Chtf18 (chromosome transmission fidelity factor 18) - Rat Genome Database

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Gene: Chtf18 (chromosome transmission fidelity factor 18) Rattus norvegicus
Analyze
Symbol: Chtf18
Name: chromosome transmission fidelity factor 18
RGD ID: 1310473
Description: Predicted to enable DNA binding activity. Predicted to contribute to DNA clamp loader activity and single-stranded DNA helicase activity. Predicted to be involved in DNA duplex unwinding. Predicted to act upstream of or within germ cell development; meiotic nuclear division; and negative regulation of chromosome segregation. Predicted to be located in cytosol; male germ cell nucleus; and nucleoplasm. Predicted to be part of Ctf18 RFC-like complex. Predicted to be active in nucleus. Orthologous to human CHTF18 (chromosome transmission fidelity factor 18); INTERACTS WITH 1-naphthyl isothiocyanate; 17alpha-ethynylestradiol; 17beta-estradiol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: chromosome transmission fidelity protein 18 homolog; CTF18, chromosome transmission fidelity factor 18 homolog; CTF18, chromosome transmission fidelity factor 18 homolog (S. cerevisiae); LOC287146
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
mRatBN7.21014,743,006 - 14,751,044 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1014,742,621 - 14,751,050 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1019,481,987 - 19,489,994 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01018,970,865 - 18,978,872 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01014,471,186 - 14,479,222 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01015,090,762 - 15,098,825 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1015,090,316 - 15,098,791 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01014,903,483 - 14,911,536 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41014,988,146 - 14,996,182 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11014,988,169 - 14,996,107 (-)NCBI
Celera1014,412,480 - 14,420,516 (-)NCBICelera
Cytogenetic Map10q12NCBI
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
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
Ctf18 RFC-like complex  (ISO)
cytoplasm  (ISO)
cytosol  (IEA,ISO)
male germ cell nucleus  (ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA,ISO)

Molecular Function

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12930902   PMID:18250106   PMID:19946888   PMID:23133398  


Genomics

Comparative Map Data
Chtf18
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21014,743,006 - 14,751,044 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1014,742,621 - 14,751,050 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1019,481,987 - 19,489,994 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01018,970,865 - 18,978,872 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01014,471,186 - 14,479,222 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01015,090,762 - 15,098,825 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1015,090,316 - 15,098,791 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01014,903,483 - 14,911,536 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41014,988,146 - 14,996,182 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11014,988,169 - 14,996,107 (-)NCBI
Celera1014,412,480 - 14,420,516 (-)NCBICelera
Cytogenetic Map10q12NCBI
CHTF18
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3816788,620 - 798,074 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl16788,046 - 800,737 (+)EnsemblGRCh38hg38GRCh38
GRCh3716838,620 - 848,074 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3616778,623 - 788,075 (+)NCBINCBI36Build 36hg18NCBI36
Build 3416778,647 - 788,073NCBI
Celera161,038,508 - 1,047,960 (+)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef16760,595 - 770,642 (+)NCBIHuRef
CHM1_116838,568 - 848,013 (+)NCBICHM1_1
T2T-CHM13v2.016793,329 - 802,898 (+)NCBIT2T-CHM13v2.0
Chtf18
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391725,938,004 - 25,946,409 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1725,937,900 - 25,946,393 (-)EnsemblGRCm39 Ensembl
GRCm381725,719,030 - 25,727,434 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1725,718,926 - 25,727,419 (-)EnsemblGRCm38mm10GRCm38
MGSCv371725,855,975 - 25,864,360 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361725,446,630 - 25,455,002 (-)NCBIMGSCv36mm8
Celera1726,251,332 - 26,259,717 (-)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1712.83NCBI
Chtf18
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495544216,414,564 - 16,423,386 (-)NCBIChiLan1.0ChiLan1.0
CHTF18
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1164,814,746 - 4,824,715 (+)NCBINHGRI_mPanPan1
PanPan1.116803,587 - 813,271 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl16803,340 - 813,170 (+)Ensemblpanpan1.1panPan2
CHTF18
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1639,806,924 - 39,815,145 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl639,806,673 - 39,815,333 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha641,071,585 - 41,079,833 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0640,150,043 - 40,158,288 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl640,150,072 - 40,158,359 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1639,838,675 - 39,846,919 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0639,798,905 - 39,807,132 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0640,277,759 - 40,286,009 (-)NCBIUU_Cfam_GSD_1.0
Chtf18
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344112,134,527 - 112,143,018 (-)NCBIHiC_Itri_2
SpeTri2.0NW_004936501232,387 - 240,866 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHTF18
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl341,000,690 - 41,009,589 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1341,000,688 - 41,009,588 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2341,468,333 - 41,476,349 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CHTF18
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.15708,240 - 718,026 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl5708,341 - 717,924 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606830,416,350 - 30,426,194 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Chtf18
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249131,594,754 - 1,603,587 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Chtf18
89 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:96
Count of miRNA genes:86
Interacting mature miRNAs:92
Transcripts:ENSRNOT00000026139
Prediction methods:Microtar, Miranda, Rnahybrid
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
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10124158324Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
1576304Schws7Schwannoma susceptibility QTL 70.0115nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)10476552719816042Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402717245662Rat
737820Alc9Alcohol consumption QTL 92.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402719233348Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10615418215990232Rat
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)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat
2301967Cm73Cardiac mass QTL 734.55heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)101448701189062041Rat
631268Cia21Collagen induced arthritis QTL 213.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)1014487011104060283Rat
2316949Gluco60Glucose level QTL 603.7blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1014487011107057807Rat


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 18 16 14 2 14 22 14 26
Low 3 22 33 19 17 19 2 3 52 21 15 11 2
Below cutoff 3 8 8 8 6 8 6

Sequence


RefSeq Acc Id: ENSRNOT00000026139   ⟹   ENSRNOP00000026139
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1014,742,621 - 14,751,050 (-)Ensembl
Rnor_6.0 Ensembl1015,090,316 - 15,098,791 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000099898   ⟹   ENSRNOP00000089836
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1014,743,006 - 14,751,042 (-)Ensembl
RefSeq Acc Id: NM_001105773   ⟹   NP_001099243
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21014,743,006 - 14,751,042 (-)NCBI
Rnor_6.01015,090,762 - 15,098,798 (-)NCBI
Rnor_5.01014,903,483 - 14,911,536 (-)NCBI
RGSC_v3.41014,988,146 - 14,996,182 (-)RGD
Celera1014,412,480 - 14,420,516 (-)RGD
Sequence:
RefSeq Acc Id: XM_006245936   ⟹   XP_006245998
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21014,743,022 - 14,751,044 (-)NCBI
Rnor_6.01015,090,778 - 15,098,824 (-)NCBI
Rnor_5.01014,903,483 - 14,911,536 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017597066   ⟹   XP_017452555
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21014,743,343 - 14,751,044 (-)NCBI
Rnor_6.01015,091,099 - 15,098,825 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001099243 (Get FASTA)   NCBI Sequence Viewer  
  XP_006245998 (Get FASTA)   NCBI Sequence Viewer  
  XP_017452555 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM03944 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000026139
  ENSRNOP00000026139.7
  ENSRNOP00000089836
  ENSRNOP00000089836.1
RefSeq Acc Id: NP_001099243   ⟸   NM_001105773
- UniProtKB: A0A8I6ALU6 (UniProtKB/TrEMBL),   A6HD39 (UniProtKB/TrEMBL),   D4AC99 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006245998   ⟸   XM_006245936
- Peptide Label: isoform X1
- UniProtKB: D4AC99 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017452555   ⟸   XM_017597066
- Peptide Label: isoform X2
- UniProtKB: D4AC99 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000026139   ⟸   ENSRNOT00000026139
RefSeq Acc Id: ENSRNOP00000089836   ⟸   ENSRNOT00000099898
Protein Domains
AAA+ ATPase

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AC99-F1-model_v2 AlphaFold D4AC99 1-969 view protein structure

Transcriptome

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

Promoters
RGD ID:13697054
Promoter ID:EPDNEW_R7579
Type:multiple initiation site
Name:Chtf18_1
Description:chromosome transmission fidelity factor 18
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_6.01015,098,807 - 15,098,867EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310473 AgrOrtholog
BioCyc Gene G2FUF-25766 BioCyc
Ensembl Genes ENSRNOG00000019174 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000026139 ENTREZGENE
  ENSRNOT00000026139.7 UniProtKB/TrEMBL
  ENSRNOT00000099898 ENTREZGENE
  ENSRNOT00000099898.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.8.60 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
InterPro ATPase_AAA+_core UniProtKB/TrEMBL
  ATPase_AAA_core UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  RFC_lid UniProtKB/TrEMBL
KEGG Report rno:287146 UniProtKB/TrEMBL
NCBI Gene 287146 ENTREZGENE
PANTHER CHROMOSOME TRANSMISSION FIDELITY FACTOR 18 UniProtKB/TrEMBL
  CHROMOSOME TRANSMISSION FIDELITY PROTEIN 18 HOMOLOG UniProtKB/TrEMBL
  P-LOOP CONTAINING NUCLEOSIDE TRIPHOSPHATE HYDROLASES SUPERFAMILY PROTEIN UniProtKB/TrEMBL
  P-LOOP CONTAINING NUCLEOSIDE TRIPHOSPHATE HYDROLASES SUPERFAMILY PROTEIN UniProtKB/TrEMBL
Pfam AAA UniProtKB/TrEMBL
PhenoGen Chtf18 PhenoGen
RatGTEx ENSRNOG00000019174 RatGTEx
SMART AAA UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
UniProt A0A8I6ALU6 ENTREZGENE, UniProtKB/TrEMBL
  A6HD39 ENTREZGENE, UniProtKB/TrEMBL
  D4AC99 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-06-24 Chtf18  chromosome transmission fidelity factor 18  Chtf18  CTF18, chromosome transmission fidelity factor 18 homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Chtf18  CTF18, chromosome transmission fidelity factor 18 homolog (S. cerevisiae)   Chtf18_predicted  CTF18, chromosome transmission fidelity factor 18 homolog (S. cerevisiae) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Chtf18_predicted  CTF18, chromosome transmission fidelity factor 18 homolog (S. cerevisiae) (predicted)      Symbol and Name status set to approved 70820 APPROVED