XB-FEAT-6072890: Difference between revisions
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17JULY2022 | 17JULY2022 | ||
the p suffic/pseudogene mis-match between ''Xenopus'' and human gene symbols/names will consistently trigger a gene name change alert in the monthly Entrez Gene report- (ie Human symbol has changed for genepage ID: 6072890 From carm1 to CARM1P1) | |||
NB: the p suffic/pseudogene mis-match between ''Xenopus'' and human gene symbols/names will consistently trigger a gene name change alert in the monthly Entrez Gene report- (ie Xenopus/Human symbol has changed for genepage ID: 6072890 From ''carm1'' to CARM1P1) | |||
'''DO NOT change the ''Xenopus'' symbol'''- this is a good protein coding gene model in the v10 genome assemblies for ''Xenopus''. | '''DO NOT change the ''Xenopus'' symbol'''- this is a good protein coding gene model in the v10 genome assemblies for ''Xenopus''. | ||
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31JAN2023 | 31JAN2023 | ||
XB had 2 gene pages called ‘’carm1’’ | XB had 2 gene pages both called ‘’carm1’’ | ||
'''XB-GENEPAGE-6072890''' (with not much data) had models for Xtrop (on Chr1) and Xla.L(on chr3) | |||
Changed name to ‘’carm1l, coactivator associated arginine methyltransferase 1-'''like'''’’ | |||
XB-GENEPAGE-484571 ( with literature and images) had | XB-GENEPAGE-484571 ( with literature and images) had 2 models, for Xtrop, Xlaevis.S all on Chr3/3S => true ''carm1'' | ||
Request made to MOVE Xla.carm1.L models to XB-GENEPAGE-484571 | Request made to MOVE Xla.carm1.L models to XB-GENEPAGE-484571 | ||
Latest revision as of 11:53, 24 April 2023
carm1l
This is the community wiki page for the gene carm1l please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase
nomenclature changes
3/4/2022
removed 'pseudogene' from gene name, as only human gene is thought to be non-functional.
17JULY2022
NB: the p suffic/pseudogene mis-match between Xenopus and human gene symbols/names will consistently trigger a gene name change alert in the monthly Entrez Gene report- (ie Xenopus/Human symbol has changed for genepage ID: 6072890 From carm1 to CARM1P1)
DO NOT change the Xenopus symbol- this is a good protein coding gene model in the v10 genome assemblies for Xenopus.
31JAN2023
XB had 2 gene pages both called ‘’carm1’’
XB-GENEPAGE-6072890 (with not much data) had models for Xtrop (on Chr1) and Xla.L(on chr3)
Changed name to ‘’carm1l, coactivator associated arginine methyltransferase 1-like’’
XB-GENEPAGE-484571 ( with literature and images) had 2 models, for Xtrop, Xlaevis.S all on Chr3/3S => true carm1
Request made to MOVE Xla.carm1.L models to XB-GENEPAGE-484571
Synteny
31JAN2023
Xenopus carm1 compared to Xenopus carm1l
Xtrop.chr3: dnm2> … tmed1< … LOC10173343>… carm1> ….ylpf2< … timm29> Loc100495666> smarca4>
Compared with Xenopus ‘’carm1-like’’
Xtrop.chr1: crygbl.1> … crygbl.2> … LOC100496840<(likely another crygb) … carm1l> …pum> … kcnv2< … vldlr<
Xla.S carm1l is only represent by scaffold58 in v9.2 genome assembly:
vldir.S> … kcnv2.S> … pum3 … carm1l.S … Xetrov(unch) <….. upstream string of crygb’s
we looked in v10 Xlaevis assembly to see if we can get v10 model for carm1l.L/.S on XB-GENEPAGE-484571- but no!
Xla V10 chr1.L (no v10 model found)
pum3.L> …LOC121401372(lncRNA)< … kcnv2.L< … vldir.L< … smarca2.L< … LOC#5489(pseudo) … LOC121394124(dmrt2.2)< … dmrt2.L> … dmrt3.L< … dmrt 1.L …
Xla v10 chr1S: (no v10 model found)
pum3.S> …. LOC108704909(lncRNA)< … kcnv2.S< … vldir.S< … LOC432089(snf2l2) <… LOC108704897(UNCH ncRNA) … dmrt2.S< dmrt3.S< … dmrt 1.S< …