Cltb (clathrin, light chain B) - Rat Genome Database

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Gene: Cltb (clathrin, light chain B) Rattus norvegicus
Analyze
Symbol: Cltb
Name: clathrin, light chain B
RGD ID: 621353
Description: Enables peptide binding activity. Predicted to be involved in clathrin-dependent endocytosis. Part of clathrin coat. Is active in presynaptic endocytic zone membrane and synaptic vesicle membrane. Orthologous to human CLTB (clathrin light chain B); PARTICIPATES IN Arf family mediated signaling pathway; clathrin-dependent synaptic vesicle endocytosis; endocytosis pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: clathrin light chain B; clathrin, light chain (Lcb); clathrin, light polypeptide (Lcb); lcb
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
mRatBN7.21710,001,512 - 10,019,201 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1710,001,513 - 10,019,169 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1710,015,877 - 10,033,469 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01711,549,271 - 11,566,824 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01710,012,314 - 10,029,907 (+)NCBIRnor_WKY
Rnor_6.01710,537,348 - 10,554,999 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1710,537,365 - 10,554,989 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01712,665,115 - 12,682,779 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41716,063,715 - 16,081,277 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11716,063,714 - 16,081,277 (+)NCBI
Celera1710,074,602 - 10,092,160 (+)NCBICelera
Cytogenetic Map17p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-schisandrin B  (EXP)
1,2-dichloroethane  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
4-amino-2,6-dinitrotoluene  (EXP)
acrylamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
ammonium chloride  (EXP)
amphetamine  (EXP)
aristolochic acid  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
azoxystrobin  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
bromobenzene  (EXP)
buspirone  (EXP)
butanal  (ISO)
captan  (ISO)
carbon nanotube  (ISO)
choline  (ISO)
clozapine  (EXP)
cobalt dichloride  (EXP,ISO)
cocaine  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
diarsenic trioxide  (ISO)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
elemental selenium  (ISO)
enzyme inhibitor  (ISO)
ethanol  (ISO)
finasteride  (EXP)
flutamide  (EXP)
folic acid  (ISO)
folpet  (ISO)
furan  (EXP)
haloperidol  (EXP)
ivermectin  (ISO)
L-methionine  (ISO)
leflunomide  (EXP)
lipopolysaccharide  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
nefazodone  (EXP)
nickel sulfate  (ISO)
nimesulide  (EXP)
paracetamol  (ISO)
pentachlorophenol  (ISO)
phenobarbital  (EXP)
picoxystrobin  (ISO)
piperonyl butoxide  (EXP)
pirinixic acid  (EXP)
pregnenolone 16alpha-carbonitrile  (EXP,ISO)
propiconazole  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
SB 431542  (ISO)
selenium atom  (ISO)
tamibarotene  (ISO)
tamoxifen  (ISO)
tetrachloromethane  (EXP,ISO)
titanium dioxide  (ISO)
valdecoxib  (EXP)
valproic acid  (ISO)
vitamin E  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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. Clathrin light chains LCA and LCB are similar, polymorphic, and share repeated heptad motifs. Kirchhausen T, etal., Science 1987 Apr 17;236(4799):320-4.
4. Clathrin-coated vesicles in nervous tissue are involved primarily in synaptic vesicle recycling. Maycox PR, etal., J Cell Biol. 1992 Sep;118(6):1379-88.
5. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
6. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
7. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
8. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
9. A motif in the clathrin heavy chain required for the Hsc70/auxilin uncoating reaction. Rapoport I, etal., Mol Biol Cell. 2008 Jan;19(1):405-13. Epub 2007 Oct 31.
10. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
11. Synaptic vesicle endocytosis. Saheki Y and De Camilli P, Cold Spring Harb Perspect Biol. 2012 Sep 1;4(9):a005645. doi: 10.1101/cshperspect.a005645.
12. Possible involvement of clathrin in neuritogenesis induced by a protease inhibitor (benzyloxycarbonyl-Leu-Leu-Leu-aldehyde) in PC12 cells. Saito Y, etal., J Biochem. 1992 Oct;112(4):448-55.
Additional References at PubMed
PMID:9188501   PMID:16025302   PMID:20427320   PMID:25427558   PMID:28259758   PMID:29476059  


Genomics

Comparative Map Data
Cltb
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21710,001,512 - 10,019,201 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1710,001,513 - 10,019,169 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1710,015,877 - 10,033,469 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01711,549,271 - 11,566,824 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01710,012,314 - 10,029,907 (+)NCBIRnor_WKY
Rnor_6.01710,537,348 - 10,554,999 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1710,537,365 - 10,554,989 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01712,665,115 - 12,682,779 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41716,063,715 - 16,081,277 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11716,063,714 - 16,081,277 (+)NCBI
Celera1710,074,602 - 10,092,160 (+)NCBICelera
Cytogenetic Map17p14NCBI
CLTB
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385176,392,455 - 176,416,569 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl5176,392,501 - 176,416,539 (-)EnsemblGRCh38hg38GRCh38
GRCh375175,819,456 - 175,843,570 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 365175,752,062 - 175,776,146 (-)NCBINCBI36Build 36hg18NCBI36
Build 345175,752,061 - 175,776,146NCBI
Celera5172,658,136 - 172,682,645 (+)NCBICelera
Cytogenetic Map5q35.2NCBI
HuRef5170,744,066 - 170,767,978 (-)NCBIHuRef
CHM1_15175,252,405 - 175,276,513 (-)NCBICHM1_1
T2T-CHM13v2.05176,936,813 - 176,960,926 (-)NCBIT2T-CHM13v2.0
Cltb
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391354,740,199 - 54,759,186 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1354,740,214 - 54,759,157 (-)EnsemblGRCm39 Ensembl
GRCm381354,592,386 - 54,611,373 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1354,592,401 - 54,611,344 (-)EnsemblGRCm38mm10GRCm38
MGSCv371354,694,300 - 54,712,633 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361354,602,561 - 54,620,894 (-)NCBIMGSCv36mm8
MGSCv361354,074,085 - 54,092,362 (-)NCBIMGSCv36mm8
Celera1355,659,315 - 55,676,939 (-)NCBICelera
Cytogenetic Map13B1NCBI
Cltb
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540828,692,933 - 28,717,566 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540828,692,933 - 28,717,566 (-)NCBIChiLan1.0ChiLan1.0
CLTB
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.15178,761,419 - 178,784,410 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v05171,689,273 - 171,713,198 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
CLTB
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1436,915,106 - 36,935,565 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl436,791,891 - 36,935,278 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha436,882,656 - 36,903,076 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0437,282,765 - 37,303,184 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl437,282,782 - 37,303,562 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1437,108,273 - 37,128,468 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0437,295,663 - 37,316,063 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0437,804,632 - 37,825,064 (+)NCBIUU_Cfam_GSD_1.0
Cltb
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024407213121,639,288 - 121,664,966 (-)NCBIHiC_Itri_2
SpeTri2.0NW_004936597665,365 - 689,867 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLTB
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl281,464,917 - 81,485,419 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1281,464,887 - 81,484,712 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2283,066,549 - 83,082,535 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CLTB
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12378,396,089 - 78,420,860 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2378,396,413 - 78,420,819 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660759,524,741 - 9,551,170 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cltb
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473313,707,155 - 13,738,814 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473313,707,594 - 13,738,814 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Position Markers
BE110258  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21710,008,215 - 10,008,367 (+)MAPPERmRatBN7.2
Rnor_6.01710,544,052 - 10,544,203NCBIRnor6.0
Rnor_5.01712,671,801 - 12,671,952UniSTSRnor5.0
RGSC_v3.41716,070,328 - 16,070,479UniSTSRGSC3.4
Celera1710,081,220 - 10,081,371UniSTS
RH 3.4 Map1792.5UniSTS
Cytogenetic Map17p14UniSTS
BE105422  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21710,017,272 - 10,017,475 (+)MAPPERmRatBN7.2
Rnor_6.01710,553,102 - 10,553,304NCBIRnor6.0
Rnor_5.01712,680,851 - 12,681,053UniSTSRnor5.0
RGSC_v3.41716,079,381 - 16,079,583UniSTSRGSC3.4
Celera1710,090,264 - 10,090,466UniSTS
RH 3.4 Map1797.2UniSTS
Cytogenetic Map17p14UniSTS
CLTB_4592  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21710,018,803 - 10,019,416 (+)MAPPERmRatBN7.2
Rnor_6.01710,554,633 - 10,555,245NCBIRnor6.0
Rnor_5.01712,682,382 - 12,682,994UniSTSRnor5.0
RGSC_v3.41716,080,912 - 16,081,524UniSTSRGSC3.4
Celera1710,091,795 - 10,092,407UniSTS
Cytogenetic Map17p14UniSTS


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17131990913Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17137830672Rat
2303561Bw91Body weight QTL 912body mass (VT:0001259)body weight (CMO:0000012)17886846253868462Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1582199Insul5Insulin level QTL 53.40.0119blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)17920136523653323Rat
1582208Kidm32Kidney mass QTL 323.90.0018kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17920136523653323Rat
1582224Epfw4Epididymal fat weight QTL 43.50.0058epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)17920136523653323Rat
1582225Bw67Body weight QTL 676.20.0001body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582226Bw64Body weight QTL 644.20.0017body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582241Bw70Body weight QTL 704.60.0003body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582245Bw73Body weight QTL 734.60.0004body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582258Bw76Body weight QTL 764.60.0005body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1581553Pur14Proteinuria QTL 145.30.0001total urine protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)17797996816317111Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)17429913021293263Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17429913021293263Rat
631499Stl1Serum triglyceride level QTL 13.6blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)17327139827389946Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17211514934551001Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)17211514921881669Rat
2293648Bmd31Bone mineral density QTL 314.50.0001femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)17435448727028127Rat
2293664Bmd28Bone mineral density QTL 285.10.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)17435448727028127Rat
1354596Bw32Body weight QTL 324.5body mass (VT:0001259)body weight (CMO:0000012)17429913060781592Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17429913035837242Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17429913069599340Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17429913069599340Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17429913069599340Rat
2300002Iddm36Insulin dependent diabetes mellitus QTL 361.98blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)17999128640540197Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17160781592Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17452803849528038Rat
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122871563Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17452803849528038Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131701463Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:452
Count of miRNA genes:152
Interacting mature miRNAs:168
Transcripts:ENSRNOT00000023651, ENSRNOT00000032402
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.


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 39 11 8
Low 2
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000023651   ⟹   ENSRNOP00000023651
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1710,001,513 - 10,019,169 (+)Ensembl
Rnor_6.0 Ensembl1710,537,365 - 10,554,989 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000115689   ⟹   ENSRNOP00000085439
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1710,001,584 - 10,019,160 (+)Ensembl
RefSeq Acc Id: NM_053835   ⟹   NP_446287
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21710,001,603 - 10,019,169 (+)NCBI
Rnor_6.01710,537,439 - 10,554,998 (+)NCBI
Rnor_5.01712,665,115 - 12,682,779 (+)NCBI
RGSC_v3.41716,063,715 - 16,081,277 (+)RGD
Celera1710,074,602 - 10,092,160 (+)RGD
Sequence:
RefSeq Acc Id: XM_006253595   ⟹   XP_006253657
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21710,001,512 - 10,019,201 (+)NCBI
Rnor_6.01710,537,348 - 10,554,999 (+)NCBI
Rnor_5.01712,665,115 - 12,682,779 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_446287   ⟸   NM_053835
- UniProtKB: P08082 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006253657   ⟸   XM_006253595
- Peptide Label: isoform X1
- UniProtKB: P08082 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000023651   ⟸   ENSRNOT00000023651
RefSeq Acc Id: ENSRNOP00000085439   ⟸   ENSRNOT00000115689

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P08082-F1-model_v2 AlphaFold P08082 1-229 view protein structure

Transcriptome

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

Promoters
RGD ID:13700321
Promoter ID:EPDNEW_R10844
Type:initiation region
Name:Cltb_1
Description:clathrin, light chain B
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_6.01710,537,387 - 10,537,447EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
Damaging Variants


Assembly: Rnor_6.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
17 10549444 10549445 A T snv SHR/OlalpcvMcwi (2019)


Assembly: Rnor_5.0
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
17 12677193 12677194 A T snv SHR/OlaIpcvPrin (KNAW), SHR/OlaIpcv (KNAW)


Assembly: RGSC_v3.4
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
17 16075723 16075724 A T snv SHR/OlaIpcv (KNAW)


Assembly: mRatBN7.2
Chromosome Start Pos End Pos Reference Nucleotide Variant Nucleotide Variant Type Strain
17 10013614 10013615 A T snv SHR/OlalpcvMcwi (2019)


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621353 AgrOrtholog
BioCyc Gene G2FUF-10176 BioCyc
Ensembl Genes ENSRNOG00000017506 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000023651 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOP00000085439 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000023651 ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOT00000115689 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro Clathrin_L-chain UniProtKB/Swiss-Prot
KEGG Report rno:116561 UniProtKB/Swiss-Prot
NCBI Gene 116561 ENTREZGENE
PANTHER PTHR10639 UniProtKB/Swiss-Prot
Pfam Clathrin_lg_ch UniProtKB/Swiss-Prot
PhenoGen Cltb PhenoGen
PROSITE CLATHRIN_LIGHT_CHN_1 UniProtKB/Swiss-Prot
  CLATHRIN_LIGHT_CHN_2 UniProtKB/Swiss-Prot
UniProt CLCB_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-08-01 Cltb  clathrin, light chain B  Cltb  clathrin, light chain (Lcb)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-09 Cltb  clathrin, light chain (Lcb)  Cltb  clathrin, light polypeptide (Lcb)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-09-10 Cltb  clathrin, light polypeptide (Lcb)      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Cltb  clathrin, light polypeptide (Lcb)      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression alternatively spliced isoform Lcb2 is expressed specifically in brain neurons, while isoform Lcb3 is expressed in other tissues 728399
gene_transcript Lcb2 and Lcb3 are alternatively spliced isoforms 728399