RetrogeneDB ID: | retro_dnov_22 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_38593:50502..51051(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSDNOG00000019290 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | FOXR1 | ||
| Ensembl ID: | ENSDNOG00000009414 | ||
| Aliases: | None | ||
| Description: | forkhead box R1 [Source:HGNC Symbol;Acc:29980] |
Retrocopy-Parental alignment summary:
>retro_dnov_22
ATGGACTTAAAACTTAAAAATCTTGAATTTTGGTACAGTCTCCATGGGCAGGTTCCAGGGCTGCTGGACTGGGACATGGG
AAATGAATTTTTCTTGCCCCACACCACAGACCAGCACCCCTTAGCTGAACAGAACCTTGCTAAATACCAACTCCAAATAA
TGGAATCCCCAAAGCTGCCTCTGGAGAGGAGACCCAATCCTGACAAGGATGGTCCTGACTATGACCCCAATCTGTGGATG
TGGGTGAACCCCAACATAGTGTGCTCCCTCAGCATCCAGGAGGCCCCAAATCGCAATAAGGAAAAGGATCTGACAAGTGT
GCTTCCCTCCCTTCAGCCACCCTCAAAGGATGAAGAGTTTACTTGCTTAGAGGCCACAGTTGTGGAGTCCCTTCCATCTT
CCTCCAGCGAGCAGTACCCCCTACAAAAGCGGTTCACCTCTTTCCCCAGTGACTGGGAGCTCACAGAAGAGAAAGCTGAG
GAACAAGATGGAAACTCCTCTGCTGCCCTCCGGTCCCCTGACAAAGGGAAGTGCTACCAGAGCCAAAAA
ORF - retro_dnov_22 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 52.9 % |
| Parental protein coverage: | 51.94 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | ARYRLRLVKPPKLPLEKKPRPDRDGPDIEPNLWMWVNSNIVYPPGKLEAAAR---EALTSTL-CPQPPPK |
| A.Y.L.....PKLPLE..P.PD.DGPD..PNLWMWVN.NIV......EA..R.....LTS.L...QPP.K | |
| Retrocopy | AKYQLQIMESPKLPLERRPNPDKDGPDYDPNLWMWVNPNIVCSLSIQEAPNRNKEKDLTSVLPSLQPPSK |
| Parental | EEESSCPKVTVVEALPPCSSEESPPGKWFASSPSDWELTEEEEAENHDDSSFGALSPPHKKGSLQSRR |
| .EE..C...TVVE.LP..SSE..P..K.F.S.PSDWELT.EE.AE..D..S..AL..P.K....QS.. | |
| Retrocopy | DEEFTCLEATVVESLPSSSSEQYPLQKRFTSFPSDWELT-EEKAEEQDGNSSAALRSPDKGKCYQSQK |
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 .00 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 0 .96 RPM |
| SRP012922_heart | 0 .00 RPM | 3 .25 RPM |
| SRP012922_kidney | 0 .00 RPM | 0 .82 RPM |
| SRP012922_liver | 0 .00 RPM | 0 .00 RPM |
| SRP012922_lung | 0 .00 RPM | 0 .00 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 3 .63 RPM |
| SRP012922_spleen | 0 .00 RPM | 0 .11 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_22 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 18 parental genes, and 18 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Ailuropoda melanoleuca | ENSAMEG00000000053 | 1 retrocopy | |
| Bos taurus | ENSBTAG00000014606 | 1 retrocopy | |
| Canis familiaris | ENSCAFG00000012417 | 1 retrocopy | |
| Callithrix jacchus | ENSCJAG00000013656 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000009414 | 1 retrocopy |
retro_dnov_22 ,
|
| Dipodomys ordii | ENSDORG00000001960 | 1 retrocopy | |
| Homo sapiens | ENSG00000176302 | 1 retrocopy | |
| Microcebus murinus | ENSMICG00000002680 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000022722 | 1 retrocopy | |
| Mustela putorius furo | ENSMPUG00000004890 | 1 retrocopy | |
| Nomascus leucogenys | ENSNLEG00000007376 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000007258 | 1 retrocopy | |
| Procavia capensis | ENSPCAG00000010132 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000003947 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000004358 | 1 retrocopy | |
| Sorex araneus | ENSSARG00000011319 | 1 retrocopy | |
| Sus scrofa | ENSSSCG00000015101 | 1 retrocopy | |
| Ictidomys tridecemlineatus | ENSSTOG00000014321 | 1 retrocopy |