RetrogeneDB ID: | retro_pabe_1349 | ||
Retrocopy location | Organism: | Orangutan (Pongo abelii) | |
| Coordinates: | 16:35473283..35474087(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | MOCS1 | ||
| Ensembl ID: | ENSPPYG00000016580 | ||
| Aliases: | None | ||
| Description: | molybdenum cofactor biosynthesis protein 1 [Source:RefSeq peptide;Acc:NP_001126377] |
Retrocopy-Parental alignment summary:
>retro_pabe_1349
GCGCGGCCACTGTCCCGGATGCTGCGGCGGCTCCTAAGATCCAACGCCACGGAGCTGCAGCTCAGGGGTTCGGGTGATGC
CGCTCTGCCCCGGCGAGTCCCCGCAAGCTGCCTCAGAGGAGCTGTCCAGGCGGAGGCAGTTCTTGCGGGAGCAGGAGGCC
CCCTTCTCCGCCTTCCTCACAGACAGCTTCGGCCGGCAGCACAGCTACCTGCGGATCTCCCTCCCGGAGAAGTGCAACCT
CAGATGTCAGTACTGCATGCCGGAGGAAGGGGTCCCGCTGACCCCCAAGGCCAACCTGCTGACCACAAAAGAGATTCTGA
CCCTCGCCTGGCTCTTTGTGAAGGAAGGCATCGAAAAGATCCAGCTCACGGGCGGAGAGCCGCTCATCCAGCCGTACGTG
GTGGACATTGTGGCCCAGCTCCACCGACTGGAAGGGCTGAGGACCATCGGTGTCACCACCAATGGCATCAACCTGGCCCG
GCTGCTGCCCCAGCTTCAGAAGGCTGGTCTCAGCGCCATCAACATCAGCCTGGACACACTGGTGCCTGCCAAGTTTGAGT
TCATTGTCCGCAGGAAAGTCTTCCACAAGGTCATGGAGGGCATCCACAAGGCCATCGAGCCAGGCTACAACCCTGTGAAG
GTGAACTGTGTGGTGATGCGAGGCCTTAACGAGGATGAACTCCTGGACTTTGCGGCCTTGACCAAGGGCCTCCCCCTGGA
TGTGCGCTTCATAGAGTACATGCCCTTTGATGGCAACAAGTGGAACTTCAGGAAGATGGTCGCTATAAGGAGATGCTAGA
AACT
ORF - retro_pabe_1349 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 89.63 % |
| Parental protein coverage: | 69.61 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 2 |
Retrocopy - Parental Gene Alignment:
| Parental | ARPLSRMLWRLLRSSA-RSCSSGAPVTQPCPGESARAASEELSRRRQFLREHAAPFSAFLTDSFGRQHSY |
| ARPLSRML.RLLRS.A.RSCSSG..V...CPGES..AASEELSRRRQFLRE..APFSAFLTDSFGRQHSY | |
| Retrocopy | ARPLSRMLRRLLRSNA>RSCSSGVRVMPLCPGESPQAASEELSRRRQFLREQEAPFSAFLTDSFGRQHSY |
| Parental | LRISLTEKCNLRCQYCMPEEGVPLTPKANLLTTEEILTLARLFVKEGVDKIRLTGGEPLIRPDVVDIVAQ |
| LRISL.EKCNLRCQYCMPEEGVPLTPKANLLTT.EILTLA.LFVKEG..KI.LTGGEPLI.P.VVDIVAQ | |
| Retrocopy | LRISLPEKCNLRCQYCMPEEGVPLTPKANLLTTKEILTLAWLFVKEGIEKIQLTGGEPLIQPYVVDIVAQ |
| Parental | LQRLEGLRTIGVTTNGINLARLLPQLQKAGLSAINISLDTLVPAKFEFIVRRKGFHKVMEGIHKAIELGY |
| L.RLEGLRTIGVTTNGINLARLLPQLQKAGLSAINISLDTLVPAKFEFIVRRK.FHKVMEGIHKAIE.GY | |
| Retrocopy | LHRLEGLRTIGVTTNGINLARLLPQLQKAGLSAINISLDTLVPAKFEFIVRRKVFHKVMEGIHKAIEPGY |
| Parental | NPVKVNCVVMRGLNEDELLDFAALTEGLPLDVRFIEYMPFDGNKWNFKKMVS-YKEMLDT |
| NPVKVNCVVMRGLNEDELLDFAALT.GLPLDVRFIEYMPFDGNKWNF.KMV..YKEML.T | |
| Retrocopy | NPVKVNCVVMRGLNEDELLDFAALTKGLPLDVRFIEYMPFDGNKWNFRKMVA<YKEMLET |
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_prefrontal_cortex | 0 .00 RPM | 13 .44 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 14 .23 RPM |
| SRP007412_heart | 0 .00 RPM | 6 .95 RPM |
| SRP007412_kidney | 0 .03 RPM | 98 .28 RPM |
| SRP007412_liver | 0 .00 RPM | 37 .18 RPM |
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_1349 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_1349 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_pabe_1349 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Gorilla gorilla | ENSGGOG00000008943 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000016580 | 1 retrocopy |
retro_pabe_1349 ,
|