RetrogeneDB ID: | retro_mmus_999 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 13:22282551..22282953(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMUSG00000084038 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Elovl6 | ||
| Ensembl ID: | ENSMUSG00000041220 | ||
| Aliases: | Elovl6, C77826, FAE, LCE | ||
| Description: | ELOVL family member 6, elongation of long chain fatty acids (yeast) [Source:MGI Symbol;Acc:MGI:2156528] |
Retrocopy-Parental alignment summary:
>retro_mmus_999
AAGAAGTCTTTCCTGTTTTCTGCGCTGTACGCTGCCTTTATCTTTGGTGGTCGGCATCTGATGAACAAGCGAGCCAAGTT
TGAACTTCGGAAGCCGCTCGTGCTCTGGTCGCTGACTCTTGCCGTCTTCAGTATATTCAGTGCTCTTCGAACTGGTGCTT
ACATGCTGTACATTCTGATGTCCAAAGGCCTGAAGCAGTCAGTTTGTGACCAGAGTTTTTACAATGGACCTGTCAGCAAA
TTCTGGACTTATGCATTTGTGCTCAGCAAAACACCCGAACTAGGTGACACGATATTCATCATTCTGAGGAAACAGAAACT
GATCTTCCTGCAGTAGTACCACCACATCACTGTGCTTCTGTACTCCTGGTACTCCTACAAAGACATGGTCGCTGGGGGTG
GG
ORF - retro_mmus_999 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 95.52 % |
| Parental protein coverage: | 50.19 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | KKSFLFSALYAAFIFGGRHLMNKRAKFELRKPLVLWSLTLAVFSIFGALRTGAYMLYILMTKGLKQSVCD |
| KKSFLFSALYAAFIFGGRHLMNKRAKFELRKPLVLWSLTLAVFSIF.ALRTGAYMLYILM.KGLKQSVCD | |
| Retrocopy | KKSFLFSALYAAFIFGGRHLMNKRAKFELRKPLVLWSLTLAVFSIFSALRTGAYMLYILMSKGLKQSVCD |
| Parental | QSFYNGPVSKFWAYAFVLSKAPELGDTIFIILRKQKLIFLHWYHHITVLLYSWYSYKDMVAGGG |
| QSFYNGPVSKFW.YAFVLSK.PELGDTIFIILRKQKLIFL..YHHITVLLYSWYSYKDMVAGGG | |
| Retrocopy | QSFYNGPVSKFWTYAFVLSKTPELGDTIFIILRKQKLIFLQ*YHHITVLLYSWYSYKDMVAGGG |
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 .02 RPM | 67 .45 RPM |
| SRP007412_cerebellum | 0 .04 RPM | 76 .77 RPM |
| SRP007412_heart | 0 .00 RPM | 2 .99 RPM |
| SRP007412_kidney | 0 .04 RPM | 59 .46 RPM |
| SRP007412_liver | 0 .05 RPM | 157 .02 RPM |
| SRP007412_testis | 0 .00 RPM | 12 .53 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_999 was not detected
No EST(s) were mapped for retro_mmus_999 retrocopy.
No TSS is located nearby retro_mmus_999 retrocopy 5' end.
retro_mmus_999 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_999 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000003975 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000041220 | 1 retrocopy |
retro_mmus_999 ,
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