RetrogeneDB ID: | retro_mdom_601 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 1:482587095..482588231(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | RASSF8 | ||
| Ensembl ID: | ENSMODG00000016548 | ||
| Aliases: | None | ||
| Description: | Ras association (RalGDS/AF-6) domain family (N-terminal) member 8 [Source:HGNC Symbol;Acc:13232] |
Retrocopy-Parental alignment summary:
>retro_mdom_601
TACACTAATAGAAAAAAATGGAGAGATACAGAGAGACACTTAGCACCTCATGAAAATCCAATCATTTCATTAAACAAATG
GGGACAATATGCCAGTGATTACAACTAATATTACATCGTACAGGGCCATCTCTTAGTGAGAGGCCAACTTCAGACAGTGT
TGCCCGAATACCTGAGAGAACTTTATATAGACAAAGCTTGCCCCCCTTGGATAAACTGAGGCCTCAAAATGACAAGTCAA
TAAAAAGGTGAGAGCCAAAAAGGAAGTCTTTGACATTTATAGGAGGTGTCAAAGGACTCATGGACATTTTTGCGAAAGGT
AAAGAAACCAAATTTAAACAAAAAGTTCTTAGTAACTGTAAGACAAAAGCATATAAATTAAAAAAGCTCACCCACTTCAG
GCAGAAAAGCTTCAATTCATTGAGAAGCAATTTGAATCCAATGACATGGAAATTAGGTACTGGGAACAAAAGAACAATTC
TAACCTGGAAGAAGAAATTGTTCATCTTGAGCAGAAGATCAAAAGAAATGATATAGAAATTAAAGAGGAAGAATTTTGGT
GAAATGAATTACAGATTGAACAAGAAAATGAAAAACAGCTGAAGGATAAGCTTCAAGAGATGAAGTAGAGTATCCTAGAA
TGTGAAGGCAAATTAAGGGACTTTTTGGCTCAAATCCACAGTATAGAAAGTGGTCTGGAAGCAGAAAAGTTACACGAGGA
AGTTCAAGAGTCACAGGTCAATGAAGTAGTGAAAAGAAAGATTGGTAAGGTCAAAGGAGAAATTGATATTCAGGGACAAC
AGAGTCTGGGGTTAGAAAATGGCATTAAAGCTGTAGAAAGACCTCTAGGGACAAGCCACCAAAAGGTTACAGGACAAAGA
ACAAGAGCTAGAACAATTGACTAAATAGGTTCAACAAGTCAATCTTCAACAGTTTATATAACAGACGGGAACAAAGGTTA
CAGTTCTTCCATCAGAGACCATCGAAGTGGAAGCCTCACATGCAGACATAGAAAGGGAGACATCATTCCAGTCTGGGTCC
TTGAAACATCCTGGTTCCTCTCTGCAGCTGCCCAGTAACCTTTGGATTCTACAGAATCCAATTTCATCTGGCTTTAATCC
TGAGGGCATATATGTA
ORF - retro_mdom_601 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 87.47 % |
| Parental protein coverage: | 90.69 % |
| Number of stop codons detected: | 5 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | YTLIEKWRDTERHLAPHENPIISLNKWGQYASD-VQLILRRTGPSLSERPTSDSVARIPERTLYRQSLPP |
| YT...KWRDTERHLAPHENPIISLNKWGQYASD..QLIL.RTGPSLSERPTSDSVARIPERTLYRQSLPP | |
| Retrocopy | YTNRKKWRDTERHLAPHENPIISLNKWGQYASD<LQLILHRTGPSLSERPTSDSVARIPERTLYRQSLPP |
| Parental | LAKLRPQNDKSIKRREPKRKSLTFTGGAKGLMDIFGKGKETEFKQKVLSNCKTTADELKKLIR-LQTEKL |
| L.KLRPQNDKSIKR.EPKRKSLTF.GG.KGLMDIF.KGKET.FKQKVLSNCKT.A..LKKL...LQ.EKL | |
| Retrocopy | LDKLRPQNDKSIKR*EPKRKSLTFIGGVKGLMDIFAKGKETKFKQKVLSNCKTKAYKLKKLTH<LQAEKL |
| Parental | QSIEKQLESNDMEIRYWEQKYNSNLEEEIVRLEQKIKRNDVEIEEEEFWENELQIEQENEKQLKDQLQEM |
| Q.IEKQ.ESNDMEIRYWEQK.NSNLEEEIV.LEQKIKRND.EI.EEEFW.NELQIEQENEKQLKD.LQEM | |
| Retrocopy | QFIEKQFESNDMEIRYWEQKNNSNLEEEIVHLEQKIKRNDIEIKEEEFW*NELQIEQENEKQLKDKLQEM |
| Parental | KQRILECEGKLKDYLAQIHSIESGLEAEKLHREVQESQVNEEEVKGKIGKVKGEIDIQGQQSLRLENGIK |
| K..ILECEGKL.D.LAQIHSIESGLEAEKLH.EVQESQVN.E.VK.KIGKVKGEIDIQGQQSL.LENGIK | |
| Retrocopy | K*SILECEGKLRDFLAQIHSIESGLEAEKLHEEVQESQVN-EVVKRKIGKVKGEIDIQGQQSLGLENGIK |
| Parental | AVERSL-GQATKRLQDKEQELEQLTKELRQVNLQQFIQQTGTKVTVLPAEPIEVEASHADIEREASFQSG |
| AVER.L.GQATKRLQDKEQELEQLTK...QVNLQQFI.QTGTKVTVLP.E.IEVEASHADIERE.SFQSG | |
| Retrocopy | AVERPL>GQATKRLQDKEQELEQLTK*VQQVNLQQFI*QTGTKVTVLPSETIEVEASHADIERETSFQSG |
| Parental | SLKRPGSSRQLPSNLRILQNPISSGFNPEGIYV |
| SLK.PGSS.QLPSNL.ILQNPISSGFNPEGIYV | |
| Retrocopy | SLKHPGSSLQLPSNLWILQNPISSGFNPEGIYV |
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 .12 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 .20 RPM | 0 .00 RPM |
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_601 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_601 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 | ENSMODG00000016548 | 1 retrocopy |
retro_mdom_601 ,
|
| Tarsius syrichta | ENSTSYG00000000655 | 1 retrocopy |