RetrogeneDB ID: | retro_mmus_3665 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | X:94997393..94998704(-) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSMUSG00000087522 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | Gmcl1 | ||
Ensembl ID: | ENSMUSG00000001157 | ||
Aliases: | Gmcl1, 2810049L19Rik, Gcl, mglc-1 | ||
Description: | germ cell-less homolog 1 (Drosophila) [Source:MGI Symbol;Acc:MGI:1345156] |
Percent Identity: | 51.95 % |
Parental protein coverage: | 82.63 % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 0 |
Parental | KSTSKYIYQTLFLNGENSDIKICALGEEWSLHKIYLCQSGYFSSMFSGSWKESSMNIIELEIPDQNIDIE |
K......Y..LFL.GENSDIKICA..EEW.LHK.YLC.SGYFSSMF.G.W.ES.M..IE...PD.NID.E | |
Retrocopy | KVPRRTLYESLFLRGENSDIKICAFQEEWHLHKSYLCRSGYFSSMFCGAWRESNMDTIEMQMPDENIDRE |
Parental | ALQVAFGSLYRDDVLIKPSRVVAILAAACMLQLDGLIQQCGETMKETISVRTVCGYYTSAGTYGLDSVKK |
A.....G.LY.....I.P.RV.A.LA.A.MLQLD.LIQQC...M....S..TVC.YY.SA..YGL.S.K. | |
Retrocopy | AFNDVLGFLYSRRIVIPPPRVIAVLATANMLQLDELIQQCEDMMRASVSTETVCNYYYSAENYGLQSIKY |
Parental | KCLEWLLNNLMTHQSVELFKELSINVMKQLIGSSNLFVMQVEMDVYTALKKWMFLQLVPSWNGSLKQLLT |
.C..WLL.NLMT....EL....S...MK.LI.SS.L.V..VEMDVY..LK.WM.LQL...........L. | |
Retrocopy | VCCQWLLDNLMTRKNDELLLGISVDLMKELIASSDLLVVGVEMDVYITLKTWMYLQLEARTCSGSERVLL |
Parental | ETDVWFSKWKKDFEGTTFLETEQGKPFAPVFRHLRLQYIISDLASARIIEQDSLVPSEWLAAVYKQQWLA |
.....F.K.........FL...QG..F..VF..LRL.YIISDL.SARIIEQD.L.P..WL..VYK.QWLA | |
Retrocopy | PEELSFAKFRRESDNRPFLDSDQGRAFVSVFQRLRLPYIISDLPSARIIEQDRLIPAAWLTPVYKEQWLA |
Parental | MLRAEQDSEVGPQEINKEELEGNSMRCGRKLAKDGEYCWRWTGFNFGFDLLVTYTNRYIIFKRNTLNQPC |
.L.AEQ..E.G...IN.....GNSMRCG..L..D....W.W.GFNFG.DL.V.Y.NR.II..R...N..C | |
Retrocopy | LLQAEQSRELGRMDINVSDIHGNSMRCGGQLFTDEQCSWTWSGFNFGWDLVVCYNNRRIILCRSAMNKSC |
Parental | SGSVSLQPRRSIAFRLRLASFDSSGKLICSRATGYQILTLEKDQEQVVMNLDSRLLIFPLYICCNFLYIS |
...VSL...R.IAFRLR..S.DS.GK....R.T.Y.IL.L.K.Q...V.NL.....IFP.Y..CNFLY.. | |
Retrocopy | GLGVSLLWQRKIAFRLRVISLDSTGKSVLRRETDYNILSLRKNQQLEVVNLGNQDIIFPIYVACNFLYLP |
Parental | PEKRT----ESNRHPEN |
.E.......ES.R.P.N | |
Retrocopy | GESSAGPSGESSRSPIN |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain | 0 .05 RPM | 28 .04 RPM |
SRP007412_cerebellum | 0 .04 RPM | 23 .40 RPM |
SRP007412_heart | 0 .28 RPM | 5 .35 RPM |
SRP007412_kidney | 0 .02 RPM | 20 .56 RPM |
SRP007412_liver | 0 .00 RPM | 12 .32 RPM |
SRP007412_testis | 0 .64 RPM | 112 .06 RPM |
TSS No. | TSS Name | TSS expression level (Expr) in TPM range: | ||||
---|---|---|---|---|---|---|
no expression | 0 < Expr ≤ 1 | 1 < Expr ≤ 5 | 5 < Expr ≤ 10 | Expr > 10 | ||
TSS #1 | TSS_158570 | 1057 libraries | 11 libraries | 2 libraries | 2 libraries | 0 libraries |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Ailuropoda melanoleuca | ENSAMEG00000016116 | 1 retrocopy | |
Choloepus hoffmanni | ENSCHOG00000012306 | 2 retrocopies | |
Equus caballus | ENSECAG00000016813 | 2 retrocopies | |
Homo sapiens | ENSG00000087338 | 1 retrocopy | |
Loxodonta africana | ENSLAFG00000002565 | 3 retrocopies | |
Myotis lucifugus | ENSMLUG00000009183 | 2 retrocopies | |
Macaca mulatta | ENSMMUG00000000858 | 1 retrocopy | |
Mus musculus | ENSMUSG00000001157 | 1 retrocopy |
retro_mmus_3665 ,
|
Nomascus leucogenys | ENSNLEG00000010132 | 1 retrocopy | |
Oryctolagus cuniculus | ENSOCUG00000015808 | 2 retrocopies | |
Otolemur garnettii | ENSOGAG00000008408 | 1 retrocopy | |
Pongo abelii | ENSPPYG00000012334 | 1 retrocopy | |
Pan troglodytes | ENSPTRG00000012021 | 1 retrocopy | |
Pteropus vampyrus | ENSPVAG00000001242 | 3 retrocopies | |
Sorex araneus | ENSSARG00000004651 | 1 retrocopy | |
Sus scrofa | ENSSSCG00000008335 | 1 retrocopy | |
Ictidomys tridecemlineatus | ENSSTOG00000000714 | 1 retrocopy | |
Tursiops truncatus | ENSTTRG00000007493 | 3 retrocopies | |
Vicugna pacos | ENSVPAG00000001756 | 1 retrocopy |