RetrogeneDB ID: | retro_cjac_132 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 3:115219081..115219771(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCJAG00000023110 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ARD1A | ||
| Ensembl ID: | ENSCJAG00000014506 | ||
| Aliases: | ARD1A, NAA10 | ||
| Description: | None |
Retrocopy-Parental alignment summary:
>retro_cjac_132
ATGAACATCCGCAACGCTCGGCCGGACGACCTGATAAACATGCAGCACTGCAACCTCCTTTGCCTTCCTGAGAACTACCA
GATGAAATACTATTTATATCATGGCCTTTCCTGGCCCCAGCTTTCTTACATCGCTGAGGATGAGGACGGGAAGATTGTGG
GCTATGTCCTGGCCAAAATGGAGGAGGACCCAGATGATGTCCCGCATGGCCATATCACCTCACTGGCCGTGAAGCGTTCA
CACCGGCGCCTCGGCCTGGCCCAGAAGCTGATTGACCAGGCCTCCAGGGCCATGATAGAGAATTTTAACGCCAAATACGT
GTCTCTGCATGTCAGGAAGAGTAACCGGGCAGCCTTGCACCTCTATTCTAACACCCTTAACTTTCAGGTTAGTGAGGTGG
AACCTAAATACTATGCAGATGGGGAAGATGCTTATGCTATGAAGCGGGATCTCTCGCAGATGGCAGATGAGCTGAGACGA
CAAGTGGAGCTGAAGAAGGGCGAGTATGTGGACCTAGGCTCCAGGGAGAACCAGGAGACCCAGGGCTGCACACTTTCTGG
TTCTGAAGAGGCCTGTCAGCAGAAGAACCCAGCTACCGAAGATAGTGGCAGTGACTGCAAAGAACCTAACGAGTCTGTGG
AGAGCACCGAAGTCCAGGACAGCTCAGAAAACTCAGATTCTACCTCCTAG
ORF - retro_cjac_132 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.85 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MNIRNARPEDLMNMQHCNLLCLPENYQMKYYFYHGLSWPQLSYIAEDENGKIVGYVLAKMEEDPDDVPHG |
| MNIRNARP.DL.NMQHCNLLCLPENYQMKYY.YHGLSWPQLSYIAEDE.GKIVGYVLAKMEEDPDDVPHG | |
| Retrocopy | MNIRNARPDDLINMQHCNLLCLPENYQMKYYLYHGLSWPQLSYIAEDEDGKIVGYVLAKMEEDPDDVPHG |
| Parental | HITSLAVKRSHRRLGLAQKLMDQASRAMIENFNAKYVSLHVRKSNRAALHLYSNTLNFQISEVEPKYYAD |
| HITSLAVKRSHRRLGLAQKL.DQASRAMIENFNAKYVSLHVRKSNRAALHLYSNTLNFQ.SEVEPKYYAD | |
| Retrocopy | HITSLAVKRSHRRLGLAQKLIDQASRAMIENFNAKYVSLHVRKSNRAALHLYSNTLNFQVSEVEPKYYAD |
| Parental | GEDAYAMKRDLTQMADELRRHLELKEKGRHMVLGAMENKVESKGSSPPNSGEACREEKGLAAEDSGGDSK |
| GEDAYAMKRDL.QMADELRR..ELK.KG....LG..EN..E..G.....S.EAC...K..A.EDSG.D.K | |
| Retrocopy | GEDAYAMKRDLSQMADELRRQVELK-KGEYVDLGSRENQ-ETQGCTLSGSEEAC-QQKNPATEDSGSDCK |
| Parental | DLSEVSETTESTDVKDSSEASDSAS |
| ...E..E..EST.V.DSSE.SDS.S | |
| Retrocopy | ---EPNESVESTEVQDSSENSDSTS |
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 .00 RPM | 5 .32 RPM |
| SRP051959_heart | 0 .00 RPM | 6 .49 RPM |
| SRP051959_kidney | 0 .00 RPM | 11 .27 RPM |
| SRP051959_liver | 0 .00 RPM | 12 .91 RPM |
| SRP051959_lung | 0 .00 RPM | 9 .45 RPM |
| SRP051959_lymph_node | 0 .00 RPM | 13 .20 RPM |
| SRP051959_skeletal_muscle | 0 .00 RPM | 8 .04 RPM |
| SRP051959_spleen | 0 .00 RPM | 9 .56 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_132 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_132 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_132 has 2 orthologous retrocopies within eutheria group .| Species | RetrogeneDB ID |
|---|---|
| Bos taurus | retro_btau_177 |
| Macaca mulatta | retro_mmul_21 |