RetrogeneDB ID: | retro_mdom_677 | ||
Retrocopylocation | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 2:76539369..76539713(+) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | ARL1 | ||
| Ensembl ID: | ENSMODG00000003056 | ||
| Aliases: | None | ||
| Description: | ADP-ribosylation factor-like 1 [Source:HGNC Symbol;Acc:692] |
Retrocopy-Parental alignment summary:
>retro_mdom_677
ATGGGAGACTTATTTGCTAACCTCTTCAAGGGACTCTTTGGCAAAAAAGAAATGAAGGTTCTAATGGTTGATCTGGATGC
TGCAGGAAAGATAACTATTTTGTACAAACTGAAGCTGGGTGAAATAGTAACTATTATTACAACTATAGGTTTCAATGTAG
AAACTAACATAAAAACGTTAGCTTCACGATGTGGGATGTAGGTGGCCAGGACAAAATCCAACCCTAATGGCGCTATTACT
TCCAGAATACGCAAGGACTGATCTTTGGGGTTGATAGCAATGACAGAGAGCGAGTGAATGAAGCCATAGAAGAACGGATG
AGAATGTTGGCAGATGCCGTCTTA
ATGGGAGACTTATTTGCTAACCTCTTCAAGGGACTCTTTGGCAAAAAAGAAATGAAGGTTCTAATGGTTGATCTGGATGC
TGCAGGAAAGATAACTATTTTGTACAAACTGAAGCTGGGTGAAATAGTAACTATTATTACAACTATAGGTTTCAATGTAG
AAACTAACATAAAAACGTTAGCTTCACGATGTGGGATGTAGGTGGCCAGGACAAAATCCAACCCTAATGGCGCTATTACT
TCCAGAATACGCAAGGACTGATCTTTGGGGTTGATAGCAATGACAGAGAGCGAGTGAATGAAGCCATAGAAGAACGGATG
AGAATGTTGGCAGATGCCGTCTTA
ORF - retro_mdom_677 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 50.43 % |
| Parental protein coverage: | 64.09 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MGGFFSTIFSSLFGTREMRILILGLDGAGKTTILYRLQVGEVVTTIPTIGFNVETVTYKNL-KFQVWDLG |
| MG..F...F..LFG..EM..L...LD.AGK.TILY.L..GE.VT.I.TIGFNVET...K.L..F..WD.G | |
| Retrocopy | MGDLFANLFKGLFGKKEMKVLMVDLDAAGKITILYKLKLGEIVTIITTIGFNVET-NIKTL<SFTMWDVG |
| Parental | GQTSIRPYWRCYYSNTDAVIYVVDSCDRDRIGVSKSELVAMLEEEEL |
| GQ..I.P.WR.Y..NT...I..VDS.DR.R......E...ML....L | |
| Retrocopy | GQDKIQP*WRYYFQNTQGLIFGVDSNDRERVNEAIEERMRMLADAVL |
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_677 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_677 was not experimentally validated.