RetrogeneDB ID: | retro_mmus_1588 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 17:70400133..70400657(+) | ||
| Located in intron of: | ENSMUSG00000003279 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Dcakd | ||
| Ensembl ID: | ENSMUSG00000020935 | ||
| Aliases: | Dcakd, 3010024O21Rik, 6720485C15Rik, AI849483 | ||
| Description: | dephospho-CoA kinase domain containing [Source:MGI Symbol;Acc:MGI:1915337] |
Retrocopy-Parental alignment summary:
>retro_mmus_1588
ATGTTTCTAGTAGGCCTAATGGGAGACATTGCCTCAGGCAAAAGCTCTGCCATCCATGTGTTCCAACAGCTGGGTTGTAC
TGTGACTGATGCAAACATCATTGCCTGGCAAATCATTCAGCCAGAATATCATGCCCACTGGTGTATTGTAGAGGTCTTTG
GCACCGAAGTCTTGCTGAAGAACGGCAACATCATCAACCAGAAGGTCCTTAGAGACCTGATCTTAAACCAGCATGACTAT
CAGCAGCTACTCAACTCCATCACCCACCCAGAGATCTGCAAGGAAATGATGAAGGAGATCTACAAGTACCTTCTCCAAGG
TACCACCATGTGATTCTGGACATCCCCCACCTTTTTGAGACCAAGAAGCTGCTCAGGTACATGAAAGACACAGTGGTGGT
ATACACCAACCAAGATATACAACTGGCACAGAACAACCTAAACCAAGAGGACACAGAGGCAAGGATCAGTGCCCAGCTGC
CCCTGAAAGACAAGGCCTACATGGCCAACCATGTTCTAGAGAAC
ORF - retro_mmus_1588 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.56 % |
| Parental protein coverage: | 77.06 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MFLVGLTGGIASGKSSVIQVFQQLGCAVIDVDVIARHVVQPGYPAHRRIVEAFGTEVLLENGD-IDRKVL |
| MFLVGL.G.IASGKSS.I.VFQQLGC.V.D...IA....QP.Y.AH..IVE.FGTEVLL.NG..I..KVL | |
| Retrocopy | MFLVGLMGDIASGKSSAIHVFQQLGCTVTDANIIAWQIIQPEYHAHWCIVEVFGTEVLLKNGNIINQKVL |
| Parental | GDLIFNQPDRRQLLNSITHPEIRKEMMKETFKYFLRG-YRYVILDIPLLFETKKLLKYMKHTVVVYCDRD |
| .DLI.NQ.D..QLLNSITHPEI.KEMMKE..KY.L.G.Y..VILDIP.LFETKKLL.YMK.TVVVY...D | |
| Retrocopy | RDLILNQHDYQQLLNSITHPEICKEMMKEIYKYLLQG<YHHVILDIPHLFETKKLLRYMKDTVVVYTNQD |
| Parental | TQLARLMKRNNLNREDAEARINAQLPLKDKARMANHVLDN |
| .QLA.....NNLN.ED.EARI.AQLPLKDKA.MANHVL.N | |
| Retrocopy | IQLA----QNNLNQEDTEARISAQLPLKDKAYMANHVLEN |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)
Expression validation based on RNA-Seq data:
| Library | Retrocopy expression | Parental gene expression |
|---|---|---|
| SRP007412_brain | 0 .05 RPM | 25 .77 RPM |
| SRP007412_cerebellum | 0 .43 RPM | 22 .06 RPM |
| SRP007412_heart | 0 .00 RPM | 44 .24 RPM |
| SRP007412_kidney | 0 .02 RPM | 15 .84 RPM |
| SRP007412_liver | 0 .00 RPM | 14 .15 RPM |
| SRP007412_testis | 0 .00 RPM | 10 .02 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_1588 was not detected
No EST(s) were mapped for retro_mmus_1588 retrocopy.
No TSS is located nearby retro_mmus_1588 retrocopy 5' end.
retro_mmus_1588 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_1588 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000032388 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000011245 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000020935 | 1 retrocopy |
retro_mmus_1588 ,
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