XB-FEAT-6257460

trpm2l

This is the community wiki page for the gene trpm2l please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase

nomenclature changes

06.30.2020

Human symbol has changed for genepage ID: 6257460 From trpm2l to trim26

Human symbol has changed for genepage ID: 6257460 From transient receptor potential cation channel, subfamily M, member 2 like to tripartite motif containing 26

1MAY2023

Synteny (below) does not support the orthology between Xenopus GeneID:100491139 and GeneID:108707608 and human trim26/TRIM26, and NCBI orthology analysis also does not identify Xtrop Gene ID:100491139 as an ortholog of TRIM26. Thus we conclude that these genes has been misannotated and incorrectly named trim26.

Q:ARE THESE GENES THE ORTHOLOGS OF TRPM2?

A: No, Xtrop Gene ID: 100124999 is identified by NBCI as the true ortholog of TRPM2, although synteny is WEAKLY conserved, it is flanked by CFAP410 in human and frog.

Q:ARE THESE GENES THE ORTHOLOGS OF TRPM4 (a previous gene symbol used for these genes)?

A: No, synteny also rejects this ortholgy.

Q:ARE THESE GENES a TRPM2, Transient receptor potential cation channel, subfamily M, member 2, gene?

A: YES! DIOPT/EggNog confirms this is in fact a Transient receptor potential cation channel, subfamily M, member 2 gene, matching the protein with very high confidence to 362 TRPM2 proteins for > 160 species.

Xenbase already has a Xenopus trpm2 gene page, XB-GENEPAGE-996774. with Xtrop gene ID:100124999 and Xla.L GeneID: 108701480, both on chr9/9_10L. NCBI recognizes the Xtrop gene as a true ortholog of Human.

XB Actions:

1) removed the vertebrate orthologs for TRIM26 from this gene page XB-GENEPAGE-6257460.

2) renamed these genes trpm2l, transient receptor potential cation channel, subfamily M, member 2 like as it is in this homology group, but is a 2nd gene in Xenopus, on Chr2/2L, while true trpm2 is on chr9/9_10.

3) removed the synonyms trim26 and trpm4b for this XB-GENEPAGE-6257460

Synteny as of April 29th, 2023

TRIM26

Human: TRIM10 TRIM15 PAIP1P1 TRIM26 TRIM26BP HCG17

XTR.chr2: ilk tpp1 'GeneID:100491139' zscan2

Xla.chr2L: dynp1 rrp8.L mgc822989 tpp1 tif-if2 ' GeneID:108707608 ' zfp391

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TRPM2 Human chr21: ICOSLG< DNMT3L AIRE PFKL> CFAP410> TRPM2 LRRC3> TSPEAR UGE2G2< SUMO3 PTTG1IP< ITGB2< SLX9>

Xtrop.Chr9: col5a2> col3a1<. gulp1< cfap410< trmp2> pth2r> pikfyve< c9h2orf80>

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TRPM4 Human chr19: SNRNP70> C19ORF73> PPFIA3> TRPM4> LOC107985340> SLC6A21P< SUMO1P4> SLC6A16< CD37> TEAD2< DKKL1>

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=proteins used in DIOPT/EggNog homology group analysis

>XP_031753324.1 transient receptor potential cation channel subfamily M member 2 isoform X1 [Xenopus tropicalis] MGNTKSKSPVPDRIDGVQLHSTVGSPYRPGTADPKKKKKTAPKFIDGEKVDVLNSWVTRNIRKKECVAFI PPAPEAPGDRDTCGCGHTRRTHFAAQVSAPLEPGTVWDPHKHVREFPSDAHGDLTFTGTTRTWAKYVRAS NDTPPRSLFDLMTQQWDLRVPNLLISVTGGAKNFNISPRLKTEFSRGLVTAAQSTGAWIITGGSHAGVMK HVGEAVRDFSGGQHETEIVLIGIATWGIVHNRESLISEAGGAPAVYPMDEGSQGALCCLDNNHTHFILVD NGTYGKYGVEIPLRTKLEKFISEQTMENAGTAIKIPIVCVVLEGGPGTLDTIYNSMCNNTPCVIVEGSGR VADIIAQVANLSISQITISVVKEKLQNLFQDTFESFTEAQIIMWTKKIQDIVRMGSLLTILREDKTEEQG MDVAILQALLKASRSTDYSGQENWDHQLKLAVAWNRADIAESQIFTEDWMWKPSDLYPSLMVSLIDDKPS FLRLFLERGVSLSEFITWDMLTELYNNTEPSSLIHSKLERQAMLDESTEMNGGLKIQLHHVSHVLQELLG GLTESLYLDRRSHRTRTLPYINIKISGKVSSMRSECDSTVKLEHPVRDLLIWCIVQNRAELAEIIWCQSQ DCMVSALACSKMLKALSKEEDDTESMESMKVLANVYEERAAGVFSECYASDESRAEQLLIRVSSKWGKTT SLDLAQESQGQLFMSQSGVQMFLTKTWFGRLSVDNGLLAILLCMLLFPLIYTDLIMYRKESVAPRSSRGQ DKRSAARSSRARNCLWKFFDFFSAPIVKFYYNVVSYIGFLWLFAYVLMMDFQTYPSWTEYLLYVWVFSIL CEELRQLLYDPDRLGFVVKSMQYISEFWNQVDTLALSLFAVGLICRLASLNTVYLGRVFLSVDYMIFCIR LMNIFTVSKVLGPKIIMLRRMIMDLFFFLFLLAIWIVSFGVAKQAILTSNETRLDWIFRNVIYGPYLILF GQIPSEVDGLNFDPTKCSQSGTDPTLPKCVYNDGSGKTLFPEWLTILLLCIYLLMANILLLNLLIAMFSN TFGDVESHTDQIWKFYRFGLIKEYNERPVAPPPFILLSHLYFLLKYGLSKRSTLSHQAMRSVMDEAGESS LLSWELYMRDNYLHNQQLVDSQSQENVVKNTAQSVSAVLNLLNMRKDGEGQQLETRLILLEEEVLKSSEQ LQWIISALGEKGFTGRAQRLVHSSSQDSGDSATHGLDPSTERKSIYHVNSRTLQYPDSPVSRYPVPDEMV PWEVPFPGYEPPFYTAERGDRGAYDPHSEMSQTNRKYNAVDGALDLRSSCGTYAVQDGFPLNPMGRTGLR GVGSLRWFGPNHSLHLVITRWNTRANGSADKKLPRKMLEVLVVKEKKNELWALPGGTLSPGEEIPSKLQS ILSQTYGERFSELLRGGREVFRGYLDDPRNTDNSWIETLAVNIHLDTEETLSQFLQNLNQSSPEVSLRWQ ILDHKIPIYANEKEILQRTAEVHGTHY

>XP_041438825.1 transient receptor potential cation channel subfamily M member 2 [Xenopus laevis] MGNTKSKSSVPDGIDGVQLHSNVNSPHRPGTADPKKKKKTAPKFIDGEKVDVLNSWVSQNIRKKECVAFI PRVSEAPSDRDSCSCGHTRHTHFGDHKSSSVEPGTVWDPHKHVREFPSDAHGDLTFTGTTRTWAKYVRAS NDTPPRLLFDLMTQQWDLSVPNLLISVTGGAKNFNISPRLKTEFSRGLVTAAQSTGAWIITGGSHAGVMK HVGEAVRDFSGGQHESDIVLIGIATWGIVHNRELLISEAGGAPAVYQMDEGSQGSLCCLDNNHTHFILVD NGTFGRYGVEIPLRAKLEKYISAQTMEKAGTAIKIPIVCVVLEGGPGTLDTIYNSMCNNTPCVIVEGSGR VADIIAQVANLNISRITISLVKEKLQNLFQDTYESFTEAQIIMWTKKIQDIVRMGSLLTILREDKTEEQG MDVAILQALLKASRSTDLSGQENWDHQLKLAVAWNRPDIAESQIFTEDWMWKPSDLYPSLMVSLIDDKPS FLRLFLERGVSLSEFLTWDVLTELYNNTEPSSLIRSKLERQAMLDESTEINGPTIQLHHVSRVLQELLGG RTEPLYPDVRSHRTRNLPHIKIKISGKVSSMRLASDCTLQLEHPVRDLLIWCIVQNRAELAEIIWCQSQD CIVGALACSKILKALSKEEDDTESMENMKVLADVYEERAAGVFSECYESDESRAEQLLIRVSSIWGKTTS LDLAQESQGQAFMSQGGVQMFLNKTWCGKLSVDNGLLAILLCMLLFPLIYTGLVMYRNKPLAPRSSRRPD INGQMKSPVRSSQTRNCLKKFLHFFTAPIVKFYYNVVSYIGFLWLFAYVLMMDFQTSPSWREYLLYIWVF SIFCEELRQLLYDPDRLGFVVKSAQYISEFWNQIDSTALVLFAVGLICRLASVDTVYLGRVFLSIDFMIF CVRLLHIFTVSKVLGPKIIMLRRMVMDLFFFLFLLAIWIVSYGVAKQAILTSNEIRLNWIFRNIVYEPYL TLFGQMPSDIDGLNFDPTKCSQDGTNPLLPKCVYNDGSGNPLFPEWLTIILTCIYLLMANILLLNLLIAM FSNTFGDVESHTDQIWKFYRFGLIKEYNERPAAPPPFILLSHFYFLLKYGLSKRSTMSHKAMRSVIDEAG ESSLLSWELYMRDNYVHNRQLLDAQSQENVVKNTAESVSAVLKMLSMEKGSDGQNMERRMFLLEDEVSKS SQKLQWIISALREKGFTGKAQMFVHSNSQDLEEKASLGSDSLGDKKSIYHVNSRTLQYPNSNTTRYPVPD EMVPWEVTFPGYDPPFLIADRDDRGAYDPHSEMSQTNRKYNGVDGALDFRSSCGTYLVHEGVPLNPMGRT GLRGVGSLRWFGPNHSLHPVITRWNTLPNGSLDRKISRKKLEVLVVKQIDNELWALPGGTLSPGEDIPPK LKSILNEKYVKKFSDLLRGGTEVFRGYLDDPRNTDNSWIETRAVNIHMDSDEKLSRFLQNVNDSSPGVSL RWQILDHKIPIYADEKEILQRTAEVHGTHY