RetrogeneDB ID: | retro_mdom_1050 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 3:379369172..379369844(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ACPP | ||
| Ensembl ID: | ENSMODG00000011756 | ||
| Aliases: | None | ||
| Description: | acid phosphatase, prostate [Source:HGNC Symbol;Acc:125] |
Retrocopy-Parental alignment summary:
>retro_mdom_1050
CTATTTCAACATGGAGACCGGAGTCCCATTGAAACCTTTCCGAAAAATCCCTATCAAGAATCTGCTTGGCCTCGGGGATT
TGGACAACTTAGTCTGCTTGGGATGGAGCCGCACTATGAGCTTGGAACATATTTAAGGAAAAGATATTCCAAATTCTTGA
ATTCCACTTACAATCAGAATGAGGTTTAGGTCCGAAGCACAGACGTTGACTGGACCCTGATGAGTGCCATGACCAATCTT
GTTGCCCTCTTTCCACCAGAAGGCCCAAGTATTTGGAACCCCCAAATCCTTTGGCAGCCGATTCCAGTTCATACAGTGCC
AACTTCTGAAGATCAGTTGCTGTACCTTCCTGATATAAAATGCCCTCGACTTCAAGAGCTTCAGGGAGAAACTTTGAGGT
CAAAGGAATATCAAAACTTGCTGTCTCCATACAAGGATTTTATAAGTACTTTACCAGCACTTTCAGGACTCGAAATCAAG
GACCTTAATGGAATTTGGAATAAAATCTATGAACCTTTATTTTGTGAGAGAGTTCACAATTTTACTCTACCCTCCTGGGC
CACTGCAGACACAATGGCAAAGCTGGAGGAGCTGTCCAAATTATCTCTCTTGTCAACCTTTGGAATTTATAAGCAGAAAG
AAAAGGCTCGACTTCAGGGAGGTGTTCTGGTG
ORF - retro_mdom_1050 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 95.58 % |
| Parental protein coverage: | 59.47 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | LFRHGDRSPIETFPKDPYQESAWPRGFGQLSLLGMEQHYELGTYLRKRYSKFLNSTYNRNEATVYVRSTD |
| LF.HGDRSPIETFPK.PYQESAWPRGFGQLSLLGME.HYELGTYLRKRYSKFLNSTYN.NE..V.VRSTD | |
| Retrocopy | LFQHGDRSPIETFPKNPYQESAWPRGFGQLSLLGMEPHYELGTYLRKRYSKFLNSTYNQNE--V*VRSTD |
| Parental | VDRTLMSAMTNLAALFPPEGPSIWNPQILWQPIPVHTVPTSEDQLLYLPDIKCPRLQELQGETLRSKEYQ |
| VD.TLMSAMTNL.ALFPPEGPSIWNPQILWQPIPVHTVPTSEDQLLYLPDIKCPRLQELQGETLRSKEYQ | |
| Retrocopy | VDWTLMSAMTNLVALFPPEGPSIWNPQILWQPIPVHTVPTSEDQLLYLPDIKCPRLQELQGETLRSKEYQ |
| Parental | NLLSPYKDFISTLPALSGLEIKDLNGIWNKIYDPLFCERVHNFTLPSWATADTMAKLEELSKLSLLSTFG |
| NLLSPYKDFISTLPALSGLEIKDLNGIWNKIY.PLFCERVHNFTLPSWATADTMAKLEELSKLSLLSTFG | |
| Retrocopy | NLLSPYKDFISTLPALSGLEIKDLNGIWNKIYEPLFCERVHNFTLPSWATADTMAKLEELSKLSLLSTFG |
| Parental | IYKQKEKARLQGGVLV |
| IYKQKEKARLQGGVLV | |
| Retrocopy | IYKQKEKARLQGGVLV |
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_1050 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1050 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 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Monodelphis domestica | ENSMODG00000011756 | 1 retrocopy |
retro_mdom_1050 ,
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