XB-FEAT-29072368: Difference between revisions
Created page with "=''b3galt2l.2''= This is the community wiki page for the gene ''b3galt2l.2'' please feel free to add any information that is relevant to this gene that is not already capture..." |
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Based on synteny and reciprocal BALSTp matches to Human, Xtr geneID:100487440 [ on XB-GENEPAGE-22172613] is recognized as the true ''Xenopus'' orthologues of human B3GALT2, and is on ''Xenopus'' ''''Chromosome 4''''. There were no clear ''X. laevis'' orthologs at the time, although Xla. geneID 494704 from v10 assembly is now place on this XB-GENEPAGE-22172613. | Based on synteny and reciprocal BALSTp matches to Human, Xtr geneID:100487440 [ on XB-GENEPAGE-22172613] is recognized as the true ''Xenopus'' orthologues of human B3GALT2, and is on ''Xenopus'' ''''Chromosome 4''''. There were no clear ''X. laevis'' orthologs at the time, although Xla. geneID 494704 from v10 assembly is now place on this XB-GENEPAGE-22172613. | ||
In all gnathostomes, and in caecilians too, the B3GALT2 gene sits '''inside''' an intron of CDC73''' on the opposite strand | In all gnathostomes, and in caecilians too, the B3GALT2 gene sits '''inside''' an intron of CDC73''' on the opposite strand: | ||
[ CDC73(...B3GALT2>)<...GLRX2>...RO60<...UCHL5> (for example, see Human GENEID:8707). | |||
Although the neighboring gene order is somewhat shuffled in the amphibians ''Nanorana'' and ''Xenopus'', the ''b3galt2'' genes still sits '''inside''' of ''cdc73''. | Although the neighboring gene order is somewhat shuffled in the amphibians ''Nanorana'' and ''Xenopus'', the ''b3galt2'' genes still sits '''inside''' of ''cdc73''. | ||
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The models in the Chr3 loci are complicated and will need a lot of work to determine which are in the b3galt2 gene family, and to determine orthology. | The models in the Chr3 loci are complicated and will need a lot of work to determine which are in the b3galt2 gene family, and to determine orthology. | ||
These genes are all provisionally given | These genes are all provisionally given these gene symbols on Xenbase. | ||
*''b3galt2l.1'' - ''b3galt2l.7'' are in ''X. laevis'' chr3L | *''b3galt2l.1.L'' - ''b3galt2l.7.L'' , "b3galt2l.6.S" and ''b3galt2l.7.S'' on are in ''X. laevis'' chr3L and chr3S. | ||
*''b3galt2l.8'' - ''b3galt2l.13'' are in ''X. tropicalis'' on chr3 | *''b3galt2l.8'' - ''b3galt2l.13'' are in ''X. tropicalis'' on chr3. | ||
Latest revision as of 11:41, 26 September 2023
b3galt2l.2
This is the community wiki page for the gene b3galt2l.2 please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase.
nomenclature updates
26Sept2023
The identity of this gene and similar 'b3galt2' family genes was assessed by David Webb from NCBI and Xenbase curators in 2020.
Based on synteny and reciprocal BALSTp matches to Human, Xtr geneID:100487440 [ on XB-GENEPAGE-22172613] is recognized as the true Xenopus orthologues of human B3GALT2, and is on Xenopus 'Chromosome 4'. There were no clear X. laevis orthologs at the time, although Xla. geneID 494704 from v10 assembly is now place on this XB-GENEPAGE-22172613.
In all gnathostomes, and in caecilians too, the B3GALT2 gene sits inside an intron of CDC73 on the opposite strand:
[ CDC73(...B3GALT2>)<...GLRX2>...RO60<...UCHL5> (for example, see Human GENEID:8707).
Although the neighboring gene order is somewhat shuffled in the amphibians Nanorana and Xenopus, the b3galt2 genes still sits inside of cdc73.
David Webb notes that most reptiles, amphibians and basal mammals also have a few B3GALT2-like genes downstream of LIF3 gene ( e.g., see GeneID:115080934) but the genes seem to be frequently lost or unannotated.
Consequently, Entrez GeneID:100380178 is now seen to be a like gene, one of up to 13 different b3galt2-like genes downstream of ilf3 on Xenopus chromosome 3.
The models in the Chr3 loci are complicated and will need a lot of work to determine which are in the b3galt2 gene family, and to determine orthology.
These genes are all provisionally given these gene symbols on Xenbase.
- b3galt2l.1.L - b3galt2l.7.L , "b3galt2l.6.S" and b3galt2l.7.S on are in X. laevis chr3L and chr3S.
- b3galt2l.8 - b3galt2l.13 are in X. tropicalis on chr3.