RetrogeneDB ID: | retro_mmur_1516 | ||
Retrocopy location | Organism: | Mouse Lemur (Microcebus murinus) | |
| Coordinates: | scaffold_73975:3693..4889(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMICG00000014172 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | GPATCH4 | ||
| Ensembl ID: | ENSMICG00000013624 | ||
| Aliases: | None | ||
| Description: | G patch domain containing 4 [Source:HGNC Symbol;Acc:25982] |
Retrocopy-Parental alignment summary:
>retro_mmur_1516
CATGGGGTGGGACACGACCCTGCAAGGAGTCACAAACCACGGGTGGAACGAGCTCTTCACAAGACTGCAGCCAACTTGGT
AGTGGAGACTGGACAGGATGGAGGACAGATAAGGCGCCTTTCTACGGAGACCACCTGTCGAAACGTAATCCTCCCAAGCC
CAACTTGCTGTATCAGAAGTTTGCGAAGACGGCTACCCTGACTTCCAGATGGAGGGAAGCCAGACAAAGACATGGAGAGC
TGCAGTGATGATGACAACCAGAGGCCCAACCCCCAAAGATTCTGACGGATGAGATGCTGCTCCAAGCCTGTGAGGGCGAA
CAGCACACAAGGCAGCCGTCTTGGGATTACGATGGAGGCCAGGCTTGCTCGGCTGGAGGCCCAGGAGCAGGCCTTCCTGG
CTCATCTCAAAGGCCAGGCCTCTCAGGCCTCTCAACCACAGTCAGAGAGCAAGCCCCGCAAAAAGAACAAAAAGAAAAGG
AAGCACAAAGAGTAGCCAAGAGGCTACAGCACCTGAAAGGAACGCAGATGAGAAGCAGCCAGAACACACTGACCAGAGCA
CCAGGAAAAGCAAGAAGAAGAAAAGGCAACATCAAGAACGAAAGGTCTCAGATAAGAGAGAGGGAACGACTGTAAGGAAT
GGGGAGGAAGAAGCTGCGGGAACAAGTGAGCTTAGGGAATTGAAGAGCAGAGAGCAAACAGATCAGTCCCCCAGGAAAAG
GAAGAGAAAGAAGAGGCAGCACCATGAAGAGGAGAAGACGGGAGTCTTGGGTGACAGAGGAAGAGGTAAGGAGGCTACAG
GTGCTGTCAGGACAGAGGAGGCAGAGAGCACAGTGTCCACTGACCCGGGCAGCAAAAGCAAGAAGAAACAGCACCATGAG
AAGGATTTGAACCTAGAGGATGAAGAAGTTGAGGAAACCGTTTTAGACGGTGGGACTACGGACACAGAGAACAGAGCATG
CAGTGATGGAGGAAGGAGAAGCAAGAAGAAAACACGGCGACATCGAGAGGAGGAGGAAGTCGTCGATGTAAGGGATGGAA
GAGATGAGGAGGACGGCAGGACTCGGAAAGCAGGGAGCAGAGCACACACTGGCTCACGCAGCAGAGGTGAGAAGAGGAGG
AAACGGCGGTCAGAGGAAGCAAGCTGGAGTTGGCACCGACCAGACAACCAAAAAGAAGAAACAGAGGAAGGGAGAC
ORF - retro_mmur_1516 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.73 % |
| Parental protein coverage: | 88.99 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 10 |
Retrocopy - Parental Gene Alignment:
| Parental | HGVGHD-PAKE-FTNHWWNELF-NKTAANLVVETGQDGVQIRRLSTETTCRNP--PKP-NLLYQKFVKTA |
| HGVGHD.P.KE..TNH.WNELF..KTAANLVVETGQDG.QIRRLSTETTCRN...P.P.NLLYQKF.KTA | |
| Retrocopy | HGVGHD<PCKE<VTNHGWNELF<HKTAANLVVETGQDGGQIRRLSTETTCRNVILPSP<NLLYQKFAKTA |
| Parental | TLTS-DGEKPDKDMESCSDDDNQRPN-PPKILTDEMLLQACE-GRTAHKAA-RLGITMKAKLARLEAQEQ |
| TLTS.DG.KPDKDMESCSDDDNQRPN.PPKILTDEMLLQACE.GRTAHKAA.RLGITM.A.LARLEAQEQ | |
| Retrocopy | TLTS>DGGKPDKDMESCSDDDNQRPN<PPKILTDEMLLQACE<GRTAHKAA<RLGITMEARLARLEAQEQ |
| Parental | AFLAHLKGQDSQASQPQSESKPPKKKKKKRKHKE-EEEATASERNADEKHPEHTDQSTRKSKKKKRQHQE |
| AFLAHLKG.......PQSESKP.KK.KKKRKHKE...EATA.ERNADEK.PEHTDQSTRKSKKKKRQHQE | |
| Retrocopy | AFLAHLKGXXXXXXXPQSESKPRKKNKKKRKHKE>SQEATAPERNADEKQPEHTDQSTRKSKKKKRQHQE |
| Parental | QMVSDKREGTTVGNEEEEATGTSELRELKSREQTDQSPRKRKRKKKQHHGEEKTGVLDEGGRGK-ATGAV |
| ..VSDKREGTTV.N.EEEA.GTSELRELKSREQTDQSPRKRKRKK.QHH.EEKTGVL...GRGK.ATGAV | |
| Retrocopy | RKVSDKREGTTVRNGEEEAAGTSELRELKSREQTDQSPRKRKRKKRQHHEEEKTGVLGDRGRGKEATGAV |
| Parental | RTEAVESTVYTDPCSRSKKKRHCEKDLNLEDEEVGETVLDSGTRDTENRACSDGGRRSKKKTRRHREEEE |
| RTE..ESTV.TDP.S.SKKK.H.EKDLNLEDEEV.ETVLD.GT.DTENRACSDGGRRSKKKTRRHREEEE | |
| Retrocopy | RTEEAESTVSTDPGSKSKKKQHHEKDLNLEDEEVEETVLDGGTTDTENRACSDGGRRSKKKTRRHREEEE |
| Parental | VVNVGDERDEGDGRTRKAESSAHTGSSSRGKKRRKRQRKKAGVGTDQ-RTKKK-KQKKGD |
| VV.V.D.RDE.DGRTRKA.S.AHTGS.SRG.KRRKR....A........T.KK.KQ.KGD | |
| Retrocopy | VVDVRDGRDEEDGRTRKAGSRAHTGSRSRGEKRRKRRSEEASWSWHR>QTTKKKKQRKGD |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Microcebus murinus was not studied using RNA-Seq expression data.
Microcebus murinus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mmur_1516 retrocopy.
Microcebus murinus was not studied using FANTOM5 data.
retro_mmur_1516 was not experimentally validated.
Retrocopy orthology:
Microcebus murinus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 3 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Microcebus murinus | ENSMICG00000013624 | 2 retrocopies |
retro_mmur_1516 , retro_mmur_63,
|
| Otolemur garnettii | ENSOGAG00000006698 | 1 retrocopy | |
| Rattus norvegicus | ENSRNOG00000018969 | 1 retrocopy |