RetrogeneDB ID: | retro_dnov_1327 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_182517:510..931(-) | ||
| 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: | ENSDNOG00000008699 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_dnov_1327
GAAAGGAGGAGATCAAGAAATCAGTCTTTTGATTACAACTATAGAAGCTCTTATAGTCCTGGAAACAACAGACTGACGGG
AAGACCATGGTGTGGCAGAAGCCATTCCGACAAGATTCAAACACCAAAATCAATCTTTTTCAAGACCTAAATCCAATTCG
AGTTCATGGTCCAAGTCTCGGTCCAAGTCTCAGTCCAAGGAAGAAACAAAGGCTAAATCACGTTCTAGGTCTGCATCTCA
CACCAAAACTAGGGGCACCTCTCAAACAGATTGCAAAACACATAATAAGTCTGGCTCAAGATATGGAAAGGAATCAAGGA
AAAAGAACCACCTAGATCCAAATCTCAGTCAAGATCACTCGTCTAGGTCTAGGTCAAAACCTAGATCAAGATCTTAGACT
AGTCCTAAATTCAGTGGTCAC
ORF - retro_dnov_1327 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 62.24 % |
| Parental protein coverage: | 52.67 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | ERRRSRSRSFDYKKRRSYSPRNSRPTGRPRRSRSHSD-NDRFKHRNRSFSRSKSNSRSRSKSQPKKEMKA |
| ERRRSR..SFDY..R.SYSP.N.R.TGRP...RSHSD..........S...S.S.S.............. | |
| Retrocopy | ERRRSRNQSFDYNYRSSYSPGNNRLTGRPWCGRSHSD>RFKHQNQSFSRPKSNSSSXXXXXXXXXXXEET |
| Parental | KSR--SRSASHTKTRGTSKTDSKTHYKSGSRYEKESRK-KEPPRSKSQSRS-QSRSRSKSRSRSWTSPKS |
| K....SRSASHTKTRGTS.TD.KTH.KSGSRY.KESRK.KEPPRSKSQSRS..SRSRSK.RSRS.TSPK. | |
| Retrocopy | KAKSRSRSASHTKTRGTSQTDCKTHNKSGSRYGKESRK<KEPPRSKSQSRS>SSRSRSKPRSRS*TSPKF |
| Parental | SGH |
| SGH | |
| Retrocopy | SGH |
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 | 19 .84 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 14 .57 RPM |
| SRP012922_heart | 0 .00 RPM | 7 .43 RPM |
| SRP012922_kidney | 0 .00 RPM | 7 .12 RPM |
| SRP012922_liver | 0 .00 RPM | 7 .12 RPM |
| SRP012922_lung | 0 .00 RPM | 16 .19 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 8 .65 RPM |
| SRP012922_spleen | 0 .00 RPM | 19 .12 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_1327 was not experimentally validated.