RetrogeneDB ID: | retro_mdom_46 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | Un:27787083..27788499(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMODG00000019213 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSMODG00000006919 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mdom_46
CGTGGAGCCAATATGAATTGGAGTCTGGCACTTCCCAGTTCTCCAGGGTCTTCTTCTAACAAGCATGGAGACAGGTTCAT
TCCCTCCAGAGCTGGAGCCAACTGGGGCCTGTACTTCCATAAACCGACTCAACCTGAGAAATCACCCAAGCAGAAACGCA
AAGCAAAGCAAGCCACCTTAGACAGTTGTCCAGTTAACCCTTTCTATACTGCCTTGTTGAAGAACGAGCTACTAGGAGCT
GGGATCGAGAATGTCCCACATCCCAAAGGAGAGAGCCAAGGGCTGCAGTCTCCTATACCACATACAAAGAATCTCTTCTC
ATATGCTCACAACACGAAGCGCTGGAGACCTGATTCTGGTAGTGAAGTCTGTCCTTATATCTTATCTCCCATCAGCAACA
AAAGTCAGACATTACTAAAGTCCCAGCAGAAACCAATCCGAAAAATTTCTGAAAGCCCTTTCAAAATCCTCGAGGCCCCA
GAACTCCAAAATGACTTCTACTTGAACCTGGTAGACTGGTCTTGCCTAAACATCATCACTGTGGGCCTGGGCAGCCGTGC
TTACCTGTGGAATGCTGCTACATGCCAGGTGACTAAGCTGTGTGACTTGTCTAGTGATGAAGATTATGTGACTTCTGTGA
ACTGGTCTGAACAGGGGAACTTGGTAGCAGTTGGAACAGACAAAGGCCTGGTACAGGTCTGGGATGTAACTGCAGGGAAG
ATGCTGTGCAAGTTGGAGGGTCACGCAGCTCGAGTTGGCGTGCTTGCCTGGAATGCTGATCAGATTTCCTCTGGAGGCCG
GGACACGATGATCCTCCAGAGAGACATCCGGGCACCCCGCCCTCAGTCTGAGCGCTGGCTGATAGGGCACAGGCAAGAGG
TATGTGGGCTAAAGTGGTCCGTAGATCACCAGCTTCTGGCTTCAGGTGGAAATGATAATACAGTTCTGGTCTGGAGCCTC
TACAATGTTAAGCCTGTCCATAAGTACACCAAACATGTGGCTGCCGTAAAAGCGATTGCCTGGTCTCCCCATCAACACGG
CCTGTTGGCATCAGGTGGTGGAACAGCAGACCGCAACATTCGCTTCTGGAACACATTGACGGGACAGCCCGTTCAGCATA
TTGATACTGGTTCCCAAGTGTGCAATCTGGCCTGGTCCAGACATGACAACGAGCTGGTGAGCACCCATGGATATGCCGAA
AACCAGATTGCCGTCTGGAGATATCCTTCCTTGACAAAAGTAGCCAAACTCATAGGGCACTCCTACCGAGTTTTGTATCT
GGCAGTGTCTCCCGATGGACAGTCCATAGTTACAGGAGCTGGGGATGAGACACTGAGATTCTGGACTGTTTTTTATAAAA
CTCATTCTGCAAAGGAAGCTGCTTCTGCCCTCAGTCTCTTCACTAAAATTCGGTAA
ORF - retro_mdom_46 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.58 % |
| Parental protein coverage: | 95.13 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | AEMRRTLTPSNSPMSSPSKHGDRFIPSRAGANWSINFHRINENEKSPSQNRKAKDATSDNGKDGLAYSAL |
| A.M...L....SP.SS..KHGDRFIPSRAGANW...FH.....EKSP.Q.RKAK.AT.D.......Y.AL | |
| Retrocopy | ANMNWSLALPSSPGSSSNKHGDRFIPSRAGANWGLYFHKPTQPEKSPKQKRKAKQATLDSCPVNPFYTAL |
| Parental | LKNELLGAGIEKVQDPQTEDRRLQPSTPEKKSLFTYSLSTKRSSPDDGNEVSPYSLSPVSNKSQKLLRSP |
| LKNELLGAGIE.V..P..E...LQ...P..K.LF.Y...TKR..PD.G.EV.PY.LSP.SNKSQ.LL.S. | |
| Retrocopy | LKNELLGAGIENVPHPKGESQGLQSPIPHTKNLFSYAHNTKRWRPDSGSEVCPYILSPISNKSQTLLKSQ |
| Parental | RKPTRKISKIPFKVLDAPELQDDFYLNLVDWSSLNVLSVGLGTCVYLWSACTSQVTRLCDLSVEGDSVTS |
| .KP.RKIS..PFK.L.APELQ.DFYLNLVDWS.LN...VGLG...YLW.A.T.QVT.LCDLS...D.VTS | |
| Retrocopy | QKPIRKISESPFKILEAPELQNDFYLNLVDWSCLNIITVGLGSRAYLWNAATCQVTKLCDLSSDEDYVTS |
| Parental | VGWSERGNLVAVGTHKGFVQIWDAAAGKKLSMLEGHTARVGALAWNADQLSSGSRDRMILQRDIRTPPVQ |
| V.WSE.GNLVAVGT.KG.VQ.WD..AGK.L..LEGH.ARVG.LAWNADQ.SSG.RD.MILQRDIR.P..Q | |
| Retrocopy | VNWSEQGNLVAVGTDKGLVQVWDVTAGKMLCKLEGHAARVGVLAWNADQISSGGRDTMILQRDIRAPRPQ |
| Parental | TERRLQGHRQEVCGLKWSTDHQLLASGGNDNKLLVWNHSSLSPVQQYTEHLAAVKAIAWSPHQHGLLASG |
| .ER.L.GHRQEVCGLKWS.DHQLLASGGNDN..LVW......PV..YT.H.AAVKAIAWSPHQHGLLASG | |
| Retrocopy | SERWLIGHRQEVCGLKWSVDHQLLASGGNDNTVLVWSLYNVKPVHKYTKHVAAVKAIAWSPHQHGLLASG |
| Parental | GGTADRCIRFWNTLTGQPLQCIDTGSQVCNLAWSKHANELVSTHGYSQNQILVWKYPSLTQVAKLTGHSY |
| GGTADR.IRFWNTLTGQP.Q.IDTGSQVCNLAWS.H.NELVSTHGY..NQI.VW.YPSLT.VAKL.GHSY | |
| Retrocopy | GGTADRNIRFWNTLTGQPVQHIDTGSQVCNLAWSRHDNELVSTHGYAENQIAVWRYPSLTKVAKLIGHSY |
| Parental | RVLYLAMSPDGEAIVTGAGDETLRFWNVFSKTRSTKESVSVLNLFTRIR |
| RVLYLA.SPDG..IVTGAGDETLRFW.VF.KT.S.KE..S.L.LFT.IR | |
| Retrocopy | RVLYLAVSPDGQSIVTGAGDETLRFWTVFYKTHSAKEAASALSLFTKIR |
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 |
|---|---|---|
| SRP007412_brain | 0 .00 RPM | 0 .00 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .00 RPM |
| SRP007412_testis | 0 .00 RPM | 0 .00 RPM |
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_46 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_46 was not experimentally validated.
Retrocopy orthology:
Monodelphis domestica 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 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Monodelphis domestica | ENSMODG00000006919 | 4 retrocopies |