RetrogeneDB ID: | retro_dnov_333 | ||
Retrocopylocation | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_3734:154985..155347(-) | ||
| Located in intron of: | ENSDNOG00000016194 | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | IGFBP6 | ||
| Ensembl ID: | ENSDNOG00000000264 | ||
| Aliases: | None | ||
| Description: | insulin-like growth factor binding protein 6 [Source:HGNC Symbol;Acc:5475] |
Retrocopy-Parental alignment summary:
>retro_dnov_333
GGAGGGTTGCCGGCAGAGAGCTGTGTGAAAGTGGGGGCTGCCTCAGGAGGGAGTGGGAGCAGTGTGGAGTCTACACCCTG
AACTCTGCCCCAGAATTGCAGTGTCAGCTGCCAAAGGAAGATGAGGCACCTTTGTGGACTCTGCTGTTGGAGTGAGGTTG
CTGCTGCCAGGCCCATGCGCCCTCAGAGGAGACTTCAAAGGAGAGTAAACCCCCAGGAGGGACCACCCACCCACTTGATG
TGAACTGCAGAGACCAAGAGAGGAATCCTGGGACCTCTGCCACCCTCTCCCGGCCCAATCCTGGGGGTCTCCAAGCTGCT
GAGATGGGCCCCTCCTACTAACACCTGAGCTCAGTCCTACAG
GGAGGGTTGCCGGCAGAGAGCTGTGTGAAAGTGGGGGCTGCCTCAGGAGGGAGTGGGAGCAGTGTGGAGTCTACACCCTG
AACTCTGCCCCAGAATTGCAGTGTCAGCTGCCAAAGGAAGATGAGGCACCTTTGTGGACTCTGCTGTTGGAGTGAGGTTG
CTGCTGCCAGGCCCATGCGCCCTCAGAGGAGACTTCAAAGGAGAGTAAACCCCCAGGAGGGACCACCCACCCACTTGATG
TGAACTGCAGAGACCAAGAGAGGAATCCTGGGACCTCTGCCACCCTCTCCCGGCCCAATCCTGGGGGTCTCCAAGCTGCT
GAGATGGGCCCCTCCTACTAACACCTGAGCTCAGTCCTACAG
ORF - retro_dnov_333 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 60.48 % |
| Parental protein coverage: | 50.85 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | GGSPAENCA-DAGGCLRREGEQCGVYTPNCASGLQCRPPQEEEAPLRALLMGRGHCRRARPPSAVEEIPK |
| GG.PAE.C....GGCLRRE.EQCGVYT.N.A..LQC..P.E.EAPL..LL...G.C..A..PS..EE..K | |
| Retrocopy | GGLPAESCV<ESGGCLRREWEQCGVYTLNSAPELQCQLPKEDEAPLWTLLLE*GCCCQAHAPS--EETSK |
| Parental | DSKPP-AKTRPQDVNRRDHERNPGTSTTPAR-TPGGVQDSEMGPR--HLDSVLQ |
| .SKPP...T.P.DVN.RD.ERNPGTS.T..R..PGG.Q..EMGP...HL.SVLQ | |
| Retrocopy | ESKPPGGTTHPLDVNCRDQERNPGTSATLSRPNPGGLQAAEMGPSY*HLSSVLQ |
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 .19 RPM | 15 .17 RPM |
| SRP012922_cerebellum | 0 .14 RPM | 12 .37 RPM |
| SRP012922_heart | 0 .00 RPM | 21 .35 RPM |
| SRP012922_kidney | 0 .27 RPM | 26 .01 RPM |
| SRP012922_liver | 0 .15 RPM | 3 .10 RPM |
| SRP012922_lung | 0 .00 RPM | 21 .53 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 31 .33 RPM |
| SRP012922_spleen | 0 .11 RPM | 71 .19 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_333 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 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000000264 | 1 retrocopy |
retro_dnov_333 ,
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