RetrogeneDB ID: | retro_mdom_690 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 2:108124726..108125346(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RGS2 | ||
| Ensembl ID: | ENSMODG00000012101 | ||
| Aliases: | None | ||
| Description: | regulator of G-protein signaling 2, 24kDa [Source:HGNC Symbol;Acc:9998] |
Retrocopy-Parental alignment summary:
>retro_mdom_690
ATGCAGAATGTTATGTTCTGACTTTCCAACCCAATTGCGGTTCCTTGGAGAAAAGCGCCTGTGGTTACCCAAAGGACAGA
GAAGTGAGAAAAGCTGAAGCAAATGATCATAAAAGACTGGAAGACAAGATTAAGCTACTTCCTACAAAATTTCATCCACA
CCTGGGAAGTCAAAAGCCCACAAGAAAGGCAAAGAGCAAGCTTTTATTAAATCTGCTCCAGAAGAAGCACAGCTGTGGTC
AGAAACATTTGATGAGCTCCTAGCCAATAAATATGGTCTTGCCACATTTTGAGCTTTTTTTAAAGTCTGAGTTTTGTGAA
GAAAACATAGAATTCTGGCTGACCTGTAAAGATTTCAAGAAAACCAAGTCTCCCCAGAAGTTGACTTCAAAGGCCTGGAA
AATTTATACTGACTTCATAGAAAAGGAGATAAATATAGACTTTCACACTAAAACCATGATTGCCCAGAATATTGAAGAGG
CTACAACTGGCTGCTTCATTATAGTCCAGAAAAGAGTCTAGAGTTTGATAGAGAACAATTGCTATCCCCGGTTTTTGGAG
TCTGAATTTTATAAGGACTTGTATAAAAAGCCACAGATTACTAGAGAGCCTCAGGCTACA
ORF - retro_mdom_690 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 82.41 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 5 |
Retrocopy - Parental Gene Alignment:
| Parental | MQSVMF-LAFQPNCGSMEKSACGY-PKDE-EKREKMKRTILKDWKTRLSYFLQN-SSTPGKPKANKKGKQ |
| MQ.VMF.L.FQPNCGS.EKSACGY.PK...EK.EK.K..I.KDWKTRLSYFLQN.SSTPGK.KA.KKGK. | |
| Retrocopy | MQNVMF<LTFQPNCGSLEKSACGY<PKGQ<EK*EKLKQMIIKDWKTRLSYFLQN>SSTPGKSKAHKKGKE |
| Parental | QAFIKPSPEEAQLWSETFDELLANKYGLAAFRAF-LKSEFCEENIEFWLACEDFKKTKSPQKLNSKARKI |
| QAFIK..PEEAQLWSETFDELLANKYGLA.F.AF.LKSEFCEENIEFWL.C.DFKKTKSPQKL.SKA.KI | |
| Retrocopy | QAFIKSAPEEAQLWSETFDELLANKYGLATF*AF>LKSEFCEENIEFWLTCKDFKKTKSPQKLTSKAWKI |
| Parental | YTDFIEKEAPKEINIDFQTKTMIAQNIEEATTGCFITAQKRVYSLMENNSYPRFLESEFYQDLCKKPQIT |
| YTDFIE....KEINIDF.TKTMIAQNIEEATTGCFI..QKRV.SL.ENN.YPRFLESEFY.DL.KKPQIT | |
| Retrocopy | YTDFIE----KEINIDFHTKTMIAQNIEEATTGCFIIVQKRV*SLIENNCYPRFLESEFYKDLYKKPQIT |
| Parental | REPQAT |
| REPQAT | |
| Retrocopy | REPQAT |
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_690 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_690 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 4 parental genes, and 4 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000034366 | 1 retrocopy | |
| Cavia porcellus | ENSCPOG00000011598 | 1 retrocopy | |
| Macropus eugenii | ENSMEUG00000007191 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000012101 | 1 retrocopy |
retro_mdom_690 ,
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