RetrogeneDB ID: | retro_mdom_198 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 3:291507348..291508653(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMODG00000021403 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | None | ||
| Ensembl ID: | ENSMODG00000011798 | ||
| Aliases: | None | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_mdom_198
GTACTAGATCTGTACAAGACTGGCAAAATGGAGGCCCAAGACGGAAAGTCTGAGGTTATGCTGGCTGTTGTGACAGAACC
TCAGTTTACCCAGCATTATAGAGAATATCTTGAGAAGCAGCAGCTCCTGGACAGGCGTCACCGAGTGAAGCAGCTGCCCG
ATGGTACCATAGCACTACCTGTTGTGGGAGAGACCCTCAGTGAGCAGCACCTACTAGCCCTGAGGCAGCAAGGGACCCCT
GAGAACATCTGCCGGCTGGTGCACATCCCGAAACCCATTCTTTCCAAGAAAGCTCAGAGATGTTCACCTGCTCAGAAGCT
ATGTCAGGAGCTTCAGTGCCTGGTGGAAAGTCAAGGACACATGTGGTCAACTGAGCTAGAAAAAGATCTTCCCCGCTCCT
GGCAACGTCATGGTGACCTCCTTCTGCTCAGTGAGGACAGCTTCAAAGATCCCCATTGGAAAAAACTGGAACCAGGGCTC
TGGAAGACAGTAGCCTCTGCACTGGGAGGTCAGCGTTTGGCAAAGCGAGGGCGTGTGTCGCCAGGTGGAACACGAACTCC
CAAAGTAATCCTAATGCTGGGTGACCATGGCTGGGTGGAGCATGTGGATAATGGCATCAGGTACACATTTGATGTGACTC
AAAGTATGTTCTCCTTTGGAAACATCACAGAAAAGCTGCGAGTGGCATCAATGTCCTGTGCAGGAGAAGTGCTAGTGGAT
CTCTATGCAGGGATTGGCTACTTCACTTTGCCATTCCTCATTCATGCAAATGCTGCTTTTGTCCATGCCTGTGAGTGGGA
TCCTCATGCCGCAGCAGCCTTGAAAAAGAACCTGGAGCTCAATGGTGTTTCGGATCGCTGCAGTATACACCTTGGTGATA
ACAGGAAGCTAAAGTTACGGAGCATTGCAAACAGGGTGAACTTGGGGCTCATCCCCACCTCAGAGGAGGGCTGGCCCATT
GCCTGCCAGGTACTGCGCCAGGACACTGGCGGCATCCTGCATATCCATCACAATGTGGAGTCTTTCCCAGGGAAAGACCT
TCAGCTCCCCAGTAGCAGTGAGGCAGGGCAAAAGGAGCAGATAGCTGCCAGGAATTCTGGAAGACAAACACCAGCAAAGG
TCCCTAAGCTAGAATGGAGAAAGTGGGCTGAAGTTGTGGCTGCTCGGATTAGAGACCTGCTTTTGCAGCTGCATGGGAAC
CCCTGGGAGACCCATATCCTGCATATTCAGCCAGTGAAATCTTATGCTCCCCATGTGGATCACATAGTCTTAGATTTGGA
CTGTCGTCCCCTCTCTTATTCTGGG
ORF - retro_mdom_198 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 84.01 % |
| Parental protein coverage: | 88.21 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | KSDLVVAVVTEPRFTQCCREYLEKQQLLDRQHRVKQLPDGTMALPVLGETLSEWHLQALRKQGAPGSTCR |
| KS....AVVTEP.FTQ..REYLEKQQLLDR.HRVKQLPDGT.ALPV.GETLSE.HL.ALR.QG.P...CR | |
| Retrocopy | KSEVMLAVVTEPQFTQHYREYLEKQQLLDRRHRVKQLPDGTIALPVVGETLSEQHLLALRQQGTPENICR |
| Parental | LARIPKPVPSKKAQSSSPGQNLCQDVRHLVESQGHIWSAELEKDLPHSWQCHGDLLLLNENSFKATYWKK |
| L..IPKP..SKKAQ..SP.Q.LCQ....LVESQGH.WS.ELEKDLP.SWQ.HGDLLLL.E.SFK...WKK | |
| Retrocopy | LVHIPKPILSKKAQRCSPAQKLCQELQCLVESQGHMWSTELEKDLPRSWQRHGDLLLLSEDSFKDPHWKK |
| Parental | LEPGLWKTVASALGGLRLAKRGRVSPGGTRTPKVILLLGDHGWVEHVDNGIRYTFDVTQSMFSFGNITEK |
| LEPGLWKTVASALGG.RLAKRGRVSPGGTRTPKVIL.LGDHGWVEHVDNGIRYTFDVTQSMFSFGNITEK | |
| Retrocopy | LEPGLWKTVASALGGQRLAKRGRVSPGGTRTPKVILMLGDHGWVEHVDNGIRYTFDVTQSMFSFGNITEK |
| Parental | LRVASMSCAGEVLVDLYAGIGYFTLPFLIHANAAFVHACEWDPHAATALKKNLELNSVADRCCIHLGDNR |
| LRVASMSCAGEVLVDLYAGIGYFTLPFLIHANAAFVHACEWDPHAA.ALKKNLELN.V.DRC.IHLGDNR | |
| Retrocopy | LRVASMSCAGEVLVDLYAGIGYFTLPFLIHANAAFVHACEWDPHAAAALKKNLELNGVSDRCSIHLGDNR |
| Parental | KLKLRSIADRVNLGLIPSSEEGWPIACQVLRQDTGGILHIHHNVESFPGKELQLPNSSEAGQKEQRAARN |
| KLKLRSIA.RVNLGLIP.SEEGWPIACQVLRQDTGGILHIHHNVESFPGK.LQLP.SSEAGQKEQ.AARN | |
| Retrocopy | KLKLRSIANRVNLGLIPTSEEGWPIACQVLRQDTGGILHIHHNVESFPGKDLQLPSSSEAGQKEQIAARN |
| Parental | SGRQTPAKIAKLEWRRWAETVAAHIGVLLLQQHGKLWKTQILRVQRVKSYAPHVHHLVLDLDCRPLSCS |
| SGRQTPAK..KLEWR.WAE.VAA.I..LLLQ.HG..W.T.IL..Q.VKSYAPHV.H.VLDLDCRPLS.S | |
| Retrocopy | SGRQTPAKVPKLEWRKWAEVVAARIRDLLLQLHGNPWETHILHIQPVKSYAPHVDHIVLDLDCRPLSYS |
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_198 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_198 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 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Monodelphis domestica | ENSMODG00000011798 | 1 retrocopy |
retro_mdom_198 ,
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