early conceptus |
embryo ectoderm |
embryo endoderm |
embryo mesoderm |
embryo mesenchyme |
extraembryonic component |
alimentary system |
auditory system |
branchial arches |
cardiovascular system |
connective tissue |
endocrine system |
exocrine system |
hemolymphoid system |
integumental system |
limbs |
liver and biliary system |
musculoskeletal system |
nervous system |
olfactory system |
reproductive system |
respiratory system |
urinary system |
visual system |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Transcription Start Site | Location | Distance from Gene 5'-end |
| Tssr64051 | Chr6:145021832-145021833 (-) | 50 bp |
| Tssr64050 | Chr6:145021816-145021829 (-) | 60 bp |
| Tssr64049 | Chr6:145021792-145021814 (-) | 80 bp |
| Tssr64048 | Chr6:145021758-145021787 (-) | 110 bp |
| Tssr64047 | Chr6:145021686-145021744 (-) | 168 bp |
| Tssr64046 | Chr6:145021664-145021680 (-) | 211 bp |
| Tssr2055 | Chr6:144994773-144994805 (-) | 27,094 bp |
| Tssr64045 | Chr6:144994565-144994579 (-) | 27,311 bp |
| Tssr64044 | Chr6:144994535-144994547 (-) | 27,342 bp |
| Tssr64043 | Chr6:144994475-144994531 (-) | 27,380 bp |
| Tssr64042 | Chr6:144994456-144994473 (-) | 27,418 bp |
| Tssr64041 | Chr6:144994436-144994455 (-) | 27,437 bp |
| Tssr64040 | Chr6:144994421-144994432 (-) | 27,456 bp |
| Tssr64039 | Chr6:144994402-144994413 (-) | 27,475 bp |
| Tssr64038 | Chr6:144994382-144994396 (-) | 27,494 bp |
| Tssr64037 | Chr6:144994327-144994368 (-) | 27,535 bp |
| Tssr64036 | Chr6:144994311-144994318 (-) | 27,568 bp |
| Tssr64035 | Chr6:144993451-144993483 (-) | 28,416 bp |
| Tssr64034 | Chr6:144993390-144993423 (-) | 28,476 bp |
| Tssr64033 | Chr6:144993362-144993386 (-) | 28,509 bp |
| Tssr64032 | Chr6:144993331-144993340 (-) | 28,547 bp |
| Tssr64031 | Chr6:144993256-144993280 (-) | 28,615 bp |
| Tssr64030 | Chr6:144993231-144993249 (-) | 28,643 bp |
| Tssr64029 | Chr6:144980327-144980354 (-) | 41,542 bp |
| Tssr64028 | Chr6:144978534-144978573 (-) | 43,329 bp |
| Tssr64027 | Chr6:144976119-144976124 (-) | 45,761 bp |
| Tssr64026 | Chr6:144974344-144974371 (-) | 47,525 bp |
| QTL | Genetic Location* | Genome Location (GRCm39) | Reference | QTL Note |
| Pas1 | Chr6, 78.22 cM | J:78525 | Microarray gene expression analysis was used to identify candidate genes for tumor resistant and tumor susceptibility QTLs Par8,2,3,4 and and Pas1-4, respectively. Transcripts found within the flanking markers of each QTL were identified and matched to transcripts from Affymetrix probe sets. RNA from A/J, BALB/cJ, C57BL/6J, and SM/J were used for analysis. Pas1 is located between 48.2 cM and 75 cM on mouse Chromosome 6 and was identified in a cross between A/J and C57BL/6J. Candidate oncogenic genes identified by microarray analysis are hes related protein (**Note- this gene is not found in MGD), Ppih (cyclophilin H **Note-this gene is positioned on mouse Chromosome 4 in MGD), Ptpro, Mglap, Recql, and Bcat1 (ECA39). Other candidate genes identified via differential expression are Ccnd2 (cyclin D2) and high mobility group protein 2A,4 (**Note-this gene is not found in MGD). K-ras, a positional candidate gene, did not show significantly different expression between A/J and C57BL/6J. Pas2 is located between 17 cMand 23.2 cM on mouse Chromosome 17 and was identified in crosses involving A/J and C57BL/6J. Candidate oncogenic genes identified by microarray analysis are Notch4, Hnrpk (**Note-this gene is positioned on mouse Chromosome 13 in MGD), and Enpp4. Other candidate genes identified via differential expression are Cdc5l, Tapbp (tapasin), H2-Ke2, Rbx1 (regulator of cullins 1 **Note- this gene is found on mouse Chromosome 15 in MGD), Psors1c2, H2-Ke6, and H2-M9. Positional candidate genes Tnf (Tnfa) and Lta (Tnfb) did not show significantly different expression between A/J and C57BL/6J. Pas3 is located between 2 cM and 25 cM on mouse Chromosome 19 and was identified in a cross between A/J and C57BL/6J. Candidate oncogenic genes identified by microarray analysis are golgi specific Gbf1 (brefeldin A resistance factor 1) and Sema4g. Other candidate genes identified via differential expression are Pdcd4, Adrb1, and Cdc25l. Pas4 is located between 42 cM and 72 cM on mouse Chromosome 9 and was identified in a cross between A/J and C57BL/6J. Candidate oncogenic genes identified by microarray analysis are Nck1, Pthr1, and Topbp1. Candidate tumor suppressor genes for Pas4 are G protein alpha I 2 (**Note-this gene is not found in MGD), Cdk5 (**Note-this gene is positioned on mouse Chromosome 5 in MGD), Smarcd3 (**Note-this gene is positioned on mouse Chromosome 5 in MGD), and Nckipsd. Another candidate gene identified via differential expression is Stag1. Par1 is located between 37 cM and 59 cM on mouse Chromosome 11 and was identified in a cross between A/J and SM/J. Candidate oncogenic genes identified by microarray analysis are Alox12 (12-lipoxygenase), Zfp617 (zinc finger protein s11-6), Grn, and Rpl29 (**Note-this gene is positioned on mouse Chromosome 9 in MGD). A tumor suppressor candidate gene for Par1 is Spop. 02.05.2016 Curator Note: Because Par1 was originally mapped in J:32079 using an (A/J x M. spretus) x C57BL/6J interspecific backcross, which differs from the cross used here, we have equated this QTL with Par8 which was mapped using A/J and SM/J mice, see J:41849. Par2 is located between 32 cM and 57 cM on mouse Chromosome 18 and was identified in a cross between A/J and BALB/cJ. Candidate oncogenic genes identified by microarray analysis are Adrb2, Mbd2, Htr4, Hmgb1-rs12, and Iigp1. Dcc is an expected candidate gene of Par2 but its expression pattern (A/J=high expression) is not consistent with its effect on tumor resistance/susceptibility. Mc2r is another candidate gene identified via differential gene expression between A/J and SM/J. Par3 is located between 13 cM and 44 cM on mouse Chromosome 12 and was identified in a cross between A/J and SM/J. Only one candidate oncogenic gene was identified for Par3. This is placental growth factor, Pgf. Par4 is located between 10.6 cM and 42.5 cM on mouse Chromosome 4 and was identified in a cross between A/J and BALB/cJ. Candidate tumor suppressor genes identified via differential gene expression are Cdkn2a, Egfl5, Ambp (bikunin), Pole3, Tyrp1, Ifnab, and Igfbpl1.Candidate oncogenes are T complex protein 1 alpha (**Note-this gene is not found in MGD) and Stmn1. Another candidate gene identified via differential expression between A/J and SM/J is Ptprd. | |
| Pas15 | Chr6, syntenic | Chr6:145180868-145181064 | J:90940 | The Pas15 lung tumor susceptibility locus was localized to a 486 kb region on mouse Chromosome 6 by fine mapping of the recombinant congenic (RC) strain CXB5/ByJ. CXB5/ByJ is derived from BALB/cJ and C57BL/6J progenitor strains and is highly resistant to lung tumor development. Genotyping of 65 markers in 29 inbred strains for a 1 Mb region around Pas15 revealed a core haplotype that is either C57BL/6-derived or A/J-derived. The Pas1 critical region contains 6 candidate genes: Bcat1, Lrmp, Kras, Casc1, 4933403M22Rik, and 4930469P12Rik. In lung tumors from (A/J x C57BL/6J)F1 mice, Casc1 appears to be expressed solely from the A/J allele and expression of 4933403M22Rik appears to be completely downregulated. |
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO) |
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last database update 04/16/2024 MGI 6.23 |
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