Ccdc50-ps (Ccdc50 retrotransposed pseudogene) - Rat Genome Database

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Gene: Ccdc50-ps (Ccdc50 retrotransposed pseudogene) Mus musculus
Analyze
Symbol: Ccdc50-ps
Name: Ccdc50 retrotransposed pseudogene
RGD ID: 2294488
MGI Page MGI
Description:
Type: pseudo (Ensembl: processed_pseudogene)
RefSeq Status: INFERRED
Previously known as: EG277707; Gm12699
Related Functional Gene: Ccdc50  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394100,423,767 - 100,425,351 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4100,424,305 - 100,425,245 (-)EnsemblGRCm39 Ensembl
GRCm384100,566,570 - 100,568,154 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4100,567,108 - 100,568,048 (-)EnsemblGRCm38mm10GRCm38
MGSCv374100,239,075 - 100,240,859 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv364100,064,502 - 100,066,086 (+)NCBIMGSCv36mm8
Celera498,926,460 - 98,928,246 (-)NCBICelera
Cytogenetic Map4C6NCBI
cM Map445.76NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References
Additional References at PubMed
PMID:14610273  


Genomics

Variants

.
Variants in Ccdc50-ps
46 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:114
Count of miRNA genes:99
Interacting mature miRNAs:100
Transcripts:ENSMUST00000118044
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
11567249Elorr3_methanol induced loss of righting response 3 (mouse)43722677156268235Mouse
4142047Mvwf3_mmodifier of von Willebrand factor 3 (mouse)Not determined14010457117072206Mouse
26884449Sklq2_mskull length QTL 2, 5 week (mouse)436700000128993793Mouse
27226724Tibw2_mtibia width 2, proximal, 10 week (mouse)443000000108357197Mouse
1558948Ath8_matherosclerosis 8 (mouse)Not determined445658442105156995Mouse
1357895Ctrcts_mcataract severity (mouse)Not determined445709925138342753Mouse
1300966Pabr2_mplasma apolipoprotein B (human) regulator 2 (mouse)Not determined446332646105801860Mouse
11532714Sluc43_msusceptibility to lung cancer 43 (mouse)446642108123127211Mouse
4141900Skts-fp1_mskin tumor susceptibility in FVB and PWK 1 (mouse)Not determined453550839124055180Mouse
26884434Zlq1_mzygomatic length QTL 1, 5 week (mouse)453700000103257197Mouse
27095905Scvln3_msacral vertebrae length 2, 5 week (mouse)455600000128993793Mouse
26884437Sklq13_mskull length QTL 13, 16 week (mouse)457700000155684457Mouse
27095939Ulnl9_mulna length 9, 16 week (mouse)465318237118857197Mouse
25314312Syncl2_msynaptonemal complex length 2 (mouse)465718237146584457Mouse
1301757Tlsr4_mthymic lymphoma suppressor region 4 (mouse)Not determined466757130100757258Mouse
1357561Mbsyd_mmetabolic syndrome (mouse)Not determined466888445100888588Mouse
27095900Scvln9_msacral vertebrae length 2, 10 week (mouse)468018237107157197Mouse
27095917Scvln14_msacral vertebrae length 2, 16 week (mouse)468018237130277062Mouse
26884445Sklq7_mskull length QTL 7, 10 week (mouse)468018237150884457Mouse
27095924Pglq2_mpelvic girdle length QTL 2, 5 week (mouse)469118237130727311Mouse
1302057Pgia27_mproteoglycan induced arthritis 27 (mouse)Not determined470067227104067464Mouse
12879897Berr4_mberghei resistance locus 4 (mouse)471982069105982216Mouse
1302044Nss1_mNOD Sjogren's syndrome 1 (mouse)Not determined471982069105982216Mouse
1301739Pitm2_mprion incubation time 2 (mouse)Not determined471982069105982216Mouse
1302031Bulb1_mbulb size 1 (mouse)Not determined474033887108034029Mouse
1301597Anxty_manxiety (mouse)Not determined474137574128009280Mouse
10412193Plep_mplasma lepin levels (mouse)Not determined474444699108444983Mouse
11532700Sluc43d_msusceptibility to lung cancer 43d (mouse)474444699108444983Mouse
11532701Sluc43e_msusceptibility to lung cancer 43e (mouse)474444699108444983Mouse
11532702Sluc43f_msusceptibility to lung cancer 43f (mouse)474444699108444983Mouse
11532703Sluc43g_msusceptibility to lung cancer 43g (mouse)474444699108444983Mouse
11532704Sluc43a_msusceptibility to lung cancer 43a (mouse)474444699108444983Mouse
11532705Sluc43b_msusceptibility to lung cancer 43b (mouse)474444699108444983Mouse
11532706Sluc43c_msusceptibility to lung cancer 43c (mouse)474444699108444983Mouse
11532707Sluc43h_msusceptibility to lung cancer 43h (mouse)474444699108444983Mouse
11532708Sluc43i_msusceptibility to lung cancer 43i (mouse)474444699108444983Mouse
26884431Zlq8_mzygomatic length QTL 8, 16 week (mouse)474718237108357197Mouse
1301545Gauc_mglucose area under curve (mouse)Not determined476763107110763305Mouse
1300697Sle2_msystemic lupus erythmatosus susceptibility 2 (mouse)Not determined477957579111957775Mouse
11039504Ltpr4a_mLeishmania tropica response 4a (mouse)479365751113365867Mouse
11039505Ltpr4c_mLeishmania tropica response 4c (mouse)479365751113365867Mouse
11039506Ltpr4b_mLeishmania tropica response 4b (mouse)479365751113365867Mouse
11039517Ltpr4_mLeishmania tropica response 4 (mouse)479365751113365867Mouse
12904933Edlmmq3_mextensor digitorum longus muscle mass QTL 3 (mouse)481213991115213991Mouse
1302204Spm1_msplenomegaly modifier (mouse)Not determined482244395116244582Mouse
27095921Pglq12_mpelvic girdle length QTL 12, 16 week (mouse)483118237108357197Mouse
1301867Idd11_minsulin dependent diabetes susceptibility 11 (mouse)Not determined483604870117605006Mouse
27226787Feml14_mfemur length 14, 10 week (mouse)484918237107157197Mouse
26884435Zlq4_mzygomatic length QTL 4, 10 week (mouse)485118237104957197Mouse
1357726Lnopy1_mlens opacity 1 (mouse)Not determined485428838119429037Mouse
1301556Cd4vts1_mCD4 virgin T cell subset 1 (mouse)Not determined485428838119429037Mouse
1301930Papg1_mpulmonary adenoma progression 1 (mouse)Not determined485781167119781279Mouse
1301118Bbaa23_mB.burgdorferi-associated arthritis 23 (mouse)Not determined485781167119781279Mouse
27226801Feml6_mfemur length 6, 5 week (mouse)487518237103257197Mouse
27226746Metcl8_mmetatarsal-calcaneal length 8, 10 week (mouse)487518237107157197Mouse
27226739Metcl14_mmetatarsal-calcaneal length 14, 16 week (mouse)487518237108357197Mouse
27095927Pglq7_mpelvic girdle length QTL 7, 10 week (mouse)488118237108357197Mouse
27226716Metcl2_mmetatarsal-calcaneal length 2, 5 week (mouse)488118237118557197Mouse
27226770Tibl11_mtibia length 11, 10 week (mouse)488518237108357197Mouse
27226766Tibl17_mtibia length 17, 16 week (mouse)488518237108457197Mouse
11532738Abd1_mautoimmune biliary disease 1 (mouse)488982069116271120Mouse
4141623W6q13_mweight 6 weeks QTL 13 (mouse)Not determined88982069140468203Mouse
4141549W10q10_mweight 10 weeks QTL 10 (mouse)Not determined88982069140468203Mouse
4141093W3q17_mweight 3 weeks QTL 17 (mouse)Not determined88982069140468203Mouse
39128212Lwq21_mliver weight QTL 21 (mouse)488982069140468203Mouse
1301823Bmd7_mbone mineral density 7 (mouse)Not determined488982069151654550Mouse
13824982Svwq1_mseminal vesicle weight QTL 1 (mouse)489888237118857197Mouse
1300918Stheal4_msoft tissue heal 4 (mouse)Not determined489969627123969747Mouse
11553870Cmmm_mcarcinoma modifier of MSM (mouse)490590668124590781Mouse
15039368Nmrs19_mNAFLD-associated magnetic resonance shift 19 (mouse)490882780124882780Mouse
27226760Feml19_mfemur length 19, 16 week (mouse)490888237108457197Mouse
27226782Tibl2_mtibia length 2, 5 week (mouse)490888237111257197Mouse
13208562Wght7_mweight 7 (mouse)490888237148084457Mouse
12904002Opfaq9_mopen field activity QTL 9 (mouse)492975790126975790Mouse
1301731Cafq2_mcaffeine metabolism QTL 2 (mouse)Not determined494732255128732454Mouse
1301233Sbw2_msplenomegaly-NZB x NZW 2 (mouse)Not determined494957579128009280Mouse
1301815Sles2_msystemic lupus erythmatosus suppressor 2 (mouse)Not determined494957579150676858Mouse
14696687Gdq1_mgrooming duration QTL 1, males (mouse)496888237111857197Mouse
1300580Lbw2_mlupus NZB x NZW 2 (mouse)Not determined498545539128009280Mouse
1301106Skts7_mskin tumor susceptibility 7 (mouse)Not determined4100071971134072206Mouse
1301847Fecq2_mfecundity QTL 2 (mouse)Not determined4100071971134072206Mouse

Markers in Region
AW048328  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm384100,567,939 - 100,568,032UniSTSGRCm38
MGSCv374100,240,544 - 100,240,637UniSTSGRCm37
Celera498,927,931 - 98,928,024UniSTS
Cytogenetic Map4C6UniSTS
Cytogenetic Map16B2UniSTS
cM Map1619.6UniSTS
Whitehead/MRC_RH41407.23UniSTS
Ccdc50  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm384100,566,975 - 100,568,050UniSTSGRCm38
MGSCv374100,239,580 - 100,240,655UniSTSGRCm37
Cytogenetic Map16B2UniSTS
Cytogenetic Map4C6UniSTS


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts NG_005190 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AL670290 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSMUST00000118044
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl4100,424,305 - 100,425,245 (-)Ensembl
GRCm38.p6 Ensembl4100,567,108 - 100,568,048 (-)Ensembl

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSMUSG00000081553 Ensembl
MGD MGI:3651098 ENTREZGENE
NCBI Gene 277707 ENTREZGENE
PhenoGen Ccdc50-ps PhenoGen


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-11-05 Ccdc50-ps  Ccdc50 retrotransposed pseudogene  Gm12699  predicted gene 12699  Symbol and/or name change 5135510 APPROVED