RetrogeneDB ID: | retro_mdom_855 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 2:210319898..210320361(-) | ||
| Located in intron of: | ENSMODG00000010102 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ARMC7 | ||
| Ensembl ID: | ENSMODG00000007172 | ||
| Aliases: | None | ||
| Description: | armadillo repeat containing 7 [Source:HGNC Symbol;Acc:26168] |
Retrocopy-Parental alignment summary:
>retro_mdom_855
ATAGATCCAAAGCCTCAAGTTGTCTTAGAGGGAGGATGGCTAGAATACCTGAAGGCACTGCTCACCAAGTTCTAGGAGAC
AGCAAAACAAGAAGCCAAGGAGCAAATGCTATTGAATCTAGTAAAGTCTGCCCGTGATCCCAACAACTACCAGTATCCCC
CAGGAATTGAAGATGTTGAACTTATTCCTTGATGTACTATTGAGTGACAACAGTGATACATTAGTGGAATTTGTCATCAG
TGGCTTTTGCAACCTGTGCCTGGATAAAGTTAACAAAGAGTATATTCTACAGATGGGAGGCATCAAACCAATCAACAATT
GCCTCTACAGCCCCAATGAGGAGATAGTCATGTCAGTAGTCACAATACTCATGTTCCTGAGCACATCCCAGTCCATGTAG
GAACACATATCCATGCCAGTGGTGGAATGCTTATTATTTTGCTCTTCCTCTCTGCAACTAAGA
ORF - retro_mdom_855 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 69.68 % |
| Parental protein coverage: | 80.53 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MDPKPRVVPEGGRLEYLQALVTEFQETASQEAKEQVLANLANFAYDPNNYQYL-RELQVLDLFLDVL-SE |
| .DPKP.VV.EGG.LEYL.AL.T.F.ETA.QEAKEQ.L.NL...A.DPNNYQY...EL..L.LFLDVL.S. | |
| Retrocopy | IDPKPQVVLEGGWLEYLKALLTKF*ETAKQEAKEQMLLNLVKSARDPNNYQYP>QELKMLNLFLDVLLSD |
| Parental | DSDTLVEFAIGGLCNLCLDKVNKEYILQMGGVKPIINCLSSSNEETVMSAVTTLMFLSTSQSIQELTALP |
| .SDTLVEF.I.G.CNLCLDKVNKEYILQMGG.KPI.NCL.S.NEE.VMS.VT.LMFLSTSQS..E....P | |
| Retrocopy | NSDTLVEFVISGFCNLCLDKVNKEYILQMGGIKPINNCLYSPNEEIVMSVVTILMFLSTSQSM*EHISMP |
| Parental | VVECMLRFSLSANKR |
| VVEC.L..S.S...R | |
| Retrocopy | VVECLLFCSSSLQLR |
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_855 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_855 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 | |
|---|---|---|---|
| Monodelphis domestica | ENSMODG00000007172 | 1 retrocopy |
retro_mdom_855 ,
|
| Ictidomys tridecemlineatus | ENSSTOG00000015164 | 1 retrocopy |