XB-FEAT-5759091: Difference between revisions
imported>Xenbase →loc100489375: Updated nomenclature, replaced: unnamed → loc100489375 (2) |
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= | = prph2l = | ||
This is the community wiki page for the gene '' | This is the community wiki page for the gene ''prph2l'' please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase. | ||
=nomenclature changes= | |||
This gene was often called PRPH2LA, but based on orthology/synteny it is shown to be lost in placental mammals. | |||
02.03.2021 | |||
Following orthology/synteny assessment by David Webb (NCBI- REF Seq) See RSCOM-111: [https://ncbijira.ncbi.nlm.nih.gov/browse/RSCOM-111] | |||
gene name changed from photoreceptor outer segment membrane glycoprotein 2-like to peripherin 2 like | |||
gene symbol changed from XB5759091 to ''prph2l'' | |||
=synteny notes= | |||
Note, all gnathostomes have PRPH2>...<UBR2 which parallel "PRPH2L">...<UBR1 | |||
non-placental gnathostomes | |||
STARD9>...CDAN1<...loc>...TTBK2<..."'''PRPH2L'''">...UBR1<...TMEM62>...PTGR2< | |||
*General synteny with some taxon-specific re-arrangement. LOC between CDAN1 and TTBK2 comes and goes. Synteny in fish often reduced to "PRPH2L">...UBR1<. | |||
monotremes | |||
STARD9>...CDAN1<...TTBK2<...LOC>...UBR1< | |||
*LOC probably not a PRPH2-like pseudogene | |||
marsupials | |||
STARD9>...CDAN1<....TTBK2<..."'''PRPH2L'''">...UBR1<...TMEM62> | |||
placental mammals (lost) | |||
STARD9>...CDAN1<....TTBK2<...FDPSP4<...UBR1<...TMEM62> | |||
*I couldn't find a PRPH2-like pseudogene between TTBK2 and URB1 in placental mammals. Instead, many species had an '''unrelated FDPSP4 pseudogene''' between those genes. | |||
Latest revision as of 07:23, 26 February 2021
prph2l
This is the community wiki page for the gene prph2l please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase.
nomenclature changes
This gene was often called PRPH2LA, but based on orthology/synteny it is shown to be lost in placental mammals.
02.03.2021
Following orthology/synteny assessment by David Webb (NCBI- REF Seq) See RSCOM-111: [1]
gene name changed from photoreceptor outer segment membrane glycoprotein 2-like to peripherin 2 like
gene symbol changed from XB5759091 to prph2l
synteny notes
Note, all gnathostomes have PRPH2>...<UBR2 which parallel "PRPH2L">...<UBR1
non-placental gnathostomes STARD9>...CDAN1<...loc>...TTBK2<..."PRPH2L">...UBR1<...TMEM62>...PTGR2<
- General synteny with some taxon-specific re-arrangement. LOC between CDAN1 and TTBK2 comes and goes. Synteny in fish often reduced to "PRPH2L">...UBR1<.
monotremes STARD9>...CDAN1<...TTBK2<...LOC>...UBR1<
- LOC probably not a PRPH2-like pseudogene
marsupials STARD9>...CDAN1<....TTBK2<..."PRPH2L">...UBR1<...TMEM62>
placental mammals (lost) STARD9>...CDAN1<....TTBK2<...FDPSP4<...UBR1<...TMEM62>
- I couldn't find a PRPH2-like pseudogene between TTBK2 and URB1 in placental mammals. Instead, many species had an unrelated FDPSP4 pseudogene between those genes.