RetrogeneDB ID: | retro_cjac_3050 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 8:20851352..20852332(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | COQ5 | ||
| Ensembl ID: | ENSCJAG00000001205 | ||
| Aliases: | None | ||
| Description: | coenzyme Q5 homolog, methyltransferase (S. cerevisiae) [Source:HGNC Symbol;Acc:28722] |
Retrocopy-Parental alignment summary:
>retro_cjac_3050
ATGGCGGCTCCCAGAAGCTTGGCTCTATGGAACTATTGCAGTCGTAGGTGGTTGCAGGCGATGCGGGGCTGTCACCTCCT
CGGAGTTCATGGCTCTTCGCCCAGGGCCCCACTAAGTGTGCGGCTCTTGTCCCAAGAGAAGTGGGGAACAGAAATGCACT
TCGGGTTTCAGACTGTGTCGGAAGAGGAAAAGGGGGGCAAAGTCCATCAGGTGTTTGAAAGTGTGCCTAAGAAGTATGAT
GTGATGAATAATATGATGAGTCTTGGTATCCATCATCTTTGGAAGGATTTGGTGCTCTGGAAGATGCATCTGCTTCCTGG
AACCCAGCTGCTTGATGTTGCTGGAGGCACAGGTGACATTGGATTCCGGTTCTTAAATTATGTTTAGTCCCAGCATCAGA
GAAAACAGAAGAGGCAGTTAAGGGCCCAACAAAGTTTATCCTGGGAAGAAATTGCCAAAGAGTACCAAAATGAAGAAGAT
TCCTTGGGCGGGTCTCATGTCATGGTGTGTGACATCAACAAGGAGATGCTAAAGGCTGGAAAGCAGAAAGTCTTGGCTCA
AGGATACAGAGCTGGACTTGCATGGGTATTAGGAGATGCCGAAGAACTGCCCTTTGATGATGACAAGTTTGACATTTACA
CCATTGCCTTTGGGATTCAGAATGTCACACACATTGGTCAGGCAACCCAGGAAGCCCATTGGGTGCTAAAACCAGGAGGA
TGGTTTCTGTGTCTGGAGTTTAGCCAAGTGAACAATCCCCTCATATCCAGGCTTTATGACCTATATAGCTTCCAGGTCAT
CCCTGTCCTGGGAGAGGTCATTGCTGGAGACTGAAAGTCCTATCAACCCTTGTAGAGAGTATCCAAAGGTTTCTGTCTCA
GGAAGAGTTCAAGGAGATGATAGAAGGTGCAGGCTTTCACAAGGTCACTTATGATAGCCTAACATCAGGCATGTTGGCCA
TTCATTCTGCCTTCAAACTT
ORF - retro_cjac_3050 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 89.63 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MAAPRSLALWNYCSRRWSRAMRGCQLLGLRGSWPEAPLSARLLSQEKRATETHFGFQTVSEEEKGGKVHQ |
| MAAPRSLALWNYCSRRW..AMRGC.LLG..GS.P.APLS.RLLSQEK..TE.HFGFQTVSEEEKGGKVHQ | |
| Retrocopy | MAAPRSLALWNYCSRRWLQAMRGCHLLGVHGSSPRAPLSVRLLSQEKWGTEMHFGFQTVSEEEKGGKVHQ |
| Parental | VFESVAKKYDVMNDMMSLGIHRLWKDLLLWKMHPLPGTQLLDVAGGTGDIAFRFLNYVQSQHQRKQKRQL |
| VFESV.KKYDVMN.MMSLGIH.LWKDL.LWKMH.LPGTQLLDVAGGTGDI.FRFLNYV.SQHQRKQKRQL | |
| Retrocopy | VFESVPKKYDVMNNMMSLGIHHLWKDLVLWKMHLLPGTQLLDVAGGTGDIGFRFLNYV*SQHQRKQKRQL |
| Parental | RAQQSLSWEEIAKEYQNEEDSLGGSHVMVCDINKEMLKVGKQKALAQGYRAGLAWVLGDAEELPFDDDKF |
| RAQQSLSWEEIAKEYQNEEDSLGGSHVMVCDINKEMLK.GKQK.LAQGYRAGLAWVLGDAEELPFDDDKF | |
| Retrocopy | RAQQSLSWEEIAKEYQNEEDSLGGSHVMVCDINKEMLKAGKQKVLAQGYRAGLAWVLGDAEELPFDDDKF |
| Parental | DIYTIAFGIRNVTHIDQALQEAHRVLKPGGRFLCLEFSQVNNPLISRLYDLYSFQVIPVLGEVIAGDWKS |
| DIYTIAFGI.NVTHI.QA.QEAH.VLKPGG.FLCLEFSQVNNPLISRLYDLYSFQVIPVLGEVIAGD.KS | |
| Retrocopy | DIYTIAFGIQNVTHIGQATQEAHWVLKPGGWFLCLEFSQVNNPLISRLYDLYSFQVIPVLGEVIAGD*KS |
| Parental | YQ-YLVESIRRFPSQEEFKEMIEDAGFHKVTYESLTSGIVAIHSAFKL |
| YQ..LVESI.RF.SQEEFKEMIE.AGFHKVTY.SLTSG..AIHSAFKL | |
| Retrocopy | YQ<TLVESIQRFLSQEEFKEMIEGAGFHKVTYDSLTSGMLAIHSAFKL |
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 |
|---|---|---|
| SRP051959_colon | 0 .00 RPM | 3 .95 RPM |
| SRP051959_heart | 0 .04 RPM | 15 .65 RPM |
| SRP051959_kidney | 0 .00 RPM | 13 .49 RPM |
| SRP051959_liver | 0 .00 RPM | 11 .68 RPM |
| SRP051959_lung | 0 .00 RPM | 5 .61 RPM |
| SRP051959_lymph_node | 0 .00 RPM | 7 .15 RPM |
| SRP051959_skeletal_muscle | 0 .00 RPM | 12 .14 RPM |
| SRP051959_spleen | 0 .00 RPM | 6 .18 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_3050 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_3050 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_3050 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000001205 | 4 retrocopies | |
| Microcebus murinus | ENSMICG00000006371 | 1 retrocopy | |
| Tupaia belangeri | ENSTBEG00000009255 | 1 retrocopy |