RetrogeneDB ID: | retro_dnov_295 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_3404:20243..20816(+) | ||
| Located in intron of: | ENSDNOG00000009359 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSDNOG00000000640 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_dnov_295
AAAAGTTCCCATCCAGCAATCCATTCTCTCTACCATGGCTCACTTTTCATGTTCTTCCAGATTAGAATTTTAGGTTTTGG
ACCAATGTATGTTATATTAGCATATACAGTGCCATCAGTTTCCTTGTTCATTGTTACATTTGAACAGATCTGCTTGGTAA
TGGAAGGCCCATTCATTTATCAGAGAGAAAGTCCCTTGGGTACTAGATTCAGCTAAGAGAAATCAAGCACTGTTCTGATA
CCCAGTCATCCAGGACTCGTACTTCTTGTTTCCACCAATGCTCATCTACCGCGACAGCTCTTCCAGGACTCTCACTGTAA
GGAGGAGTTATGTTGCTACACAATTTGCACAGATTTTTGGTTACCTTTTTTTAGGTGTACTACATCTTTGAAAGTCTCTG
TGCACCCTTGTTTCAGAATATCAAACAGGAGCCCTTCAGTGCTTGTGTTCTGGCCCTGTGTATATTTTCACTCCATCTTG
CCATGTGTGCTGGTTCTTTTCCTTTTTTTTTTCCGCCTTTTTGCACTGCTGTTCAATACCTTTCCTGAGATGTTACACCA
TGGTGACAGGATT
ORF - retro_dnov_295 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 63.78 % |
| Parental protein coverage: | 55.36 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 5 |
Retrocopy - Parental Gene Alignment:
| Parental | KSSHPAIHSLFHGSLFLSFQIRILCFGPPYIVFAYTLPPASWFIVIYEQLRFIM-KAHSFIRENVPRVLD |
| KSSHPAIHSL.HGSLF..FQIRIL.FGP.Y...AYT.P..S.FIV..EQ....M.KAHSFIRE.VP.VLD | |
| Retrocopy | KSSHPAIHSLYHGSLFMFFQIRILGFGPMYVILAYTVPSVSLFIVTFEQICLVM>KAHSFIREKVPWVLD |
| Parental | SIK-EKSSTVPI-PTVNQYLYFLFAPTLIYRDSYPRTPTVRWSYVATQFAQCFACIFY-VYYILERLCIP |
| S.K.EKSSTV.I.P...Q..YFLF.P.LIYRDS..RT.TVR.SYVATQFAQ.F...F..VYYI.E.LC.P | |
| Retrocopy | SAK<EKSSTVLI>PVI-QDSYFLFPPMLIYRDSSSRTLTVRRSYVATQFAQIFGYLFL>VYYIFESLCAP |
| Parental | LFGNIKQEPFSARVLVLC-FFNSILPGTLIAFNIFFGFFHSWFNAFAEMLRFGDRM |
| LF.NIKQEPFSA.VL.LC..F.SILP..L.............FN.F.EML..GDR. | |
| Retrocopy | LFQNIKQEPFSACVLALC>YFHSILPCVLVXXXXXXXXXALLFNTFPEMLHHGDRI |
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 | 1 .75 RPM | 0 .00 RPM |
| SRP012922_cerebellum | 1 .24 RPM | 0 .14 RPM |
| SRP012922_heart | 0 .00 RPM | 0 .00 RPM |
| SRP012922_kidney | 0 .55 RPM | 4 .38 RPM |
| SRP012922_liver | 4 .02 RPM | 132 .51 RPM |
| SRP012922_lung | 1 .53 RPM | 0 .76 RPM |
| SRP012922_quadricep_muscle | 0 .17 RPM | 0 .00 RPM |
| SRP012922_spleen | 1 .03 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_295 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 | ENSDNOG00000000640 | 1 retrocopy |
retro_dnov_295 ,
|
| Myotis lucifugus | ENSMLUG00000016095 | 1 retrocopy |