RetrogeneDB ID: | retro_cjac_2116 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 22:38228558..38229848(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCJAG00000022850 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | INPP5K | ||
| Ensembl ID: | ENSCJAG00000002060 | ||
| Aliases: | None | ||
| Description: | inositol polyphosphate-5-phosphatase K [Source:HGNC Symbol;Acc:33882] |
Retrocopy-Parental alignment summary:
>retro_cjac_2116
ATGAGCTCTCGGAAGCCGAGCGGGCCGAAAGGCAGGAGGCTGGGCATCCACGTTGTGACTTGGAATGTGGCCTCAGCAGC
ACCCCCTCTAGATCTCAGTGACCTGCTTCAGCTGAACAACCAGAATGCAAATCTTGACATATATATCATTGGTTTGCAGG
AATTGAACTCTGGAATCATAAGCCTCCTTTCCGATGCTGCCTTTAATGACTCATGGAGCAGTTTCCTCATGGATACGCTT
TCCCCTCTGAGCTTCATCAAGGTCTCCCACGTGCGTATACAAGGGATCCTCTTACTGGTCTTTGCCAAGTATCAGCATTT
GCCCTATCTCCAGATTCTCTCTACTAAATCCACCCCCACCGGCCTGTTTGGGTACTGGGGGAACAAAGGAGGAGTCAACA
TCTGCCTGAAGCTGTATGGCTACTACATCAGCATCATCAACTGCCACCTGCCTCCCCACATTTCCAACAATTACCAGCGG
CTGGAGCACTTTGACCAGATCCTGGAGATGCAGAATTTTGGGGGACAAGATATTCCCAACATCCTGGATCATGACCTCAT
TATCTGGTTTGGAGACATGAACTTTCGCATCGAGGACTTTGGGTTGCACTTTGTCCGGGAATCCATTAAAAATCGGTGCT
ACAGTGACCTGTGGGAGAAGGATCAGCTCAGCATTGCCAAGAAACATGACCCGCTGCTCCGGGAGTTCCAGGAGGGCCGC
CTGCTCTTCCCACCCACCTACAAGTTTGATAGGAACTCCAGCAACTACGACACCAGTGAGAAGAAACGAAAGCCCGCATG
GACAGACCGCATCCTGTGGAGGTTGAAGCGGCAGCCCCAGGCCGGCCCCCACACCACTGGACTGCCAGCCCCAGACTTCT
CCCTGTCTCAGAGGAGCTATGGCAGCTACATGACGTACACCATCAGTGACCATAAGCCTGTTGCAGGCACTTTCGACTTG
GAGCTGAAGCCGTTGCTGTCTGCTCCACTGATCGTTCTGATGCCAGAGGACCTGTGGACCCTGGAGAACAACCTGATGGT
CAGCTACTCCTCAACCTCAGACTTCCCCAGGAGCCCGTGGGACTGGATCGGACTGTACAAGGTGGGGCTGCGTGACATTC
ATGACTACGTGTCCTACATCTGGGTTGGGGACAACCAGGTCTCCTTCAGCAACAACCTGAACCAGGTTTACATTGACATC
AGCAACATCCCTGCAACAGAAGAAAAGTTTCTCGTCTGTTACTACAGCAACAACCTGCGTTCTGTAGCGGGGATAAGCAG
ACCCTTCCAG
ORF - retro_cjac_2116 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 98.84 % |
| Parental protein coverage: | 95.98 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MSSRKPSGPKGRRLSIHVVTWNVASAAPPLDLSDLLQLNNQNANLDIYIIGLQELNSGIISLLSDAAFND |
| MSSRKPSGPKGRRL.IHVVTWNVASAAPPLDLSDLLQLNNQNANLDIYIIGLQELNSGIISLLSDAAFND | |
| Retrocopy | MSSRKPSGPKGRRLGIHVVTWNVASAAPPLDLSDLLQLNNQNANLDIYIIGLQELNSGIISLLSDAAFND |
| Parental | SWSSFLMDTLSPLSFIKVSHVRMQGILLLVFAKYQHLPYLQILSTKSTPTGLFGYWGNKGGVNICLKLYG |
| SWSSFLMDTLSPLSFIKVSHVR.QGILLLVFAKYQHLPYLQILSTKSTPTGLFGYWGNKGGVNICLKLYG | |
| Retrocopy | SWSSFLMDTLSPLSFIKVSHVRIQGILLLVFAKYQHLPYLQILSTKSTPTGLFGYWGNKGGVNICLKLYG |
| Parental | YYISIINCHLPPHISNNYQRLEHFDRILEMQNFGGQDIPNILDHDLIIWFGDMNFRIEDFGLHFVRESIK |
| YYISIINCHLPPHISNNYQRLEHFD.ILEMQNFGGQDIPNILDHDLIIWFGDMNFRIEDFGLHFVRESIK | |
| Retrocopy | YYISIINCHLPPHISNNYQRLEHFDQILEMQNFGGQDIPNILDHDLIIWFGDMNFRIEDFGLHFVRESIK |
| Parental | NRCYSDLWEKDQLSIAKKHDPLLREFQEGRLLFPPTYKFDRNSSNYDTSEKKRKPAWTDRILWRLKRQPQ |
| NRCYSDLWEKDQLSIAKKHDPLLREFQEGRLLFPPTYKFDRNSSNYDTSEKKRKPAWTDRILWRLKRQPQ | |
| Retrocopy | NRCYSDLWEKDQLSIAKKHDPLLREFQEGRLLFPPTYKFDRNSSNYDTSEKKRKPAWTDRILWRLKRQPQ |
| Parental | AGPHTTGLPAPDFSLSQRSYGSYMTYTISDHKPVAGTFDLELKPLLSAPLIVLMPEDLWTLENNLMVSYS |
| AGPHTTGLPAPDFSLSQRSYGSYMTYTISDHKPVAGTFDLELKPLLSAPLIVLMPEDLWTLENNLMVSYS | |
| Retrocopy | AGPHTTGLPAPDFSLSQRSYGSYMTYTISDHKPVAGTFDLELKPLLSAPLIVLMPEDLWTLENNLMVSYS |
| Parental | STSDFPRSPWDWIGLYKVGLRDIHDYVSYIWVGDNQVSFSNNLNQVYIDISNIPATEEEFLLCYYSNNLR |
| STSDFPRSPWDWIGLYKVGLRDIHDYVSYIWVGDNQVSFSNNLNQVYIDISNIPATEE.FL.CYYSNNLR | |
| Retrocopy | STSDFPRSPWDWIGLYKVGLRDIHDYVSYIWVGDNQVSFSNNLNQVYIDISNIPATEEKFLVCYYSNNLR |
| Parental | SVAGISRPFQ |
| SVAGISRPFQ | |
| Retrocopy | SVAGISRPFQ |
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 |
|---|---|---|
| SRP051959_colon | 0 .38 RPM | 10 .25 RPM |
| SRP051959_heart | 0 .49 RPM | 19 .38 RPM |
| SRP051959_kidney | 0 .55 RPM | 17 .31 RPM |
| SRP051959_liver | 0 .30 RPM | 8 .56 RPM |
| SRP051959_lung | 0 .47 RPM | 15 .63 RPM |
| SRP051959_lymph_node | 0 .37 RPM | 16 .73 RPM |
| SRP051959_skeletal_muscle | 0 .98 RPM | 19 .44 RPM |
| SRP051959_spleen | 0 .32 RPM | 14 .60 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_2116 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_2116 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_2116 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000002060 | 1 retrocopy |
retro_cjac_2116 ,
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