RetrogeneDB ID: | retro_dnov_2449 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_75831:2058..2577(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | EBAG9 | ||
| Ensembl ID: | ENSDNOG00000007465 | ||
| Aliases: | None | ||
| Description: | estrogen receptor binding site associated, antigen, 9 [Source:HGNC Symbol;Acc:3123] |
Retrocopy-Parental alignment summary:
>retro_dnov_2449
ATGGCCATCACTCAGTTCCGGTTATTTAAAGTTTGTACCTGCCTAGCAACAGTATTCTCATTCCTAAAGAGATTAATATG
CAGATCTGGCAGAGGACGGAAATTAAGTGGAGACCAAATAATTTTGCCAACGACAGTTGATTATTCATCGGTTCCTAAGC
AGACAGATGTTGAAGAGTGGACTTCCTGGGATGAAGATGCACCCACAAGTGTAAAGATTGAAGGAGGGAATGGGAATGTG
GCAGTACAACAAAATGCTTTGGAACAGTTGGAACCCGACTATTTTAAGGACATGACACCAACTATAAGAAAGACTCAAAA
AATTGTTATTAAGAAGAGAGAACCATTAAATTTTGGCATTCCAGATGGAAGCACAGGTTTCTCTAGTAGATTAGCAGCTA
CACAAGATATGCCTTTTATTCATCAATCTCCTGAATTAGGTGACTTAGATACCTGGCAAGAAAATACCAATGCATGGGAG
GAAGAAGAAGATGCAGCCTGGCAAGCAGAAGAAGTTCTG
ORF - retro_dnov_2449 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 91.91 % |
| Parental protein coverage: | 81.6 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MAITQFRLFKVCTCLATVFSFLKRLICRSGRGRKLSGDQIILTKTVDYSSVPKQTDGQEWTSWDEDAPIS |
| MAITQFRLFKVCTCLATVFSFLKRLICRSGRGRKLSGDQIIL..TVDYSSVPKQTD..EWTSWDEDAP.S | |
| Retrocopy | MAITQFRLFKVCTCLATVFSFLKRLICRSGRGRKLSGDQIILPTTVDYSSVPKQTDVEEWTSWDEDAPTS |
| Parental | VKIEGGNGNVAIPPNFWEQLETDYFKDMTPTIRKTPKIVIKKREPLNFGIPDGSTGFSSRLAARQDMPFI |
| VKIEGGNGNVA...N..EQLE.DYFKDMTPTIRKT.KIVIKKREPLNFGIPDGSTGFSSRLAA.QDMPFI | |
| Retrocopy | VKIEGGNGNVAVQQNALEQLEPDYFKDMTPTIRKTQKIVIKKREPLNFGIPDGSTGFSSRLAATQDMPFI |
| Parental | HQAPELGDLDTWQENTNAWEEEEDAAWQAEEVL |
| HQ.PELGDLDTWQENTNAWEEEEDAAWQAEEVL | |
| Retrocopy | HQSPELGDLDTWQENTNAWEEEEDAAWQAEEVL |
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 | 35 .39 RPM | 1 .56 RPM |
| SRP012922_cerebellum | 15 .26 RPM | 0 .96 RPM |
| SRP012922_heart | 7 .43 RPM | 0 .46 RPM |
| SRP012922_kidney | 18 .89 RPM | 0 .55 RPM |
| SRP012922_liver | 10 .53 RPM | 0 .93 RPM |
| SRP012922_lung | 18 .94 RPM | 1 .22 RPM |
| SRP012922_quadricep_muscle | 11 .94 RPM | 0 .35 RPM |
| SRP012922_spleen | 21 .75 RPM | 0 .92 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_2449 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 5 parental genes, and 9 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000007465 | 2 retrocopies |
retro_dnov_1014, retro_dnov_2449 ,
|
| Macropus eugenii | ENSMEUG00000014115 | 3 retrocopies | |
| Monodelphis domestica | ENSMODG00000004795 | 2 retrocopies | |
| Pongo abelii | ENSPPYG00000018824 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000020513 | 1 retrocopy |