XB-FEAT-1000743

From XenWiki
Revision as of 08:20, 30 November 2023 by Xenbase (talk | contribs) (→‎synteny map)
Jump to navigation Jump to search

six6os1

This is the community wiki page for the gene six6os1 please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase.

nomenclature changes

05DEC2022

HGNC and NCBIs RefSeq team have recently renamed all non-human open reading frame (ORF) genes. The new Xenopus gene symbol syntax reflects the orthology to the human gene while starting with a prefix indictating location of the ORF on the Xenopus chromosome, i.e., the Xenopus chromosome number (c#), then 'h#' for the human chromosome number, then the same human 'orf #'. Old human 'c'orf' gene symbols are recorded as synonyms.

25MAY2023

Gene symbol changed from c14orf39 /.L/.S to c8h14orf39 and name changed from "chromosome 14 open reading frame 39" to "chromosome 8 C14orf39 homolog", according to new c#h##orf# naming rules.

c14orf39 added as a synonym to this gene.


30Nov2023

Xenopus gene name changed from c8h14orf39, "chromosome 8 C14orf39 homolog" to six6os1, six6 opposite strand transcript 1 following the rat ortholg name, and our need to give protein coding genes more meaningful names.

This naming is supported by synteny, and this research article: Ochi et al 2017 Co-accumulation of cis-regulatory and coding mutations during the pseudogenization of the Xenopus laevis homoeologs six6.L and six6.S. Dev Biol 2017 Jul 01;4271:84-92. PubMed ID: 28501477 .

Note that Gene models for X. laevis c8h14orf39 /c14orf39/ LOC100486324 were absent in the v9 genome assemblies but are present in etc v10 assembly. See synteny below.

synteny map

Species Chromosome < 5 < 4 < 3 < 2 < 1 Gene of Interest > 1 > 2 > 3 > 4 > 5
X.tropicalis chr8 slc38a6 trmt5 mnat1 six4 six1 GeneID:100101705;six6; c8h14orf39 ppm1a dhrs7 pcnx4 lrrc9
X.laevis chr8S jkamp.S rtn1.S dhrs7.S ppm1a.S LOC108699751.S GeneID:373784;six6.S; six1.S six4.S mnat1.S hif1a.S kcnh5.S
X.laevis chr8L slc38a6.L trmt5.L mnat1.L six4.L six1.L GeneID:398128;six6.L; LOC121396872 ppm1a.L dhrs7.L pcnx4.L lrrc9.L
M.musculus Chr12 dhrs7 ppm1a Gm33785 Gm40441 4930447C04Rik GeneID:20476; Six6 six1 MIR9718 six4 mnat1 Gm23910
H.sapiens Chr14 LINC02322 RBM8B GNRHR2P1 C14orf39 SALL4P7 GeneID:4990; SIX6 VN1R59P RPL37P5 RPS15AP4 SALRNA1 six1