RetrogeneDB ID: | retro_dnov_2210 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_55762:3005..3491(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSDNOG00000000030 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSDNOG00000025841 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_dnov_2210
GGCAGCCAGAATGATGTCAGTGGCTTTGTGGACCCAGTACTGGCCCTCCAGGATGCCCAGGATCTGCATACAACAGGGAA
GAAGATCCATAGAACTGACGAGATGTAGTTCATCACCATGCTGACCATGCAGAGCACCCCCCTGATAAGGGTGTTTGAGG
AATATGAGAGAATTACCAACAAGAGCATGGAGGACAATATCCAGAGTGAGACCCAAGGTTTACTGTAGGAGGCCATGCTA
ACTGCGGTGGTGGTGAAATGCATACAGAACCTGCACAGCTATTTAGTGGAGTGGCTCTACTATGCCATAAAGGGAGTAGA
GATGAGGGATGGCACCCTGATAAGAAACATCATTTCAAGGAGCGAGATTGACTTAAATCTGATCAAGTGTCAGTTCCAGA
AGACATAAGGCCAGACACTCAGGAATATGATCACGGAGGACACCAGTGGTGACCACAAGAATGCCCTGCTGAACCTGGTA
GGCAGT
ORF - retro_dnov_2210 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 61.96 % |
| Parental protein coverage: | 55.71 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | GSRDDVSGFVDPALALQDAQDLFAAGEKIHGTDEMKFITILTTRSATHLMRVFEEYEKIANKSIEDSIKS |
| GS..DVSGFVDP.LALQDAQDL...G.KIH.TDEM.FIT.LT..S.T.L.RVFEEYE.I.NKS.ED.I.S | |
| Retrocopy | GSQNDVSGFVDPVLALQDAQDLHTTGKKIHRTDEM*FITMLTMQS-TPLIRVFEEYERITNKSMEDNIQS |
| Parental | ETHGSLEEVMLT--VVKCTQNLHSYFAERLYYAMKXXXXXXXXXXXXXXXXXXXXLNLIKGQFKKMYGQS |
| ET.G.L.E.MLT..VVKC.QNLHSY..E.LYYA.K....................LNLIK.QF.K..GQ. | |
| Retrocopy | ETQGLL*EAMLTAVVVKCIQNLHSYLVEWLYYAIKGVEMRDGTLIRNIISRSEIDLNLIKCQFQKT*GQT |
| Parental | LSSKIAEDTSGDYRNALLNLVGS |
| L...I.EDTSGD..NALLNLVGS | |
| Retrocopy | LRNMITEDTSGDHKNALLNLVGS |
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 | 0 .19 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 0 .14 RPM |
| SRP012922_heart | 0 .00 RPM | 0 .00 RPM |
| SRP012922_kidney | 0 .00 RPM | 1 .92 RPM |
| SRP012922_liver | 0 .00 RPM | 0 .31 RPM |
| SRP012922_lung | 0 .00 RPM | 0 .46 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 0 .00 RPM |
| SRP012922_spleen | 0 .00 RPM | 3 .66 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_2210 was not experimentally validated.
Retrocopy orthology:
Dasypus novemcinctus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000025841 | 1 retrocopy |
retro_dnov_2210 ,
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