RetrogeneDB ID: | retro_mmus_544 | ||
Retrocopy location | Organism: | Mouse (Mus musculus) | |
| Coordinates: | 10:30373878..30374514(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | Mkrn2 | ||
| Ensembl ID: | ENSMUSG00000000439 | ||
| Aliases: | Mkrn2, 2610002L04Rik, C81377 | ||
| Description: | makorin, ring finger protein, 2 [Source:MGI Symbol;Acc:MGI:1914277] |
Retrocopy-Parental alignment summary:
>retro_mmus_544
GACCCAGAACAAAGGAAAGCTCATGAGAAGATGTGTATGTTGACATTTGAACATGAGATGGACAAGGCGTTTGCCTTCCA
GGCGAGCCAGGACAAAGTGTGCAGCATCTGTATGGAGGTGATCCTTGAGAAAGCATCTGCTTTTGAGAGGAGTTTTGGCG
TTCTCTCCAACTGCAGCCGCACCTACTGCCTGTCCTGCATCCATCAATGGCAATGTGCCAAACAGTTTGAAAACCTGATC
ATAAAGTCTTGTCCAGAGTGCCGTGTGATATCAGAGTTTGTAATTCCAAGTGTGTATTGGGTAGAAAATCGGAATAAAAG
GAATGAATTAATTGAAGCTTTCAAACGGGGAATGAGGGAAAAGGCATGTAAATACTTTGAACAAGACAAGGGGACCTGCC
CCTTTGGAAGCAAGTGCCTTTACCACCATGCTTACCCTCATGGGCGGCTGGCAGAGCCAGAGAAACCTCGGAAGCAGCTA
AACTCTGAAGGAACTGTGAGGTTCTTTAACTCAGTGTGGCTTTGGGATTTTATCGAGAACCAAGAAACCCGGCAAGTCCC
CAGCACTGATAATGTGGATGTGATAGTGCTAGGAGGCCTTTTCATGCACCTTTCTGGAGTAGAGTCATCAGAACCC
ORF - retro_mmus_544 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 88.21 % |
| Parental protein coverage: | 50.96 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | DPEQRKAHEKMCMSTFEHEMEKAFAFQASQDKVCSICMEVILEKASASERRFGILSNCSHTYCLSCIRQW |
| DPEQRKAHEKMCM.TFEHEM.KAFAFQASQDKVCSICMEVILEKASA.ER.FG.LSNCS.TYCLSCI.QW | |
| Retrocopy | DPEQRKAHEKMCMLTFEHEMDKAFAFQASQDKVCSICMEVILEKASAFERSFGVLSNCSRTYCLSCIHQW |
| Parental | RCAKQFENPIIKSCPECRVISEFVIPSVYWVEDQNKKNELIEAFKQGMGKKACKYFEQGKGTCPFGSKCL |
| .CAKQFEN.IIKSCPECRVISEFVIPSVYWVE..NK.NELIEAFK.GM..KACKYFEQ.KGTCPFGSKCL | |
| Retrocopy | QCAKQFENLIIKSCPECRVISEFVIPSVYWVENRNKRNELIEAFKRGMREKACKYFEQDKGTCPFGSKCL |
| Parental | YRHAYPDGRLAEPEKPRKQLSSEGTVRFFNSVRLWDFIENRETRQVPSTDDVDVTELGDLFMHLSGVESS |
| Y.HAYP.GRLAEPEKPRKQL.SEGTVRFFNSV.LWDFIEN.ETRQVPSTD.VDV..LG.LFMHLSGVESS | |
| Retrocopy | YHHAYPHGRLAEPEKPRKQLNSEGTVRFFNSVWLWDFIENQETRQVPSTDNVDVIVLGGLFMHLSGVESS |
| Parental | EP |
| EP | |
| Retrocopy | EP |
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 | 20 .19 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 19 .76 RPM |
| SRP007412_heart | 0 .00 RPM | 26 .99 RPM |
| SRP007412_kidney | 0 .00 RPM | 18 .23 RPM |
| SRP007412_liver | 0 .00 RPM | 9 .99 RPM |
| SRP007412_testis | 0 .00 RPM | 62 .62 RPM |
RNA Polymerase II activity near the 5' end of retro_mmus_544 was not detected
No EST(s) were mapped for retro_mmus_544 retrocopy.
No TSS is located nearby retro_mmus_544 retrocopy 5' end.
retro_mmus_544 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_mmus_544 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 5 parental genes, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000016733 | 1 retrocopy | |
| Mus musculus | ENSMUSG00000000439 | 2 retrocopies |
retro_mmus_3578, retro_mmus_544 ,
|
| Mus musculus | ENSMUSG00000029922 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000003255 | 1 retrocopy | |
| Pteropus vampyrus | ENSPVAG00000005822 | 1 retrocopy |