RetrogeneDB ID: | retro_dnov_640 | ||
Retrocopy location | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | GeneScaffold_7098:43130..43795(-) | ||
| Located in intron of: | ENSDNOG00000002516 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DNAJA1 | ||
| Ensembl ID: | ENSDNOG00000018342 | ||
| Aliases: | None | ||
| Description: | DnaJ (Hsp40) homolog, subfamily A, member 1 [Source:HGNC Symbol;Acc:5229] |
Retrocopy-Parental alignment summary:
>retro_dnov_640
AGCAAATGCATTGAGTGTCAGGGCCATGGGGAACGGATCAGTCTTAAAGATAGATGTGAAAGTTGCAATGGAAGGAAGAG
AGTTCAAGAGAAGATTCTAGAAGTTCATATTGATAAGTTCATATTGAAAGATGGCCAGAAGATAACATTTCATGGTGAAG
GAGACCAAGAGTCAGGACTGGAACCAGGAGATATTATCATTGTTTTAGATAAGAAGGATCATGCTATTTTAACTAGATGA
GAAGACCTTTTCATGTGCATGAACATACAGCTGGCTGAAGCATTATGTGGTTTCCAAAGCCAATATCCACTCTTGACAAC
CAAACCATAGTCATCACCTCTCATTCAGGTCAGATTGTCAAGCATGGAGATATCTGGTGTGTGCTAAATGAAGGCATGAC
AACTTATTGTAGGCCTTATGATAAGGGTTGCCTAGTCATCGAATTTAAGGTAAACTTTCCTGAGAATGGCTTTCTCTCTC
CTGATAAACTGTCTCTTCTGGAAAAACTTCTACTTGAGAGGAAAGAAGTAGAAGAAACTGATGAAACAGATCAGGTAGAA
TGGGTGGACTTTGATCCCAATCAGGAAAGAAGGCGCCATTGCAAGGCAGAGGAATATGAGGATGATGTACGTCGCCCCAG
AGGTGGTGTGCAGTGCCAAATCTCT
ORF - retro_dnov_640 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.67 % |
| Parental protein coverage: | 56.31 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | SVCMECQGHGERISPKDRCKSCNGRKIVREKKILEVHIDKG-MKDGQKITFHGEGDQEPGLEPGDIIIVL |
| S.C.ECQGHGERIS.KDRC.SCNGRK.V.EK.ILEVHIDK...KDGQKITFHGEGDQE.GLEPGDIIIVL | |
| Retrocopy | SKCIECQGHGERISLKDRCESCNGRKRVQEK-ILEVHIDKFILKDGQKITFHGEGDQESGLEPGDIIIVL |
| Parental | DQKDHAVFTRRGEDLFMCMDIQLVEALCGFQ-KPISTLDNRTIVITSHPGQIVKHGDIKCVLNEGMPIYR |
| D.KDHA..TR..EDLFMCM.IQL.EALCGFQ.KPISTLDN.TIVITSH.GQIVKHGDI.CVLNEGM..Y. | |
| Retrocopy | DKKDHAILTR*-EDLFMCMNIQLAEALCGFQ<KPISTLDNQTIVITSHSGQIVKHGDIWCVLNEGMTTYC |
| Parental | RPYEKGRLIIEFKVNFPENGFLSPDKLSLLEKLLPERKEVEETDEMDQVELVDFDPNQERRRHYNGEAYE |
| RPY.KG.L.IEFKVNFPENGFLSPDKLSLLEKLL.ERKEVEETDE.DQVE.VDFDPNQERRRH...E.YE | |
| Retrocopy | RPYDKGCLVIEFKVNFPENGFLSPDKLSLLEKLLLERKEVEETDETDQVEWVDFDPNQERRRHCKAEEYE |
| Parental | DDEHHPRGGVQCQTS |
| DD...PRGGVQCQ.S | |
| Retrocopy | DDVRRPRGGVQCQIS |
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 | 65 .15 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 171 .97 RPM |
| SRP012922_heart | 0 .00 RPM | 67 .06 RPM |
| SRP012922_kidney | 0 .00 RPM | 93 .36 RPM |
| SRP012922_liver | 0 .00 RPM | 126 .94 RPM |
| SRP012922_lung | 0 .00 RPM | 111 .79 RPM |
| SRP012922_quadricep_muscle | 0 .00 RPM | 53 .31 RPM |
| SRP012922_spleen | 0 .00 RPM | 93 .51 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_640 was not experimentally validated.