RetrogeneDB ID: | retro_dnov_2395 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_71036:3588..4067(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CUTA | ||
| Ensembl ID: | ENSDNOG00000009616 | ||
| Aliases: | None | ||
| Description: | cutA divalent cation tolerance homolog (E. coli) [Source:HGNC Symbol;Acc:21101] |
Retrocopy-Parental alignment summary:
>retro_dnov_2395
GCTGCTCTGCTCCTGGTGCTTCTTTGGATGACGGCACTGTTGCCTGTGATCTCCCACCTTCTATTACTACTGAGAACCCT
GCTCTCCATGGCCTCTGGAAACCCTCCCATCCCAGTTCCCACCAGTCTCGGGCTCTGCCTACATCTCTGGCTCAGAGCAG
CCTTTGTTACCTGCCCCAATGAGAAGGTGGCCAAAGATATCACCAGGCTGTGGTAGAAAAGCATCTGGCAGCCTGAGTCC
ACCTCATCCTGCAGATTATATCCATTTATAAGCAGAAAGGAAAGATTGGGAGGGAAGTGAGGTGTTGATGATGACTGAAA
CCCAAGTTCCTTGGTCCCAGTTTTGACAGATTTTGTTTGTTCTGTGCACCCTTATGAAGTGGCTGAGGTGATTGCATTGC
CTGTGGAGAGGGAAACTCCCCACACTTGCACTGGGTGTGCCAGGTCACAGGGTCAGTTTCTGACTCCAACTCAGCCCTG
ORF - retro_dnov_2395 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.29 % |
| Parental protein coverage: | 99.39 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | AALLLSLLWMPALLPVASRLLLLPRALLSMASGNPPPQSPPASGSAYVPGSVSAAFVTCPNEKVAKEIAR |
| AALLL.LLWM.ALLPV.S.LLLL.R.LLSMASGNP.P...P.S..........AAFVTCPNEKVAK.I.R | |
| Retrocopy | AALLLVLLWMTALLPVISHLLLLLRTLLSMASGNP-PIPVPTSLGLCLHLWLRAAFVTCPNEKVAKDITR |
| Parental | -AVVEKRLAACVNLIPQITSIYEWKGKIE-EDSEVLMMIKTQ-SSLVPALTDFVRSVHPYEVAEVIALPV |
| .AVVEK.LAA.V.LI.QI.SIY..KGKI..E.SEVLMM..TQ.SSLVP.LTDFV.SVHPYEVAEVIALPV | |
| Retrocopy | <AVVEKHLAA*VHLILQIISIYKQKGKIG<EGSEVLMMTETQ<SSLVPVLTDFVCSVHPYEVAEVIALPV |
| Parental | E-QGNSPYLHWVRQVTESVSDSSTAL |
| E..GNSP.LHWV.QVT.SVSDS..AL | |
| Retrocopy | E<EGNSPHLHWVCQVTGSVSDSNSAL |
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 | 50 .95 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 47 .15 RPM |
| SRP012922_heart | 0 .00 RPM | 51 .51 RPM |
| SRP012922_kidney | 0 .00 RPM | 170 .57 RPM |
| SRP012922_liver | 0 .00 RPM | 47 .53 RPM |
| SRP012922_lung | 0 .00 RPM | 74 .68 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 45 .52 RPM |
| SRP012922_spleen | 0 .00 RPM | 64 .33 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_2395 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000009616 | 1 retrocopy |
retro_dnov_2395 ,
|
| Otolemur garnettii | ENSOGAG00000015556 | 1 retrocopy | |
| Ictidomys tridecemlineatus | ENSSTOG00000002474 | 1 retrocopy |