RetrogeneDB ID: | retro_dnov_1964 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_39246:5105..6296(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SLC39A10 | ||
| Ensembl ID: | ENSDNOG00000013599 | ||
| Aliases: | None | ||
| Description: | solute carrier family 39 (zinc transporter), member 10 [Source:HGNC Symbol;Acc:20861] |
Retrocopy-Parental alignment summary:
>retro_dnov_1964
TATATTGAGAAACTTTTTTATCTTTATGGTGAAAGCAGAAGACTGTTCTTTTTTGATCTGGAGAAACTTTTAACTAACTT
GGGCCTTAGAGAGATAAAAGTAATCAAGATTAATCATCAGGATCTTGGCCACGATCATGTTTCTCACTTAGATATTTTGG
CAGTTCTGGAGGGAAAGCATTTTCACTTGCATCACTACCAGCATTCCCATAATCATTTAAATTCAGAAAATCAGACTGTG
ACCAGTTTATCAACAAAAGGAAACCATAAATGTGATCCAGAGAAAGAACTAATTGAAATATCTATAAAATTTGCTGATAA
ACATATGCACAACCATAATCCTCACTTACATAATCGTCATTTGCATTATCACCTTGATCATAATGCTACTTACCATTTTC
ATAATGATTCTATTACTCAGAGTAATCACGGTGAACATAGCTATTAACCATCAATAAAGACCAATACAACACAGGAACAA
ACTGAAATTAACTGACTGCAACAAAAGAAGAAAAGAAAAGGGAAGAAAAGCAATGTGAATTTTGAGGTTATTATACCAGG
TTTCCCCTGTTAACCATGTTTAGGGTAAACATATTCAGGTCCACAAGCTTGATCATGTACATAATCCAGGTCATTCTCAT
GTACATGTTCCAGAACATAATGGTCATGAACCTGGTCATGGACACCAAGATCTCGAATCTGTTGAGGGTGAACTTCAACA
TATTAGAAAACGAGGAGCACCATATGTTTTAAAAAGTGCAATTTATCCAGCTGTTAGTCACAGATATCATCATGAAGATG
ACCATCAGCATGACGAGTGTTTAAACATCACTCAGTTAAGATACTATTGTCATCATGCCAACTCTCCGATCTCATCTGAT
CTATTTACGTAACTTCGCCTGCATTGTTATATCAAATTGACAGCCGACTCTGTATTGAGAATTTTGACAAACTTTTGGTT
GAAGATTTAAACAAAGGTAAAAATCTGGTTCCTGAAGATAAGGCACGTGTAGGTGCATCAGCTTGGATTTGTGGTATCAT
TTTTAATACTGTCATTAGTCTGCTTTCCTTGCTAGGCATGATCTTGGTTCCCACTATTAACCAAGGATGCTTCAAATTCC
TTCTCGCACTCCTTGTTGCACTAACTGTAGGAACAATGAGTGGAGATGCCCATCTTCATCTACTGCTCCAT
ORF - retro_dnov_1964 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 78.3 % |
| Parental protein coverage: | 51.62 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | YIEKLFDRYGENGRLSFFGLEKLLTNLGLGEIKIVEINHEDLGHDHVSHLDILAVLEGRHFHSHHHQHSH |
| YIEKLF..YGE..RL.FF.LEKLLTNLGL.EIK...INH.DLGHDHVSHLDILAVLEG.HFH.HH.QHSH | |
| Retrocopy | YIEKLFYLYGESRRLFFFDLEKLLTNLGLREIKVIKINHQDLGHDHVSHLDILAVLEGKHFHLHHYQHSH |
| Parental | NHLNSENQTVTSLSTKRNHKCDPEKEIIEISVKSGDKHMHDHNHRLHNRHLHYHLDHNATHHFHNDSITQ |
| NHLNSENQTVTSLSTK.NHKCDPEKE.IEIS.K..DKHMH.HN..LHNRHLHYHLDHNAT.HFHNDSITQ | |
| Retrocopy | NHLNSENQTVTSLSTKGNHKCDPEKELIEISIKFADKHMHNHNPHLHNRHLHYHLDHNATYHFHNDSITQ |
| Parental | SDHGEPSHEPSTKTNTTQEQTEIKPTKQKKKRKGKKSNVNFEVITPGF-PPNHVQGEHNRVHKLDHVHNP |
| S.HGE.S..PS.KTNTTQEQTEI..............NVNFEVI.PGF.P.NHV.G.H..VHKLDHVHNP | |
| Retrocopy | SNHGEHSY*PSIKTNTTQEQTEIN*LQXXXXXXXXXXNVNFEVIIPGF>PVNHV*GKHIQVHKLDHVHNP |
| Parental | GHSHVHVPEHNGHEPGHGHQDLESDNEGELRHVKKREAPHVKKSAIYSAASHKDSNEDDRQHDECLNVTQ |
| GHSHVHVPEHNGHEPGHGHQDLES..EGEL.H..KR.AP.V.KSAIY.A.SH....EDD.QHDECLN.TQ | |
| Retrocopy | GHSHVHVPEHNGHEPGHGHQDLES-VEGELQHIRKRGAPYVLKSAIYPAVSHRYHHEDDHQHDECLNITQ |
| Parental | LLRYYGHGANSPISPDLFTYL-CPALLYQIDSRLCIEHFDKLLVEDLNKDKNLVPED-AHIGASAWICGI |
| .LRYY.H.ANSPIS.DLFT.L..PALLYQIDSRLCIE.FDKLLVEDLNK.KNLVPED.A..GASAWICGI | |
| Retrocopy | -LRYYCHHANSPISSDLFT*L<SPALLYQIDSRLCIENFDKLLVEDLNKGKNLVPEDKARVGASAWICGI |
| Parental | ISITVISLLFLLGVILVPIINQGCFKFLLTFLVALAVGTMSGDAFLHLLSH |
| I..TVISLL.LLG.ILVP.INQGCFKFLL..LVAL.VGTMSGDA.LHLL.H | |
| Retrocopy | IFNTVISLLSLLGMILVPTINQGCFKFLLALLVALTVGTMSGDAHLHLLLH |
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 .19 RPM | 14 .00 RPM |
| SRP012922_cerebellum | 0 .14 RPM | 45 .50 RPM |
| SRP012922_heart | 0 .00 RPM | 2 .09 RPM |
| SRP012922_kidney | 0 .00 RPM | 3 .83 RPM |
| SRP012922_liver | 0 .00 RPM | 0 .77 RPM |
| SRP012922_lung | 0 .00 RPM | 9 .32 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 2 .08 RPM |
| SRP012922_spleen | 0 .11 RPM | 16 .25 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_1964 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000013599 | 1 retrocopy |
retro_dnov_1964 ,
|
| Dasypus novemcinctus | ENSDNOG00000018834 | 1 retrocopy |