RetrogeneDB ID: | retro_dnov_751 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_104558:2655..3050(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CIDEC | ||
| Ensembl ID: | ENSDNOG00000018422 | ||
| Aliases: | None | ||
| Description: | cell death-inducing DFFA-like effector c [Source:HGNC Symbol;Acc:24229] |
Retrocopy-Parental alignment summary:
>retro_dnov_751
TTCATGGTGCTCCAGAAGGGGCAAAAATGCCAGCTCCCATCAGAGTAGGGGAATAGGAACCATCTCTCCCTCTCCCATAA
GCCAGTCAAGAAGATCAATATGGCCTGTGTACAGTTCAGTTTGTGCAAGTTGAACCTGCAGGACTTCATTGGCTGCCTGA
GAGTCAAGGTGACGCTCTATGGCACATACTTCCTCTCGTATGATGTGTACTGCTATGGAGCCAAGTGCATCATGAAGAAA
GCCCTTCAATGGGCCCTCATAACATGCAGGCTACAGGCACATGCTGCTTGGCCCCTCCTATTACATGTAGTATCTCCTGG
ATAACACAGAGGAAGGGCAGCCCTTTCAAGGGCAAGGCCTCATTTATCATCCTGACCTGTCTGAAGATGCTGCAA
ORF - retro_dnov_751 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 66.67 % |
| Parental protein coverage: | 58.88 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | FMVLQKGQKWQPLSE-GNGN---LSHK--QKIDVVGVTFILYKLNPQDFIGCLNVKATLYGTYSLSYDLH |
| FMVLQKGQK.Q..SE.GN.N...LSHK...KI....V.F.L.KLN.QDFIGCL.VK.TLYGTY.LSYD.. | |
| Retrocopy | FMVLQKGQKCQLPSE*GNRNHLSLSHKPVKKINMACVQFSLCKLNLQDFIGCLRVKVTLYGTYFLSYDVY |
| Parental | CCGAKRVVKEALRWALF-SMQATG-HVLLGTSCYMQRLLDATEEGQ-PPKGKASPLIPTCLKMLQ |
| C.GAK...K.AL.WAL...MQATG.H.LLG.S.YM..LLD.TEEGQ.P.KGKAS..I.TCLKMLQ | |
| Retrocopy | CYGAKCIMKKALQWALI<NMQATG<HMLLGPSYYM*YLLDNTEEGQ>PFKGKASFIILTCLKMLQ |
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 | 29 .75 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP012922_heart | 0 .00 RPM | 0 .23 RPM |
| SRP012922_kidney | 0 .00 RPM | 32 .58 RPM |
| SRP012922_liver | 0 .00 RPM | 27 .71 RPM |
| SRP012922_lung | 0 .00 RPM | 0 .00 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 7 .10 RPM |
| SRP012922_spleen | 0 .00 RPM | 0 .00 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_751 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 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000005266 | 1 retrocopy | |
| Dasypus novemcinctus | ENSDNOG00000018422 | 2 retrocopies |
retro_dnov_1559, retro_dnov_751 ,
|
| Vicugna pacos | ENSVPAG00000002888 | 1 retrocopy |