RetrogeneDB ID: | retro_dnov_167 | ||
Retrocopylocation | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_2272:183136..183512(-) | ||
| Located in intron of: | ENSDNOG00000007458 | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | FAM204A | ||
| Ensembl ID: | ENSDNOG00000001383 | ||
| Aliases: | None | ||
| Description: | family with sequence similarity 204, member A [Source:HGNC Symbol;Acc:25794] |
Retrocopy-Parental alignment summary:
>retro_dnov_167
GAAGATGAAGACTTACTTAGCAGATAGAAAGATAAAGATCAGATATTTAGAAAAACCGAACTCTCAGCCCTCGCCACAGA
TGGGTTAAAAGCTAAAACAGAGGTAACTATAAATGCATATGAAGAGTACCCTTCTGGAATTCCATTAACTACGTGCAGTA
AATTTCAAGAATTTCATAAAAACATTCCGAACAAAAAACCTCAACCTCAAGATTCTGGGAGGAAAAGAACAAAATATTTC
AGTAAAGACAAACTGAAGAACAAAAAGGCATTTTACAGTGAACAATCCTCAAATGAGCTCAGTGGAAGAGTATACTCTAT
ATTTTGGAGTCAATGGCAGGATTTGAAGGAAGAAAAAATAAAAACTGATAGAAAAA
GAAGATGAAGACTTACTTAGCAGATAGAAAGATAAAGATCAGATATTTAGAAAAACCGAACTCTCAGCCCTCGCCACAGA
TGGGTTAAAAGCTAAAACAGAGGTAACTATAAATGCATATGAAGAGTACCCTTCTGGAATTCCATTAACTACGTGCAGTA
AATTTCAAGAATTTCATAAAAACATTCCGAACAAAAAACCTCAACCTCAAGATTCTGGGAGGAAAAGAACAAAATATTTC
AGTAAAGACAAACTGAAGAACAAAAAGGCATTTTACAGTGAACAATCCTCAAATGAGCTCAGTGGAAGAGTATACTCTAT
ATTTTGGAGTCAATGGCAGGATTTGAAGGAAGAAAAAATAAAAACTGATAGAAAAA
ORF - retro_dnov_167 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 51.54 % |
| Parental protein coverage: | 54.78 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | ENSELNLQEDKEDQATRKSEISDSPIDGSKTETEANVNAYKECPSGISLNMWNKFQELHK-KHSEQKNLA |
| E...L.......DQ..RK.E.S....DG.K..TE...NAY.E.PSGI.L....KFQE.HK.KHSEQK... | |
| Retrocopy | EDEDLLSR*KDKDQIFRKTELSALATDGLKAKTEVTINAYEEYPSGIPLTTCSKFQEFHK<KHSEQKTST |
| Parental | TRF-RRKKRKRSRKDKLKNEEASSSEHSPNE-TQWK-ELTQYFGVNDRFDPPVKKKKIEK |
| .RF..RK..K...KDKLKN..A..SE.S.NE..QWK.E.T.YFGVN.R.....K.K.IEK | |
| Retrocopy | SRF>GRKRTKYFSKDKLKNKKAFYSEQSSNE<AQWK<EYTLYFGVNGRI*RKKK*KLIEK |
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 |
|---|---|---|
| SRP012922_ascending_colon | 0 .00 RPM | 42 .01 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 47 .70 RPM |
| SRP012922_heart | 0 .00 RPM | 26 .92 RPM |
| SRP012922_kidney | 0 .55 RPM | 56 .68 RPM |
| SRP012922_liver | 0 .00 RPM | 8 .36 RPM |
| SRP012922_lung | 0 .00 RPM | 59 .41 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 29 .94 RPM |
| SRP012922_spleen | 0 .00 RPM | 60 .55 RPM |
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_167 was not experimentally validated.