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 |
| Tssr31282 | Chr3:109247655-109247684 (+) | -299 bp |
| Tssr31283 | Chr3:109247780-109247789 (+) | -184 bp |
| Tssr31284 | Chr3:109247943-109247962 (+) | -16 bp |
| Tssr31285 | Chr3:109247978-109247986 (+) | 13 bp |
| Tssr31286 | Chr3:109247987-109248008 (+) | 29 bp |
| Tssr31287 | Chr3:109248019-109248031 (+) | 56 bp |
| Tssr31288 | Chr3:109248047-109248059 (+) | 84 bp |
| Tssr31289 | Chr3:109248070-109248103 (+) | 118 bp |
| Tssr31290 | Chr3:109248109-109248136 (+) | 154 bp |
| Tssr31291 | Chr3:109279237-109279241 (+) | 31,270 bp |
| Tssr31292 | Chr3:109287987-109287993 (+) | 40,021 bp |
| Tssr31293 | Chr3:109293985-109293997 (+) | 46,022 bp |
| Tssr31295 | Chr3:109415127-109415140 (+) | 167,165 bp |
| Tssr31296 | Chr3:109416462-109416501 (+) | 168,513 bp |
| Tssr31297 | Chr3:109431557-109431571 (+) | 183,595 bp |
| Tssr31298 | Chr3:109464255-109464261 (+) | 216,289 bp |
| Tssr31299 | Chr3:109468027-109468031 (+) | 220,060 bp |
| Tssr31300 | Chr3:109481285-109481306 (+) | 233,327 bp |
| Tssr31301 | Chr3:109481317-109481333 (+) | 233,356 bp |
| Tssr31302 | Chr3:109481335-109481342 (+) | 233,370 bp |
| Tssr31303 | Chr3:109505858-109505862 (+) | 257,891 bp |
| Tssr31304 | Chr3:109591886-109591892 (+) | 343,920 bp |
| QTL | Genetic Location* | Genome Location (GRCm39) | Reference | QTL Note |
| Cia5 | Chr3, 37.01 cM | Chr3:83046658-83046795 | J:101473 | Microarray gene chip technology was used to identify differentially expressed candidate genes for the arthritis QTL on mouse Chromosome 3 named Cia5. The Cia5 QTL microarray chip contains 163 genes found between 95.3 Mb and 109.7 Mb on mouse Chromosome 3. (This region spans markers D3Mit101 to D3Mit103.) Gene expression in lymph nodes, spleen, and paws was compared between the resistant Cia5 congenic and susceptible B10.RIII background strain. Animals were immunized with 100 ug of bovine CII at 12 weeks of age. Gene expression was evaluated at 0, 6, and 12 days after immunization. A total of 26 genes in the Cia5 locus were found to have significant expression differences (P<0.05) between the congenic and B10.RIII. These genes were found in 2 clusters corresponding to Cia21 and Cia22. Some notable candidate genes are described below. Chi3l3 (50.5 cM; 105.9 Mb) is downregulated in congenic animals in spleen (all time points) and lymph nodes (day 6). Vav3 (109.1 Mb) is upregulated in congenic animals in spleen (all time points), lymph nodes (day 0), and paws (days 6 and 12). Gpr89 (96.3 Mb) is upregulated in congenic animals in spleen (all time points) and lymph nodes (day 0). Ptpn22 (103.2 Mb) is downregulated in congenic animals in lymph nodes (day 0). Cd53 (50.5 cM; 106.5 Mb) is upregulated in B10.RIII in spleen (day 12) and lymph nodes (day 0). Gstm1 (107.8 Mb) is upregulated in B10.RIII in spleen and lymph nodes at day 0, but is downregulated after immunization. |
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 11/19/2024 MGI 6.24 |
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