RetrogeneDB ID: | retro_mdom_758 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 2:366226567..366227223(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CAMLG | ||
| Ensembl ID: | ENSMODG00000014251 | ||
| Aliases: | None | ||
| Description: | calcium modulating ligand [Source:HGNC Symbol;Acc:1471] |
Retrocopy-Parental alignment summary:
>retro_mdom_758
AGGAAATTGCTGATGAACTTAGTATTGTGAACCAACCAAACCCTGGGCTTCCACTGTAGTAAGAGCACCTCAGGTGAGAA
GCTGGGGCCCTCTGAATTAGAAGTGAACAAAGAACAAAGCAGCATGACACTGATAAAATAAATTTCCTTGCTGTTCCCTC
AGTTTCAAATTGAGTTATGCTGGGTAATTCAATGAGAACAGAAACAGTGAACCAGCAGGGTGGCATTGCAAAGTTCAAGG
GAACCCAATTGGTAGATAAATAGGGCACTTTAATCAATCCACCTGAGAGCAGTAATGATGGTAAGTCTTGAACTCTGACA
CTGAAAAAGAAGGGTTCTCATAGCTGACACTGTCCAGAGTAACTCCTAGCATTGCTTAGCCAGTATCTTTCCAGGTTTGA
TGAAAACAATGAAATTAAGGCAATAATTGATTACTGAGAAACCTAGTCAAGAGAATGGGAATTAAAGAAGAATTTTGATA
CTTTTCAAATTTTCAGATTGGTAGGATATGCATTTCTTGCCCTTGTAGTTCTGGTTTTTGTGTATAAATATTTGTCCATA
TTGATTCCATTTGTTACAATTTGCATGGGATTCTTTAAGTACTTACTAAAGAATGAAAAGGTGAAGATGAAAGTGCTAAC
TGCTACAATTTTTATT
ORF - retro_mdom_758 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 59.65 % |
| Parental protein coverage: | 73.11 % |
| Number of stop codons detected: | 7 |
| Number of frameshifts detected: | 5 |
Retrocopy - Parental Gene Alignment:
| Parental | RKLLMNSEQRINRIMGFHRSGTSAGEKLGPPEDEVNTE-TKQHDTDKLNSLAVPSVSKRVVLGDSTSTGT |
| RKLLMN.....N...GFH.S....GEKLGP.E.EVN.E.TKQHDTDK.N.LAVPSVS..V.LG.S..T.T | |
| Retrocopy | RKLLMNLVL*TNQTLGFHCSKSTSGEKLGPSELEVNKE<TKQHDTDKINFLAVPSVSN*VMLGNSMRTET |
| Parental | LEHQDGTTEFKGTQLVDKKDPLINPPESNNDG-NLELRHRKRGDLTTDTIQRSSQHG-LDQYLSRFDE-A |
| ...Q.G...FKGTQLVDK...LINPPES.NDG..LEL.H.KR..L..DT.Q..S.H..L.QYLSRFDE.. | |
| Retrocopy | VNQQGGIAKFKGTQLVDK*GTLINPPESSNDG>SLEL*H*KRRVLIADTVQSNS*HC<LSQYLSRFDE>T |
| Parental | MKLRKQLISEKSSQENGS-TGEEFDTFRIFRLVGCALLALGVRAFVCKYLSIFAPFLTLQLAFMGLSKYF |
| MKLR..LI.EK.SQENG......FDTF.IFRLVG.A.LAL.V..FV.KYLSI..PF.T.....MG..KY. | |
| Retrocopy | MKLRQ*LITEKPSQENGN<LKKNFDTFQIFRLVGYAFLALVVLVFVYKYLSILIPFVTI---CMGFFKYL |
| Parental | PKSEKKMKTTVLTAALLL |
| .K.E.K.K..VLTA.... | |
| Retrocopy | LKNE-KVKMKVLTATIFI |
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 | 93 .93 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 86 .51 RPM |
| SRP007412_heart | 0 .00 RPM | 43 .26 RPM |
| SRP007412_kidney | 0 .00 RPM | 57 .94 RPM |
| SRP007412_liver | 0 .00 RPM | 59 .41 RPM |
| SRP007412_testis | 0 .00 RPM | 153 .81 RPM |
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_758 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_758 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 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Macropus eugenii | ENSMEUG00000013676 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000014251 | 1 retrocopy |
retro_mdom_758 ,
|
| Otolemur garnettii | ENSOGAG00000003580 | 1 retrocopy |