RetrogeneDB ID: | retro_mdom_5 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | X:68181814..68183023(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMODG00000005047 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | DCAF7 | ||
| Ensembl ID: | ENSMODG00000009994 | ||
| Aliases: | None | ||
| Description: | DDB1 and CUL4 associated factor 7 [Source:HGNC Symbol;Acc:30915] |
Retrocopy-Parental alignment summary:
>retro_mdom_5
ATGGCCCAGGTATCCCGAACCGATTATCAGTACCGCAAGATCTACAGGTATGAAGCCCCATGGACTGTGTATGCCATGAA
TTGGAGCGTACGGGCCGACCAGCCCTTCCGCTTGGCTCTGGGAAGTTTTATGGAAGAATACGGTAACAAGGTACAACTCG
TGAGCCTGGCCTCTGACTGGGTTGACACCCACGGGGACTTTATATGTGGCCACACTCTGAACCACCCGTATCCCGCTACC
AAGGTTATGTGGATCCCTGACCCTCAGGGTATTCGTCCAGACCTACTAGCCACTAGCGGCGACTACCTACGGGTGTGGCG
CTGCCCAAGTGCCACTGAGGTGCTTCCTGCCACGGGTAGAGCGAGGGGAACTATCCATGGCGCCCAGGCAGCAGGGGGCA
GTGTTTTCCAAGGGCGCGGGCGTGGCCGAGGGCGCGGTCGCGGTCGCGGGCGCGGTTTCACTGTTGCCGAGGCTGCTTCC
ACAGTTGGGGCAGCCGCTGATTTGGAACCCCGCCTCGAATGCCTCCTTAATCACAACAAGAATACCCGCTTCTGCTCTCC
CCTCACCTCTTTTGATTGGAACGAGACAGACCCCTCCCTTCTGGCCACGTCAAGCAGCGACACGACTTGCACCATCTGGG
CCCTGGAGACCCGCCAGATAGTGGGCCGAGTGTCCGGGCATGGGAAGTCGCAGATTGTTAACCATGACAAAGAGGTCTAT
GACGTTGCCTTCGGAGGGGGCCGAGATGTGTTCGCTTCGGTGGGTGCTGATGGCTCCTTGCGTATGTTTGACCTGCGCCA
GCTGGACCGCAACACCGTGGTGTATGAGGAACCCCAGCGCCTGCCACTGCTGCGCCTTGCCTGGAACAAAAAAGACCTTA
ACTACGTAGCCACCGCAGCCATGAATTCCACTGAGGTAGTCATTCTCGACCTGCGTATGCCTGGCCAGCCTGTGGTCCAC
CTCAACCGCCACGGAGCCTGCGTCAACGGGATTACCTGGGCGCCTCACTCTTCGGGCCACATCTGCACTGCTGCCGACGA
CCACCGCGCTCTCATCTGGGACTTTCAGCAGAACCCCCCAGCTGCTGAGGACCCCATTCTGACCTACACCGCCAATGGGG
AGATTAACAACGTGCAGTGGGCCTCCGCCAATCACCCTGACTGGATTGCCATCTGCTACAAAAACTTTCTGGAACTGCTC
CGGGTCTAA
ORF - retro_mdom_5 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 70.45 % |
| Parental protein coverage: | 71.93 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | VWRVGETETRLECLLNNNKNSDFCAPLTSFDWNEVDPYLLGTSSIDTTCTIWGLETGQVLGRVNLVSGHV |
| V......E.RLECLLN.NKN..FC.PLTSFDWNE.DP.LL.TSS.DTTCTIW.LET.Q..GR...VSGH. | |
| Retrocopy | VGAAADLEPRLECLLNHNKNTRFCSPLTSFDWNETDPSLLATSSSDTTCTIWALETRQIVGR---VSGHG |
| Parental | KTQLIAHDKEVYDIAFSRAGGGRDMFASVGADGSVRMFDLRHLEHSTIIYEDPQHHPLLRLCWNKQDPNY |
| K.Q...HDKEVYD.AF...GGGRD.FASVGADGS.RMFDLR.L...T..YE.PQ..PLLRL.WNK.D.NY | |
| Retrocopy | KSQIVNHDKEVYDVAF---GGGRDVFASVGADGSLRMFDLRQLDRNTVVYEEPQRLPLLRLAWNKKDLNY |
| Parental | LATMAMDGMEVVILDVRVPCTPVARLNNHRACVNGIAWAPHSSCHICTAADDHQALIWDIQQMPRAIEDP |
| .AT.AM...EVVILD.R.P..PV..LN.H.ACVNGI.WAPHSS.HICTAADDH.ALIWD.QQ.P.A.EDP | |
| Retrocopy | VATAAMNSTEVVILDLRMPGQPVVHLNRHGACVNGITWAPHSSGHICTAADDHRALIWDFQQNPPAAEDP |
| Parental | ILAYTAEGEINNVQWAS-TQPDWIAICYNNCLEILRV |
| IL.YTA.GEINNVQWAS...PDWIAICY.N.LE.LRV | |
| Retrocopy | ILTYTANGEINNVQWASANHPDWIAICYKNFLELLRV |
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_5 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_5 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 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Dasypus novemcinctus | ENSDNOG00000001071 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000009994 | 1 retrocopy |
retro_mdom_5 ,
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