RetrogeneDB ID: | retro_dnov_2552 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_85046:4784..5358(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CSNK1G2 | ||
| Ensembl ID: | ENSDNOG00000007923 | ||
| Aliases: | None | ||
| Description: | casein kinase 1, gamma 2 [Source:HGNC Symbol;Acc:2455] |
Retrocopy-Parental alignment summary:
>retro_dnov_2552
AAATGTCTCTACACCAATGAATATGTAGCAATCAAACTGGACCCAATAAAATCACATGCTCCACAGCTTCATTTAGAGTA
CAGGTTTTATAAACTGTTCAGAAGTGCAGGTGAATTTCTCTCACAGCTATAATACTTTAGACCTTAAGAGAAATACAATG
CAAGGGTACTGGAGCATCTTTGCCTTAACTTGAAGGACTTGTTTGATCTCTGTGACAGAACTTTTACTGTGAAGATGGTG
TTAATGATAGCCATTCAGTTGCTTTCTCAAATGGAATATGTGCACTTAAAGAATCTCATTTACCAAGATGTCAAACCAGA
GACCTTCCTGTTTGGCTGGGAAGACAATAAGAAAGAGCATGTTATACAAATTATAGACTTTAGACTAGCCAAGGAATACA
TTGACCCTAGAACTGAAAAAAACACATACCTTATATAGAACGCAAAAGTTTAAGTGGTACTGCAAGATATATATCAGCAT
GCATCTTGGCAAAGAGCAAAACTGATGGGATGATTTGGAAGCTCTTTGCCATATGTTCATGTATTTCTTTTGAGGCAGCC
TACTCTGGCAAGGC
ORF - retro_dnov_2552 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 63.4 % |
| Parental protein coverage: | 57.19 % |
| Number of stop codons detected: | 4 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | KNLYTNEYVAIKLEPIKSRAPQLHLEYRFYKQLNTA-EGVPQVFYFGPCGKYNAMVLELLGPSLEDLFDL |
| K.LYTNEYVAIKL.PIKS.APQLHLEYRFYK....A.E...Q..YF.P..KYNA.VLE.L...L.DLFDL | |
| Retrocopy | KCLYTNEYVAIKLDPIKSHAPQLHLEYRFYKLFRSAGEFLSQL*YFRP*EKYNARVLEHLCLNLKDLFDL |
| Parental | CDRTFTLKTVLMIAIQLITRMEHVHTRSLIYRDVKPENFLVGRPGGRRQHTVHIIDFGLAKEYIDP-ETR |
| CDRTFT.K.VLMIAIQL...ME.VH...LIY.DVKPE.FL.G.......H...IIDF.LAKEYIDP.E.. | |
| Retrocopy | CDRTFTVKMVLMIAIQLLSQMEYVHLKNLIYQDVKPETFLFGWEDNKKEHVIQIIDFRLAKEYIDP>ELK |
| Parental | K-HIPYREHKSLTGTARYMSINTHLGKEQSRRDDLEALGHMFMYFLRGSLPWQG |
| K.H..YR..K.......Y.S...HLGKEQ...DDLEAL.HMFMYF..GSL.WQG | |
| Retrocopy | KTHTLYRTQKFKWYCKIYISM--HLGKEQN*WDDLEALCHMFMYFF*GSLLWQG |
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 | 39 .09 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 62 .55 RPM |
| SRP012922_heart | 0 .00 RPM | 11 .14 RPM |
| SRP012922_kidney | 0 .00 RPM | 38 .61 RPM |
| SRP012922_liver | 0 .00 RPM | 38 .86 RPM |
| SRP012922_lung | 0 .00 RPM | 51 .47 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 18 .69 RPM |
| SRP012922_spleen | 0 .00 RPM | 55 .51 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_2552 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 | ENSDNOG00000007923 | 1 retrocopy |
retro_dnov_2552 ,
|
| Dasypus novemcinctus | ENSDNOG00000018857 | 1 retrocopy | |
| Macaca mulatta | ENSMMUG00000006620 | 1 retrocopy |