RetrogeneDB ID: | retro_dnov_2363 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_67498:6340..6694(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSDNOG00000019514 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_dnov_2363
ATGAAAGATCCAAGTCACAGTAGTACTAGCCCAAGCATCATCAATGAAGATGTGATTATTAACAGGCATTCTCATGAAGA
TGACAATCCATTTGCAGAGTACATGTGAATGGAAAATGAAGAATTCAACAGACAAACAGAAGAGTTGTGGGAAGAAGAAT
TTACTGAACACTGTTTCCAAGAAATGCTGAATGAGGAAGAACATGAGTGGTTGATTTCAGCTCAAGATCTCCCACGAACT
ATGGACCAAATTCAGGACTAATTTAATGACCTCATTACTAGTGATGGCTCTTCTCTGGAAGATCTTGTGGTCAAGAGCAA
TATGAATCCTAATGCAAAGGAGTTTGTTCTGGGG
ORF - retro_dnov_2363 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 53.72 % |
| Parental protein coverage: | 97.56 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MNGSSVASTSPSVKSKEDQGVNGHD-EKENPFAEYMWMENEEDFNRQVEEELQEQDFLDRCFQEMLDEED |
| M...S..STSPS....ED...N.H..E..NPFAEYM.MENEE.FNRQ.EE.L.E..F...CFQEML.EE. | |
| Retrocopy | MKDPSHSSTSPSIIN-EDVIINRHSHEDDNPFAEYM*MENEE-FNRQTEE-LWEEEFTEHCFQEMLNEEE |
| Parental | QDWFIPSRDLPRAMGQLQQQLNGLSVSESHDSEDILSKSNLNPDAKEFIPG |
| ..W.I...DLPR.M.Q.Q...N.L..S.....ED...KSN.NP.AKEF..G | |
| Retrocopy | HEWLISAQDLPRTMDQIQD*FNDLITSDGSSLEDLVVKSNMNPNAKEFVLG |
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 .39 RPM | 5 .25 RPM |
| SRP012922_cerebellum | 0 .14 RPM | 4 .40 RPM |
| SRP012922_heart | 0 .23 RPM | 16 .71 RPM |
| SRP012922_kidney | 0 .00 RPM | 7 .94 RPM |
| SRP012922_liver | 0 .15 RPM | 10 .99 RPM |
| SRP012922_lung | 0 .00 RPM | 4 .58 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 23 .71 RPM |
| SRP012922_spleen | 0 .11 RPM | 6 .75 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_2363 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 1 parental gene, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000019514 | 3 retrocopies |
retro_dnov_2363 , retro_dnov_291, retro_dnov_292,
|