLNS1A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12121,136,913 - 21,177,678 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2121,136,931 - 21,160,703 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2121,028,886 - 21,052,539 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02121,335,071 - 21,375,804 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2121,335,097 - 21,376,874 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12121,111,754 - 21,135,411 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02121,328,003 - 21,351,856 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02121,251,643 - 21,275,242 (+)NCBIUU_Cfam_GSD_1.0
Clns1a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494764,640,263 - 64,666,151 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049364986,239,866 - 6,265,743 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLNS1A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl912,092,997 - 12,113,670 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1912,092,990 - 12,113,668 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2913,245,179 - 13,266,187 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CLNS1A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1168,830,943 - 68,853,490 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl168,834,327 - 68,853,492 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604356,917,640 - 56,940,105 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Clns1a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624863699,430 - 720,227 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624863699,430 - 720,236 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Clns1a
69 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:186
Count of miRNA genes:133
Interacting mature miRNAs:155
Transcripts:ENSRNOT00000017702
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61343Bp28Blood pressure QTL 28arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1151646613196646613Rat
61348Bp30Blood pressure QTL 302.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1144017057197814409Rat
61379Bp44Blood pressure QTL 4419.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1144267916174133260Rat
70209Niddm23Non-insulin dependent diabetes mellitus QTL 232.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)194494440198324465Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
71118Thym1Thymus enlargement QTL 110.170.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1136829932181829932Rat
631199Cm23Cardiac mass QTL 234.60.0004heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1115585465172949803Rat
631202Gluco13Glucose level QTL 130.0001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1131763437159756369Rat
631205Bp196Blood pressure QTL 19640.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118944897199050459Rat
631206Niddm40Non-insulin dependent diabetes mellitus QTL 40blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1136745990163747690Rat
61442Strs1Sensitivity to stroke QTL 17.4cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)1121767634166767634Rat
70160Bw18Body weight QTL 185.7body mass (VT:0001259)body weight (CMO:0000012)1144267353196383668Rat
724521Uae1Urinary albumin excretion QTL 13.80.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)190508614173018436Rat
724531Uae5Urinary albumin excretion QTL 54urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)1150700142252085212Rat
724550Thym3Thymus enlargement QTL 37.820.001thymus mass (VT:0004954)thymus weight to body weight ratio (CMO:0000612)1136829932181829932Rat
737828Hcas3Hepatocarcinoma susceptibility QTL 34.9liver integrity trait (VT:0010547)liver tumorous lesion volume to total liver volume ratio (CMO:0001082)1144267353222987745Rat
631654Bp107Blood pressure QTL 107arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
731168Bp154Blood pressure QTL 1543.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194642644214537671Rat
738006Anxrr14Anxiety related response QTL 1440.00035locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
738028Anxrr12Anxiety related response QTL 124.90.00001locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)1130636910175636910Rat
631519Pia11Pristane induced arthritis QTL 115.3joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1136830018181830018Rat
631544Bp84Blood pressure QTL 845.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350408181759564Rat
631549Bp89Blood pressure QTL 895.7arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1123350581201284552Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
634315Niddm45Non-insulin dependent diabetes mellitus QTL 457.16blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)1144267916172949660Rat
634348Bp138Blood pressure QTL 138arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501168883176Rat
1300158Bp173Blood pressure QTL 1733.48arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)1115540693185145286Rat
1331749Hrtrt11Heart rate QTL 112.973heart pumping trait (VT:2000009)heart rate (CMO:0000002)194494440198211706Rat
1331751Bp199Blood pressure QTL 1993.60022arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)194494440181830018Rat
1331793Bp200Blood pressure QTL 2003.71601arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)194494440172949803Rat
1354591Cm36Cardiac mass QTL 364.1heart left ventricle mass (VT:0007031)calculated heart weight (CMO:0000073)1102813953201278233Rat
1354602Bw35Body weight QTL 3512.2body mass (VT:0001259)body weight (CMO:0000012)1151162512201278233Rat
1354606Bp246Blood pressure QTL 2463.6arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)1102813953218753816Rat
1354610Bw34Body weight QTL 344.1body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1354615Cm32Cardiac mass QTL 325.2heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)1102813953201278233Rat
1354620Kidm19Kidney mass QTL 194kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512201278233Rat
1354634Kidm12Kidney mass QTL 123.9kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)1151162512201278233Rat
1354636Lmblg1Limb length QTL 16.4tibia length (VT:0004357)tibia length (CMO:0000450)1151162512201278233Rat
1354646Kidm18Kidney mass QTL 185.7kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)1151162512256448636Rat
1354661Bw33Body weight QTL 335.2body mass (VT:0001259)body weight (CMO:0000012)1151162512256448636Rat
1558645Bw55Body weight QTL 553.20.004body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
1358189Cstrr1Cold stress response QTL 10.0001catecholamine amount (VT:0010543)urine norepinephrine level (CMO:0001629)1123350408182418476Rat
1358886Bp260Blood pressure QTL 2603.67arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1151162766225824951Rat
1358902Bw47Body weight QTL 471.67body mass (VT:0001259)body weight (CMO:0000012)190508614180359386Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
1641895Bp298Blood pressure QTL 298arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1123350408182418476Rat
1598850Bp297Blood pressure QTL 2972.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121006655166006655Rat
1598853Memor3Memory QTL 34.5exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)1143506580212458660Rat
1598866Bp287Blood pressure QTL 2875.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121006655166006655Rat
1578759Uae30Urinary albumin excretion QTL 303.30.003urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1150700247252085048Rat
1578770Stresp23Stress response QTL 23kidney sympathetic nerve activity (VT:0004050)stimulated renal sympathetic nerve activity to basal renal sympathetic nerve activity ratio (CMO:0001786)1123350408182418476Rat
1578778Pur4Proteinuria QTL 43.30.003urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)1150700247252085048Rat
1578780Cm52Cardiac mass QTL 523.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)181591954219808434Rat
2293140Bp313Blood pressure QTL 313arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1121833674166833674Rat
2302378Insul11Insulin level QTL 113.25blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1144267353251128347Rat
2313060Bss71Bone structure and strength QTL 712.60.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)1118944747163944747Rat
6893347Bw98Body weight QTL 980.20.53body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
6893361Bw104Body weight QTL 1040.590.27body mass (VT:0001259)body weight (CMO:0000012)1133680936178680936Rat
8655649Arrd1Age-related retinal degeneration QTL 14.89retinal layer morphology trait (VT:0003727)percentage of study population developing retinopathy during a period of time (CMO:0002453)1100357752183970443Rat
7794788Mcs32Mammary carcinoma susceptibility QTL 322.61mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)1115540693238914717Rat
9685799Bp375Blood pressure QTL 375arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1125611501170611501Rat
9685802Bp376Blood pressure QTL 376arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1126540680171540680Rat
7771612Cm80Cardiac mass QTL 808.4heart left ventricle mass (VT:0007031)heart left ventricle weight (CMO:0000776)1149448574221264292Rat
7421630Bp362Blood pressure QTL 3620.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1118608292241799120Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat

Markers in Region
D1Bda28  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21152,039,275 - 152,039,559 (+)MAPPERmRatBN7.2
Rnor_6.01162,696,155 - 162,696,438NCBIRnor6.0
Rnor_5.01168,902,932 - 168,903,215UniSTSRnor5.0
RGSC_v3.41154,966,557 - 154,966,840UniSTSRGSC3.4
Celera1150,132,907 - 150,133,190UniSTS
Cytogenetic Map1q32UniSTS
RH128462  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21152,039,290 - 152,039,500 (+)MAPPERmRatBN7.2
Rnor_6.01162,696,170 - 162,696,379NCBIRnor6.0
Rnor_5.01168,902,947 - 168,903,156UniSTSRnor5.0
RGSC_v3.41154,966,572 - 154,966,781UniSTSRGSC3.4
Celera1150,132,922 - 150,133,131UniSTS
Cytogenetic Map1q32UniSTS
RH138518  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21152,028,575 - 152,028,777 (+)MAPPERmRatBN7.2
Rnor_6.01162,685,455 - 162,685,656NCBIRnor6.0
Rnor_5.01168,892,232 - 168,892,433UniSTSRnor5.0
RGSC_v3.41154,955,857 - 154,956,058UniSTSRGSC3.4
Celera1150,122,207 - 150,122,408UniSTS
RH 3.4 Map11166.0UniSTS
Cytogenetic Map1q32UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000017702   ⟹   ENSRNOP00000017702
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1152,019,378 - 152,039,661 (+)Ensembl
Rnor_6.0 Ensembl1162,676,269 - 162,696,544 (+)Ensembl
RefSeq Acc Id: NM_031719   ⟹   NP_113907
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81161,430,669 - 161,450,903 (+)NCBI
mRatBN7.21152,019,432 - 152,039,666 (+)NCBI
Rnor_6.01162,676,309 - 162,696,545 (+)NCBI
Rnor_5.01168,883,031 - 168,903,326 (+)NCBI
RGSC_v3.41154,946,713 - 154,966,947 (+)RGD
Celera1150,113,083 - 150,133,297 (+)RGD
Sequence:
RefSeq Acc Id: XM_006229792   ⟹   XP_006229854
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81161,429,437 - 161,450,904 (+)NCBI
mRatBN7.21152,019,369 - 152,039,670 (+)NCBI
Rnor_6.01162,676,246 - 162,696,549 (+)NCBI
Rnor_5.01168,883,031 - 168,903,326 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_113907 (Get FASTA)   NCBI Sequence Viewer  
  XP_006229854 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC37642 (Get FASTA)   NCBI Sequence Viewer  
  AAH60555 (Get FASTA)   NCBI Sequence Viewer  
  BAA03092 (Get FASTA)   NCBI Sequence Viewer  
  EDM18467 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000017702
  ENSRNOP00000017702.4
GenBank Protein Q04753 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_113907   ⟸   NM_031719
- UniProtKB: Q04753 (UniProtKB/Swiss-Prot),   Q6P9X1 (UniProtKB/TrEMBL),   F7FFE2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006229854   ⟸   XM_006229792
- Peptide Label: isoform X1
- UniProtKB: Q04753 (UniProtKB/Swiss-Prot),   Q6P9X1 (UniProtKB/TrEMBL),   F7FFE2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000017702   ⟸   ENSRNOT00000017702

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q04753-F1-model_v2 AlphaFold Q04753 1-236 view protein structure

Transcriptome

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

Promoters
RGD ID:13690209
Promoter ID:EPDNEW_R734
Type:initiation region
Name:Clns1a_1
Description:chloride nucleotide-sensitive channel 1A
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_6.01162,676,275 - 162,676,335EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61884 AgrOrtholog
BioCyc Gene G2FUF-58441 BioCyc
Ensembl Genes ENSRNOG00000012788 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000017702.7 UniProtKB/TrEMBL
Gene3D-CATH 2.30.29.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:6918578 IMAGE-MGC_LOAD
InterPro ICln UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ICln/Lot5 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:65160 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:72762 IMAGE-MGC_LOAD
NCBI Gene 65160 ENTREZGENE
PANTHER METHYLOSOME SUBUNIT PICLN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR21399 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Voldacs UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Clns1a PhenoGen
PRINTS ICLNCHANNEL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000012788 RatGTEx
UniProt F7FFE2 ENTREZGENE, UniProtKB/TrEMBL
  ICLN_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q6P9X1 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-11 Clns1a  chloride nucleotide-sensitive channel 1A  Clns1a  chloride channel, nucleotide-sensitive, 1A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Clns1a  chloride channel, nucleotide-sensitive, 1A       Name updated 70584 APPROVED
2001-12-10 Clns 1a  chloride channel, nucleotide-sensitive, 1A      Symbol and Name updated to reflect Human and Mouse nomenclature 69665 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to the cytosol 61553
gene_physical_interaction forms complexes with actin and other cytosolic proteins 61553