RetrogeneDB ID: | retro_dnov_1337 | ||
Retrocopylocation | Organism: | Armadillo (Dasypus novemcinctus) | |
| Coordinates: | scaffold_184022:3325..3742(-) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | ENSDNOG00000000700 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | TFPI2 | ||
| Ensembl ID: | ENSDNOG00000011144 | ||
| Aliases: | None | ||
| Description: | tissue factor pathway inhibitor 2 [Source:HGNC Symbol;Acc:11761] |
Retrocopy-Parental alignment summary:
>retro_dnov_1337
ATGGACCCTGCTTGCCCTCTGAGACTGCAGATTCTGTTGCTGCTCTTGACTGGCGCTGTGTTGGTGAATGCTGCTCTAGC
ACCAACAGGGGAAAACGTGAGATCTGCCTCCTGCTTCCCAATGAAGGGTCCTGTTGGCCAGAATCCCCAAGTACTGCTGT
GACAGGTACACAACAGAGCTGTCACTTGTTCTTATATGGGGGCTGCAAGGGTAACAGGCAACAATTTTGAAATTTGGGAG
CCCTATGATGAAGCTTGCCAGAGGATAGAGAAACTTTCCAAAATTTGTGAAATGGAAGTCAGTGAAGGACACTGTAAGAA
GTCCAAAGAAAAGTATTTATTCAATCTAAGTTTTCGTGACATGTGAAAATTTGTATCTAGCATGTGTAACCATAATGAGA
ACCAGTTTCCTGATAAA
ATGGACCCTGCTTGCCCTCTGAGACTGCAGATTCTGTTGCTGCTCTTGACTGGCGCTGTGTTGGTGAATGCTGCTCTAGC
ACCAACAGGGGAAAACGTGAGATCTGCCTCCTGCTTCCCAATGAAGGGTCCTGTTGGCCAGAATCCCCAAGTACTGCTGT
GACAGGTACACAACAGAGCTGTCACTTGTTCTTATATGGGGGCTGCAAGGGTAACAGGCAACAATTTTGAAATTTGGGAG
CCCTATGATGAAGCTTGCCAGAGGATAGAGAAACTTTCCAAAATTTGTGAAATGGAAGTCAGTGAAGGACACTGTAAGAA
GTCCAAAGAAAAGTATTTATTCAATCTAAGTTTTCGTGACATGTGAAAATTTGTATCTAGCATGTGTAACCATAATGAGA
ACCAGTTTCCTGATAAA
ORF - retro_dnov_1337 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 53.15 % |
| Parental protein coverage: | 59.83 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 4 |
Retrocopy - Parental Gene Alignment:
| Parental | MDPARPLELLILPLLLT-QTLGDPGPGPTGNN-REICLLPPDEGPC-RALFRRYHYDRIT-QSCVQFWYG |
| MDPA.PL.L.IL.LLLT...L......PTG.N.REICLL.P.EG.C..A....Y..DR.T.QSC..F.YG | |
| Retrocopy | MDPACPLRLQILLLLLTGAVLVNAALAPTGEN<REICLLLPNEGSC<LARIPKYCCDRYT>QSCHLFLYG |
| Parental | GCRGN-ANNFETQEACDNACGMIEKVPKFCRWEVNEEECKEFKEDYFFNLSSMACEK-ISGGCNRKKNRF |
| GC.GN..NNFE..E..D.AC..IEK..K.C..EV.E..CK..KE.Y.FNLS.....K..S..CN...N.F | |
| Retrocopy | GCKGN>GNNFEIWEPYDEACQRIEKLSKICEMEVSEGHCKKSKEKYLFNLSFRDM*KFVSSMCNHNENQF |
| Parental | PDE |
| PD. | |
| Retrocopy | PDK |
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 | 20 .03 RPM |
| SRP012922_cerebellum | 0 .00 RPM | 0 .96 RPM |
| SRP012922_heart | 0 .00 RPM | 7 .66 RPM |
| SRP012922_kidney | 0 .00 RPM | 47 .64 RPM |
| SRP012922_liver | 0 .00 RPM | 20 .90 RPM |
| SRP012922_lung | 0 .00 RPM | 66 .89 RPM |
| SRP012922_quadricep_muscle | 0 .17 RPM | 2 .77 RPM |
| SRP012922_spleen | 0 .00 RPM | 294 .97 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_1337 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 | ENSDNOG00000011144 | 1 retrocopy |
retro_dnov_1337 ,
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