RetrogeneDB ID: | retro_dnov_1422 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_2012:191105..191444(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ITGB1BP1 | ||
| Ensembl ID: | ENSDNOG00000008930 | ||
| Aliases: | None | ||
| Description: | integrin beta 1 binding protein 1 [Source:HGNC Symbol;Acc:23927] |
Retrocopy-Parental alignment summary:
>retro_dnov_1422
TCAGGACAAAGCAACAATAATTCTGATATCTTTACAGAATTTCGAATCAAGTATTTTGGTGCCATTCAGAAACTGAAAGT
CTCTGAGGGAAAAAGTCTTGAAGGTCCCCTAGATCTGATAAATTATATTGATGTTGCCCAACAAGATGAAAAGTTGCCTT
TTGTTCCTTTGGAGGAAGAATTTATTATGGGAGTTTCCAAGTACGGTAAAAAAGTGTCAACATCAGATCAATATGATGTT
CAGCATAGGCATGCTCTATATGTAATCACCTGGATGGTATGCCATGATGATGGTTGGGGGTCAGGAAAGAGCTTAGTGAC
TCTGAGAACCACTACAGCC
ORF - retro_dnov_1422 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 84.07 % |
| Parental protein coverage: | 64.2 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | SGQSNNNSDTCAEFRIKYVGAIEKLKVSEGKSLEGPLDLINYIDVAQQDGKLPFVPLEEEFIMGVSKYGI |
| SGQSNNNSD...EFRIKY.GAI.KLKVSEGKSLEGPLDLINYIDVAQQD.KLPFVPLEEEFIMGVSKYG. | |
| Retrocopy | SGQSNNNSDIFTEFRIKYFGAIQKLKVSEGKSLEGPLDLINYIDVAQQDEKLPFVPLEEEFIMGVSKYGK |
| Parental | KVSTSDQYDVLHRHALYLIIRMVCYDDGLGAGKSLLALKTTDA |
| KVSTSDQYDV.HRHALY.I..MVC.DDG.G.GKSL..L.TT.A | |
| Retrocopy | KVSTSDQYDVQHRHALYVITWMVCHDDGWGSGKSLVTLRTTTA |
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 | 9 .72 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 25 .57 RPM |
| SRP012922_heart | 0 .00 RPM | 7 .89 RPM |
| SRP012922_kidney | 0 .00 RPM | 11 .50 RPM |
| SRP012922_liver | 0 .00 RPM | 6 .81 RPM |
| SRP012922_lung | 0 .00 RPM | 20 .62 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 8 .83 RPM |
| SRP012922_spleen | 0 .00 RPM | 21 .86 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_1422 was not experimentally validated.