XB-FEAT-484571: Difference between revisions
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This is the community wiki page for the gene ''carm1'' please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase. | This is the community wiki page for the gene ''carm1'' please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase. | ||
= | =genome annotation notes= | ||
31JAN2023 | 31JAN2023 | ||
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=synteny of ''Xenopus carm1 v carm1l''= | =synteny of ''Xenopus carm1 v carm1l''= | ||
''Xenopus carm1'' | |||
Xtr '''''carm1''''' chr3: ''dnm2> … tmed1< … LOC10173343>… '''carm1'''> ….ylpf2< … timm29> Loc100495666> smarca4>'' | Xtr '''''carm1''''' chr3: ''dnm2> … tmed1< … LOC10173343>… '''carm1'''> ….ylpf2< … timm29> Loc100495666> smarca4>'' | ||
Compared with Xenopus | Compared with ''Xenopus carm1-like'' | ||
Xtr.'''''carm1l''''' chr1: ''crygbl.1> … crygbl.2> … LOC100496840<(likely another crygb) … '''carm1l'''> …pum> … kcnv2< … vldlr<'' | Xtr.'''''carm1l''''' chr1: ''crygbl.1> … crygbl.2> … LOC100496840<(likely another crygb) … '''carm1l'''> …pum> … kcnv2< … vldlr<'' | ||
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Xla.S scaffold58on v9.2: ''vldir.S> … kcnv2.S> … pum3 …'''carm1l''' … Xetrov(unch) <….. upstream string of crygb’s'' | Xla.S scaffold58on v9.2: ''vldir.S> … kcnv2.S> … pum3 …'''carm1l''' … Xetrov(unch) <….. upstream string of crygb’s'' | ||
Looked in | Looked in v10 Xlaevis assembly to see if we could find a v10 model for XB-GENEPAGE-484571- but no! | ||
Xla V10 chr1.L (no model): | Xla V10 chr1.L (no model): | ||
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''pum3.L> …LOC121401372(lncRNA)< … kcnv2.L< … vldir.L< … smarca2.L< … LOC#5489(pseudo) … LOC121394124(dmrt2.2)< … dmrt2.L> … dmrt3.L< … dmrt 1.L …'' | ''pum3.L> …LOC121401372(lncRNA)< … kcnv2.L< … vldir.L< … smarca2.L< … LOC#5489(pseudo) … LOC121394124(dmrt2.2)< … dmrt2.L> … dmrt3.L< … dmrt 1.L …'' | ||
Xla.chr1S: no v 10 model: | Xla.chr1S: (no v 10 model): | ||
''pum3.S> …. LOC108704909(lncRNA)< … kcnv2.S< … vldir.S< … LOC432089(snf2l2) <… LOC108704897(UNCH ncRNA) … dmrt2.S< dmrt3.S< … dmrt 1.S<'' … | ''pum3.S> …. LOC108704909(lncRNA)< … kcnv2.S< … vldir.S< … LOC432089(snf2l2) <… LOC108704897(UNCH ncRNA) … dmrt2.S< dmrt3.S< … dmrt 1.S<'' … | ||
Latest revision as of 08:24, 31 January 2023
carm1
This is the community wiki page for the gene carm1 please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase.
genome annotation notes
31JAN2023
XB had 2 gene pages called ‘’carm1’’
XB-GENEPAGE-6072890 ( not much data) Xtr (Chr1) and Xla.L(chr3)
Change name to ‘’carm1l, coactivator associated arginine methyltransferase 1-like’’
XB-GENEPAGE-484571 ( with literature and images) Xtr, Xla.S model on Chr3 = true carm1
Request MOVE of Xla.carm.L models from XB-GENEPAGE-6072890 to XB-GENEPAGE-484571
synteny of Xenopus carm1 v carm1l
Xenopus carm1
Xtr carm1 chr3: dnm2> … tmed1< … LOC10173343>… carm1> ….ylpf2< … timm29> Loc100495666> smarca4>
Compared with Xenopus carm1-like
Xtr.carm1l chr1: crygbl.1> … crygbl.2> … LOC100496840<(likely another crygb) … carm1l> …pum> … kcnv2< … vldlr<
Xla.S scaffold58on v9.2: vldir.S> … kcnv2.S> … pum3 …carm1l … Xetrov(unch) <….. upstream string of crygb’s
Looked in v10 Xlaevis assembly to see if we could find a v10 model for XB-GENEPAGE-484571- but no!
Xla V10 chr1.L (no model):
pum3.L> …LOC121401372(lncRNA)< … kcnv2.L< … vldir.L< … smarca2.L< … LOC#5489(pseudo) … LOC121394124(dmrt2.2)< … dmrt2.L> … dmrt3.L< … dmrt 1.L …
Xla.chr1S: (no v 10 model):
pum3.S> …. LOC108704909(lncRNA)< … kcnv2.S< … vldir.S< … LOC432089(snf2l2) <… LOC108704897(UNCH ncRNA) … dmrt2.S< dmrt3.S< … dmrt 1.S< …