XB-FEAT-29096946: Difference between revisions
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=orthology & synteny notes= | =orthology & synteny notes= | ||
06MAY2026 | |||
Synteny and BLAST support the true ATRAID orthologs in ''Xenopus'' as those on Chr.5/5S. THese models are here on XB-GENEPAGE-29096946. | Synteny and BLAST support the true ATRAID orthologs in ''Xenopus'' as those on Chr.5/5S. THese models are here on XB-GENEPAGE-29096946. | ||
Latest revision as of 13:39, 6 May 2026
atraid
This is the community wiki page for the gene atraid please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase.
orthology & synteny notes
06MAY2026
Synteny and BLAST support the true ATRAID orthologs in Xenopus as those on Chr.5/5S. THese models are here on XB-GENEPAGE-29096946.
In X.laevis_ chr5S: _ppm1g< nrbp1> atraid< cad> uncn1> trim54<
No gene model with this name in X.laevis v10, but BLAST Xtrop v Xlaevis, does match (~75% identity) _LOC108716076, sterile alpha motif domain-containing protein 12_, which is in the correct place in synteny-wise. Is this our atraid.L ?
In X. laevis 5L: nrbp1.L> krtcap3.L> ift172.L< LOC121393878(a zfp) < LOC108716076< cad.L> MPV17.L> uncn1.S> trim54.S<
In X. tropicalis chr5: ppm1g< nrbp1> LOC> krtcap3> ift172< atraid< LOC< LOC< LOC< cad> mpv17> ucn> trim54<
human: PRR30< TCF23> SLC5A6< ATRAID> CAD> SLC30A3< DNAJC5G>
The 2nd atraid gene in Xenopus occurs on Xtr.chr8.
I have renamed this "atraid-like" (atraidl, all-trans retinoic acid induced differentiation factor like) (although autocorrect would like to make it afraid, which has its charm).
The protein sequence/BLAST does identify this chr8 pc gene as a true ATRAID member. If it occurs in other vertebrates, I have suggested to NCBI's David Webb that we might be able to sname it atraid2.