XB-FEAT-22065335: Difference between revisions
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Note: new gene pages for ''mypopl2.2.L'' and ''mypopl2.3.L'' have been requested. | Note: new gene pages for ''mypopl2.2.L'' and ''mypopl2.3.L'' have been requested. | ||
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'''Synteny cf other verbrates does not identify orthologous genes adjacent to TIMM8B: | |||
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Human chr 11: DLAT> PIHID2< NKAPD1> TIMM8B< SDHD> IL18< | Human chr 11: DLAT> PIHID2< NKAPD1> TIMM8B< SDHD> IL18< | ||
Latest revision as of 09:59, 8 June 2023
mypopl2
This is the community wiki page for the gene mypopl2 please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase.
nomenclature and orthology notes
07JUNE 2023
Following review and analysis by Xenbase ( see synteny below) this gene has been renamed, changing from msantdl.2 to mypopl2, myb-related transcription factor, partner of profilin like 2, gene 1).
DIOPT/EggNOG v5.0 analysis of Xenopus protein seqs matches the Xenopus genes with high confidence scores to other vertebrate MYPOP genes, although synteny with other verebrates is not conserved and no orthologs have be identified at this time.
Synteny in Xenopus
Xtr v10 Chr7: LOC116412206(unch/lncRNA)> LOC116412415(unch) timm8b.L< sdhd.L>
Xla v10 Chr7L: LOC108697003(mypopl#)> LOC121395551(mypopl#)> msantdl.2.L(now mypopl2)> timm8b.L< sdhd.L>
Xla v10 Chr7S: LOC121396476(cfap251)< timm8b.S< sdhd.S>
In v10 Xlaevis genome annotation, there is a duplication with 3x mypop genes on the L subgenome, but no mypopl gene model is present Xla.S subgenome on Chr7S.
Using the gene immediately adjacent to timm8b as the anchor, we have therefore assigned the folowing gene symbols:
- X. tropicalis Gene ID: 116412415 as mypopl2, myb-related transcription factor, partner of profilin like 2 gene 1
- X. laevis Gene DI:108696494 as mypopl2.L (myb-related transcription factor, partner of profilin like 2 gene 1 L homeolog)
- X. laevis LOC121395551 Gene ID:121395551 as mypopl2.2.L, myb-related transcription factor, partner of profilin like 2 gene 2 L homeolog)
- X. laevis LOC108697003 Gene ID:108697003 as mypopl2.3.L, myb-related transcription factor, partner of profilin like 2 gene 3 L homeolog
Note: new gene pages for mypopl2.2.L and mypopl2.3.L have been requested.
Synteny cf other verbrates does not identify orthologous genes adjacent to TIMM8B:
Human chr 11: DLAT> PIHID2< NKAPD1> TIMM8B< SDHD> IL18<
mouse CHR9: (RV) Dlat> Pihid2< Nkapd1> Timm8b< Sdhd> LOC120915499<
Rana chr 10: (rv) LOC120915506(Nkapd1)< LOC120915505(Nkapd1)> TIMM8B< SDHD> LOC120915499(Nkapd1) <
Alligator: PIHID2< NKAPD1> TIMM8B< SDHD> IL18<
Anole: pihid2< nkapd1> timm8b< tex12< bco2<
Lungfish: PRDM10> NFRKB> TIMM8B< SDHD> LOC122809523(ncRNA)