RetrogeneDB ID: | retro_mmus_1817 | ||
Retrocopylocation | Organism: | Mouse (Mus musculus) | |
Coordinates: | 19:21937379..21938381(+) | ||
Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSMUSG00000045104 | |
Aliases: | None | ||
Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
Parental gene symbol: | Ldhb | ||
Ensembl ID: | ENSMUSG00000030246 | ||
Aliases: | Ldhb, AI790582, H-Ldh, LDH-B, LDH-H, Ldh-2, Ldh2 | ||
Description: | lactate dehydrogenase B [Source:MGI Symbol;Acc:MGI:96763] |
Percent Identity: | 98.5 % |
Parental protein coverage: | 100. % |
Number of stop codons detected: | 0 |
Number of frameshifts detected | 0 |
Parental | MATLKEKLIASVADDEAAVPNNKITVVGVGQVGMACAISILGKSLADELALVDVLEDKLKGEMMDLQHGS |
MATLKEKLIASVA.DEAAVPNNKITVVGVGQVGMACAISILGKSLADELALVDVLEDKLK.EMMDLQHGS | |
Retrocopy | MATLKEKLIASVAEDEAAVPNNKITVVGVGQVGMACAISILGKSLADELALVDVLEDKLKEEMMDLQHGS |
Parental | LFLQTPKIVADKDYSVTANSKIVVVTAGVRQQEGESRLNLVQRNVNVFKFIIPQIVKYSPDCTIIVVSNP |
LFLQTPKIVADKDYSVTANSKIVVV.AGVRQQEGESRLNLVQRNVNVFKFIIPQIVKYSPDCTIIVVSNP | |
Retrocopy | LFLQTPKIVADKDYSVTANSKIVVVSAGVRQQEGESRLNLVQRNVNVFKFIIPQIVKYSPDCTIIVVSNP |
Parental | VDILTYVTWKLSGLPKHRVIGSGCNLDSARFRYLMAEKLGIHPSSCHGWILGEHGDSSVAVWSGVNVAGV |
VDILTYVTWKL.GLPKHRVIGSGCNLDSARFRYLMAEKLGIHPSSCHGWILGEHGDSSVAVWSGVNVAGV | |
Retrocopy | VDILTYVTWKLRGLPKHRVIGSGCNLDSARFRYLMAEKLGIHPSSCHGWILGEHGDSSVAVWSGVNVAGV |
Parental | SLQELNPEMGTDNDSENWKEVHKMVVDSAYEVIKLKGYTNWAIGLSVADLIESMLKNLSRIHPVSTMVKG |
SLQELNPEMGTDNDSENWKEVHKMVV.SAYEVIKLKGYTNWAIGLSVADLIESMLKNLSRIHPVSTMVKG | |
Retrocopy | SLQELNPEMGTDNDSENWKEVHKMVVVSAYEVIKLKGYTNWAIGLSVADLIESMLKNLSRIHPVSTMVKG |
Parental | MYGIENEVFLSLPCILNARGLTSVINQKLKDDEVAQLRKSADTLWDIQKDLKDL |
MYGIENEVFLSLPCILNARGLTSVINQKLKDDEVAQLRKSADTLWDIQKDLKDL | |
Retrocopy | MYGIENEVFLSLPCILNARGLTSVINQKLKDDEVAQLRKSADTLWDIQKDLKDL |
* | Stop codon |
> | Forward frameshift by one nucleotide |
< | Reverse frameshift by one nucleotide |
Library | Retrocopy expression | Parental gene expression |
---|---|---|
SRP007412_brain | 4 .98 RPM | 323 .16 RPM |
SRP007412_cerebellum | 16 .93 RPM | 420 .62 RPM |
SRP007412_heart | 2 .93 RPM | 1199 .98 RPM |
SRP007412_kidney | 39 .56 RPM | 997 .84 RPM |
SRP007412_liver | 0 .05 RPM | 2 .65 RPM |
SRP007412_testis | 3 .11 RPM | 63 .67 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_63039 | 494 libraries | 283 libraries | 184 libraries | 44 libraries | 67 libraries |
Species | Parental gene accession | Retrocopies number | |
---|---|---|---|
Ailuropoda melanoleuca | ENSAMEG00000016175 | 4 retrocopies | |
Canis familiaris | ENSCAFG00000012195 | 9 retrocopies | |
Cavia porcellus | ENSCPOG00000007138 | 1 retrocopy | |
Dasypus novemcinctus | ENSDNOG00000013620 | 4 retrocopies | |
Felis catus | ENSFCAG00000012639 | 1 retrocopy | |
Gorilla gorilla | ENSGGOG00000015758 | 1 retrocopy | |
Loxodonta africana | ENSLAFG00000000972 | 2 retrocopies | |
Macropus eugenii | ENSMEUG00000004825 | 1 retrocopy | |
Microcebus murinus | ENSMICG00000017183 | 2 retrocopies | |
Myotis lucifugus | ENSMLUG00000012155 | 1 retrocopy | |
Macaca mulatta | ENSMMUG00000002679 | 4 retrocopies | |
Monodelphis domestica | ENSMODG00000017786 | 1 retrocopy | |
Mus musculus | ENSMUSG00000030246 | 4 retrocopies | |
Mus musculus | ENSMUSG00000043262 | 1 retrocopy | |
Mus musculus | ENSMUSG00000063229 | 14 retrocopies | |
Otolemur garnettii | ENSOGAG00000004763 | 9 retrocopies | |
Pteropus vampyrus | ENSPVAG00000002462 | 3 retrocopies | |
Rattus norvegicus | ENSRNOG00000013000 | 3 retrocopies | |
Sus scrofa | ENSSSCG00000000576 | 1 retrocopy |