RetrogeneDB ID: | retro_dnov_2521 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_82296:923..1598(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CTSZ | ||
| Ensembl ID: | ENSDNOG00000012612 | ||
| Aliases: | None | ||
| Description: | cathepsin Z [Source:HGNC Symbol;Acc:2547] |
Retrocopy-Parental alignment summary:
>retro_dnov_2521
CGTGGGAGCCAGCTCTTGGGGCGCAGAACCTATTCCCGACTTCATGAGTACCTGTCTTCGAAGGAGCTGCTGGAGATCTG
GGACAGAAGCAACGTGATGAGCGTCAACTTCACCAGCATCCCCAGGAACCAGCACCTCCCCATTTCTGCGGCTCCTGCTG
GGCCCCGGCAGCACCAGCGCCTTGGAGGATGCATCACAGCAAGAGGAAGGGAGCGTGGCCCTCCACCCTGGTGTCCCTGC
AGAACCTCAGCTGAGAGGAGGCCTGCGCCTGCGAGGTGCGCACTGATCTGCTGCTGTGGGAGTACGTCCACAACCACGGC
ATCCGCGGTGAGACCTGCAGCAACTACCACACCAAGGACCAAGAGTGTAACAAGTTCAACTGGTGTGGGACTTGCACAGA
ATTCAGAGTGTGCCATGTCATCCAGAACTACTCCCGCTGGAGAGTGAGTGACTATGGCTCCCTCTGAACGAGACCAGATG
AGAGCAGAAATCTACAAAATGGCCCCATCAGCTGTGGAATAATAGCAGGAAAAGGGATGGATGAATACACTGGCTGGCAT
CTATACTAAATATAATTAGATACCCTTTATAAACTATATCATTTCTGTGAAAGGGTGGGATGTCAGCAAGGGGACCCAGT
ATTGGATTGTCAGGAATTCATGCTGTGAACCATGC
ORF - retro_dnov_2521 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 59.66 % |
| Parental protein coverage: | 88.63 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 5 |
Retrocopy - Parental Gene Alignment:
| Parental | RGDQLLGRRTYPRPHEYLSPAELPQRWDWRNVNGVNYASVTRNQHI-PQYCGSCWA-HGSTSAMADR-IN |
| RG.QLLGRRTY.R.HEYLS..EL...WD..NV..VN..S..RNQH..P..CGSCWA..GSTSA..D..I. | |
| Retrocopy | RGSQLLGRRTYSRLHEYLSSKELLEIWDRSNVMSVNFTSIPRNQHL<PHFCGSCWA<PGSTSALEDA<IT |
| Parental | IKRKGAWPP-TLLSVQNVIDCGQAGSCEGGTDLLVWAYAHSHGIPDETCNNYQAKDQECNKFNQCGTCTE |
| .......PP.TL.S.QN......A..CE..TDLL.W.Y.H.HGI..ETC.NY..KDQECNKFN.CGTCTE | |
| Retrocopy | ARGRERGPP<TLVSLQN-LS*EEACACEVRTDLLLWEYVHNHGIRGETCSNYHTKDQECNKFNWCGTCTE |
| Parental | FKVCHVIQNYTLWRVGDYGSLSGREKMMAEIYANGPIRCGIMVNKGMDQ-TG-GLYTEYQ-APFINHVIS |
| F.VCHVIQNY..WRV.DYGSL..R.........NGPI.CGI...KGMD..TG.G.YT.Y...PFIN..IS | |
| Retrocopy | FRVCHVIQNYSRWRVSDYGSL*TRPDESRNL-QNGPISCGIIAGKGMDEYTG>GIYTKYN*IPFINYIIS |
| Parental | VAGWGVSNGTEYWIVRNSWRDSC |
| V.GW.VS.GT.YWIVRNS....C | |
| Retrocopy | VKGWDVSKGTQYWIVRNSCCEPC |
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 | 109 .10 RPM |
| SRP012922_cerebellum | 0 .14 RPM | 1 .92 RPM |
| SRP012922_heart | 0 .00 RPM | 10 .21 RPM |
| SRP012922_kidney | 0 .00 RPM | 13 .69 RPM |
| SRP012922_liver | 0 .00 RPM | 64 .55 RPM |
| SRP012922_lung | 0 .00 RPM | 18 .33 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 5 .54 RPM |
| SRP012922_spleen | 0 .23 RPM | 60 .44 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_2521 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 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000012037 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000012612 | 1 retrocopy |
retro_dnov_2521 ,
|
| Felis catus | ENSFCAG00000000845 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000016601 | 1 retrocopy |