RetrogeneDB ID: | retro_cjac_4219 | ||
Retrocopylocation | Organism: | Marmoset (Callithrix jacchus) | |
Coordinates: | X:121754654..121755973(-) | ||
Located in intron of: | ENSCJAG00000004195 | ||
Retrocopyinformation | Ensembl ID: | None | |
Aliases: | None | ||
Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | PSMC1 | ||
Ensembl ID: | ENSCJAG00000017701 | ||
Aliases: | None | ||
Description: | proteasome (prosome, macropain) 26S subunit, ATPase, 1 [Source:HGNC Symbol;Acc:9547] |
Percent Identity: | 90.27 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 3 |
Number of frameshifts detected | 1 |
Parental | MGQSQSGGHGPGGGKKDDKDKKKKYEPPVPTRVGKKKKKTKGPDAASKLPLVTPHTQCRLKLLKLERIKD |
MGQSQSGGHGPGGG.KDDKDKKKKYEPPVPTRVGKKKKKTKGPD.ASKLPLVTPHTQCRLKLLKLERIKD | |
Retrocopy | MGQSQSGGHGPGGG-KDDKDKKKKYEPPVPTRVGKKKKKTKGPDVASKLPLVTPHTQCRLKLLKLERIKD |
Parental | YLLMEEEFIRNQEQMKPLEEKQEEERSKVDDLRGTPMSVGTLEEIIDDNHAIVSTSVGSEHYVSILSFVD |
YL.ME.EFIRN.EQMKPLEEKQEE.RSKVD...GT.MSVGTLEEIIDD.HAIV.TSVGSEHYVSILSFVD | |
Retrocopy | YLTMEKEFIRNREQMKPLEEKQEEKRSKVD*MPGTLMSVGTLEEIIDDSHAIVPTSVGSEHYVSILSFVD |
Parental | KDLLEPGCSVLLNHKVHAVIGVLMDDTDPLVTVMKVEKAPQETYADIGGLDNQIQEIKESVELPLTHPEY |
KDLLEPGCS.LLNHKVH.V.GVLMDDTDPLVTVMKVEKAPQETYAD..GLDNQIQEIKESVE.PLTHPEY | |
Retrocopy | KDLLEPGCSILLNHKVHVVTGVLMDDTDPLVTVMKVEKAPQETYADTRGLDNQIQEIKESVEIPLTHPEY |
Parental | YEEMGIKPPKGVILYGPPGTGKTLLAKAVANQTSATFLRVVGSELIQKYLGDGPKLVRELFRVAEEHAPS |
YEEMG.KPPKGVIL.GPPGTGKTLLA.AVANQTSATFLRVVGSELIQKYL.DGPKLV.ELFRVAEEHAPS | |
Retrocopy | YEEMGMKPPKGVILHGPPGTGKTLLARAVANQTSATFLRVVGSELIQKYLDDGPKLVWELFRVAEEHAPS |
Parental | IVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDSRGDVKVIMATNRIETLDPALIRPGRIDRK |
I.F.DEIDAIGTKRYDSNSGGEREIQ.TMLELLNQLDGFDSRGDVKVIMATN.IE.LDPAL.RPGRIDRK | |
Retrocopy | ILFTDEIDAIGTKRYDSNSGGEREIQ*TMLELLNQLDGFDSRGDVKVIMATNQIEALDPALNRPGRIDRK |
Parental | IEFPLPDEKTKKRIFQIHTSRMTLADDVTLDDLIMAKDDLSGADIKAICTEAGLMALRERRMKVTNEDFK |
I..PLPD.KTKKRIFQIHT.RMTLADDVT.DDLI..KDDLSGADIKAICTEAGLM.LRERRMKVTNEDFK | |
Retrocopy | IKLPLPDGKTKKRIFQIHTRRMTLADDVTVDDLIVTKDDLSGADIKAICTEAGLMTLRERRMKVTNEDFK |
Parental | KS-KE-NVLYKKQEGTPEGLYL |
K..KE.NVLYKKQEGT...LYL | |
Retrocopy | KI*KE<NVLYKKQEGTSKWLYL |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP051959_colon | 0 .04 RPM | 22 .32 RPM |
SRP051959_heart | 0 .40 RPM | 26 .31 RPM |
SRP051959_kidney | 2 .11 RPM | 27 .04 RPM |
SRP051959_liver | 0 .09 RPM | 29 .85 RPM |
SRP051959_lung | 0 .68 RPM | 19 .50 RPM |
SRP051959_lymph_node | 0 .05 RPM | 18 .06 RPM |
SRP051959_skeletal_muscle | 0 .11 RPM | 57 .61 RPM |
SRP051959_spleen | 0 .44 RPM | 22 .48 RPM |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Canis familiaris | ENSCAFG00000017510 | 2 retrocopies | |
Choloepus hoffmanni | ENSCHOG00000013595 | 1 retrocopy | |
Callithrix jacchus | ENSCJAG00000017701 | 7 retrocopies |
retro_cjac_1152, retro_cjac_1537, retro_cjac_2417, retro_cjac_2433, retro_cjac_4219 , retro_cjac_661, retro_cjac_678,
|
Dasypus novemcinctus | ENSDNOG00000006458 | 1 retrocopy | |
Homo sapiens | ENSG00000100764 | 10 retrocopies | |
Gorilla gorilla | ENSGGOG00000010620 | 8 retrocopies | |
Macropus eugenii | ENSMEUG00000001526 | 1 retrocopy | |
Microcebus murinus | ENSMICG00000016733 | 7 retrocopies | |
Macaca mulatta | ENSMMUG00000022990 | 1 retrocopy | |
Nomascus leucogenys | ENSNLEG00000017013 | 10 retrocopies | |
Oryctolagus cuniculus | ENSOCUG00000006231 | 4 retrocopies | |
Otolemur garnettii | ENSOGAG00000032343 | 2 retrocopies | |
Pongo abelii | ENSPPYG00000025948 | 9 retrocopies | |
Pan troglodytes | ENSPTRG00000006623 | 9 retrocopies |