Positions of Genes in the Abpa/b/g Orthologous Genomic Region Between Scn1b and Uble1b in the Three Species Mus musculus, Rattus norvegicus, and Homo sapiens
|
Gene name |
Start |
Finish |
Stranda |
Pseudogeneb |
Median KA/KSc |
Celera comparisond |
|---|---|---|---|---|---|---|
| Mouse Chromosome 7e | ||||||
| Scn1b | 22722387 | 22733263 | - | — | — | |
| Abpa1 | 22864062 | 22865250 | - | 1.261 | Cg_a.ac1, Identical | |
| Abpbg1 | 22872730 | 22874741 | + | 0.925 | Cg_bg.ac1, sense | |
| Abpa2 | 22899391 | 22900549 | - | 0.749 | Cg_a.ab1, Identical | |
| Abpbg2 | 22911541 | 22913573 | + | 0.513 | Cg_bg.ab2, Identical | |
| Abpbg12 | 22968351 | 22971550 | - | 0.894 | Cg_bg.ab1, Missense | |
| Abpbg3 | 23059588 | 23060737 | - | ψ | 1.103 | Cg_bg.aa1, Identical, ψ |
| Abpa3 | 23067244 | 23068432 | + | ψ | 0.795 | Cg_a.aa1, Identical, ψ |
| Abpa12 | 23102839 | 23104016 | + | 0.888 | Cg_a.ai1, Missense | |
| Abpbg4 | 23151387 | 23151716 | - | ψ | 1.158 | Cg_bg.ah1, Identical, ψ |
| Abpa4 | 23157659 | 23158824 | + | ψ | 1.188 | Cg_a.ah1, Missense, ψ |
| Abpa13 | 23225803 | 23226988 | + | 0.687 | Cg_a.aj2, Missense | |
| Abpbg13 | 23296589 | 23297381 | - | ψ | 0.855 | Cg_bg.an1, Identical, ψ |
| Abpbg5 | 23371211 | 23373004 | - | 0.867 | Cg_bg.am1, Identical | |
| Abpa5 | 23379940 | 23381122 | + | 1.131 | Cg_a.am1, Identical | |
| Abpbg6 | 23448140 | 23448924 | - | ψ | 1.052 | Cg_bg.a12, Missense, ψ |
| Abpa6 | 23457498 | 23458686 | + | ψ | 0.657 | Cg_a.al1, Missense, ψ |
| Abpbg7 | 23468193 | 23469980 | - | ψ | 0.828 | Cg_bg.al1, Identical, ψ |
| Abpa7 | 23478045 | 23479219 | + | ψ | 0.973 | Cg_a.a12, Identical, ψ |
| Abpbg8 | 23582205 | 23584143 | - | 0.530 | Cg_bg.ak1, Missense | |
| Abpa8 | 23588659 | 23589846 | + | 0.539 | Cg_a.ak1, Identical | |
| Abpbg9 | 23694727 | 23696519 | - | 1.156 | Cg_bg.aj2, Missense | |
| Abpa9 | 23708810 | 23709989 | + | ψ | 1.696 | Cg_a.aj1, Identical, ψ |
| Abpbg10 | 23784269 | 23786064 | - | 0.823 | Cg_bg.ar2, Identical | |
| Abpa10 | 23798099 | 23799277 | + | 0.876 | Cg_a.ar1, Identical | |
| Abpbg11 | 23852520 | 23854299 | - | 0.750 | Cg_bg.aq1, Identical | |
| Abpa11 | 23862002 | 23863183 | + | 0.989 | Cg_a.aq1, Missense | |
| Abpa14 | 23935733 | 23940927 | + | 1.122 | Cg_a.aq2, Identical | |
| Uble1b | 23981976 | 24009260 | - | — | — | |
| Singletons | Cg_a.ag_1, ψ | |||||
| Cg_a.ab_2 | ||||||
| Cg_a.af_1, ψ | ||||||
| Cg_bg.ag1 | ||||||
| Cg_bg.ae1, ψ | ||||||
| Cg_bg.af1, ψ | ||||||
| Cg_bg.aj1 | ||||||
| Rat Chromosome 1f | ||||||
| Scn1b | 86240364 | 86250239 | - | — | — | |
| Abpa1 | 86406893 | 86408040 | - | 1.075 | — | |
| Abpbg1 | 86413577 | 86415531 | + | 0.908 | — | |
| Abpbg2 | 86471441 | 86472350 | - | 0.778 | — | |
| Abpa2 | 86479128 | 86480275 | + | 1.075 | — | |
| Abpbg3 | 86615057 | 86616828 | - | ψ | 0.709 | — |
| Abpa3 | 86624816 | 86625956 | + | 1.018 | — | |
| Uble1b | 86684151 | 86711255 | - | — | — | |
| Human Chromosome 19g | ||||||
| UBA2 (Uble1b) | 39611152 | 39652635 | + | — | — | |
| SCGB4A1P | 39759479 | 39760446 | - | — | — | |
| SCGB4A2 | 39776303 | 39777308 | - | — | — | |
| SCGB4A3P | 39828407 | 39828797 | + | ψ | — | — |
| SCGB4A4 | 39848385 | 39849843 | - | — | — | |
| Abpbg1 | 39890294 | 39890500 | - | ψ | — | — |
| Abpa1 | 39893447 | 39893862 | + | ψ | — | — |
| Scn1b
|
40213542
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40223192
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+
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↵a Positions and orientation of transcription were determined using the BLAT server at UCSC (http://genome.cse.ucsc.edu).
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↵b Pseudogenes were predicted on the basis of in-frame stop codons or frame shifts, and/or missing exons.
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↵c Median pairwise KA/KS values were calculated using codeml (Yang and Nielsen 2000).
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↵d Comparison of genes predicted from C57BL/6J and corresponding genomic DNA from mouse strains 129X1/SvJ, DBA/2J, and A/J from the Celera Genomics subscription database. Gene predictions were compared at the nucleotide level to those of C57B16/J; missense and sense mutations were predicted by comparing translated cDNA sequences.
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↵e Mouse gene coordinates correspond to NCBI build 30 (USCS February 2003 mm3).
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↵f Rat gene coordinates correspond to Baylor RGSC v3.1 (UCSC June 2003 rn3).
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↵g Human gene coordinates correspond to NCBI build 34 (UCSC July 2003 hg16).
