RetrogeneDB ID: | retro_dnov_1586 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_240:317273..317798(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | KATNBL1 | ||
| Ensembl ID: | ENSDNOG00000016279 | ||
| Aliases: | None | ||
| Description: | katanin p80 subunit B-like 1 [Source:HGNC Symbol;Acc:26199] |
Retrocopy-Parental alignment summary:
>retro_dnov_1586
ATGGCATCTGAAACTCACAGTTTTTAAAAAATGGAACTTTTGTAATCATATTGAAAATCATTCCATTGATCTTCTGAGAG
AAAGGATCTCTAATTTCACTAATAAGAACTTGAAGGAGGTTAAGAAATCTCCAAAGCAGCTGGCAACTTACATAAATAGA
AGAGTTGGCCAAGCTGTGAAAGCACAAAATACATAAGTGATCTTTCTACACAGAAAGTTCATCATCCTTCTCCAAATCCT
TGTTACAGAGAAAACAGTCCCAAGAAGTGGGGGCTGTGACATGTCAAATAAAGAAAATGCAGTGACTTGTGCAGGCCACT
GCCTGAAAAATTATGCCATGAGAGTTAAACATATTGAGTTAATTTCAATGAGTCTGGTTCTTCACAGACAGAAAGCCCAT
CATCAAAATGGAGTGGGTATTTTTCTGAGATTTTTGAGAACAATGAAACAATGGCACAAGTTTTGGTTAGCAGAAATTTG
AGATTGAATGTAGCTTTAACTTTCTGGAGGAAGAGAACTTGTAGC
ORF - retro_dnov_1586 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.13 % |
| Parental protein coverage: | 58.55 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 5 |
Retrocopy - Parental Gene Alignment:
| Parental | MASETHNV-KKRNFCNNIEDHSVDLPRKRISNFTIKNMKEVKKSRKQLAAYINRTVGQAVKSTDKLYKVI |
| MASETH...KK.NFCN.IE.HS.DL.R.RISNFT.KN.KEVKKS.KQLA.YINR.VGQAVK.......VI | |
| Retrocopy | MASETHSF>KKWNFCNHIENHSIDLLRERISNFTNKNLKEVKKSPKQLATYINRRVGQAVKAQNT--*VI |
| Parental | YRRKK-VHHPSPNPYYR-RKQS-PRSGGCDMANKENEVACASH-LPEKLRHDSRTYLVNSSDSGSSQTES |
| ....K.VHHPSPNP.YR.RKQS.PRSGGCDM.NKEN.V.CA.H.LPEKL.H.S.TY.VN...SGSSQTES | |
| Retrocopy | FLHRK<VHHPSPNPCYR<RKQS<PRSGGCDMSNKENAVTCAGH<LPEKLCHES*TY*VNFNESGSSQTES |
| Parental | PSSKYSGFFSEVSQDHETMAQVLFSRNLRLNVALTFWRKRNIS |
| PSSK.SG.FSE.....ETMAQVL.SRNLRLNVALTFWRKR..S | |
| Retrocopy | PSSKWSGYFSEIFENNETMAQVLVSRNLRLNVALTFWRKRTCS |
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 | 2 .92 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 0 .96 RPM |
| SRP012922_heart | 0 .00 RPM | 1 .86 RPM |
| SRP012922_kidney | 0 .00 RPM | 0 .82 RPM |
| SRP012922_liver | 0 .00 RPM | 0 .62 RPM |
| SRP012922_lung | 0 .00 RPM | 3 .21 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 1 .56 RPM |
| SRP012922_spleen | 0 .00 RPM | 4 .58 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_1586 was not experimentally validated.