RetrogeneDB ID: | retro_cjac_1941 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 2:93970417..93970924(-) | ||
| Located in intron of: | ENSCJAG00000016536 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NAA50 | ||
| Ensembl ID: | ENSCJAG00000020261 | ||
| Aliases: | None | ||
| Description: | N(alpha)-acetyltransferase 50, NatE catalytic subunit [Source:HGNC Symbol;Acc:29533] |
Retrocopy-Parental alignment summary:
>retro_cjac_1941
ATGAAAGGTAGCCGGATCGAGCTGGGAGATGTGACACCACACAATATTAAATAGTTGAAAAGATTGAATCGGGCCGTCTT
TCCAGTCAGCTACAATGACAAGTTCTACAAGGATGTGCTGGAGGTTGGCGAGCTAGCAAAACTTGCCTGTTTCAATGATA
TTGCTGTAGGTCTGGTATGCTGTAGGTTGGATCATTTACAGAACCAGAAGAGACTTTACATCATGACACTAGGATGTCTG
GCACCTTACTGAAGGCTAGGAATAGGAACTAAAATGTTAAATCATGTCTTAAACATCTGTGAAAAAGATGGTACTTTTGA
CAACGTCTATCTGCATGCCCAGATCAGCAATGAGTTGGCAATTGAGTTCTACAGGAAGTTTGGCTTTGAGATTATCGAGA
CAAAAAAGAACTACTATAAGAGGATAGAGCCCACAGATGCTCATGTGCTGCAGAAAAACCTCAAAGTTCCTTCTGGTCAG
AATGCAGATGTACAAAAGACATACAAC
ORF - retro_cjac_1941 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 89.35 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 2 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MKGSRIELGDVTPHNIKQLKRLNQVIFPVSYNDKFYKDVLEVGELAKLAYFNDIAVGAVCCRVDHSQNQK |
| MKGSRIELGDVTPHNIK.LKRLN...FPVSYNDKFYKDVLEVGELAKLA.FNDIAVG.VCCR.DH.QNQK | |
| Retrocopy | MKGSRIELGDVTPHNIK*LKRLNRAVFPVSYNDKFYKDVLEVGELAKLACFNDIAVGLVCCRLDHLQNQK |
| Parental | RLYIMTLGCLAPYRRLGIGTKMLNHVLNICEKDGTFDNIYLHVQISNESAIDFYRRFGFEIIETKKNYYK |
| RLYIMTLGCLAPY.RLGIGTKMLNHVLNICEKDGTFDN.YLH.QISNE.AI.FYR.FGFEIIETKKNYYK | |
| Retrocopy | RLYIMTLGCLAPY*RLGIGTKMLNHVLNICEKDGTFDNVYLHAQISNELAIEFYRKFGFEIIETKKNYYK |
| Parental | RIEPADAHVLQKNLRVPSAQNADVQKTDN |
| RIEP.DAHVLQKNL.VPS.QNADVQKT.N | |
| Retrocopy | RIEPTDAHVLQKNLKVPSGQNADVQKTYN |
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 .62 RPM | 38 .16 RPM |
| SRP051959_heart | 0 .44 RPM | 42 .11 RPM |
| SRP051959_kidney | 0 .91 RPM | 38 .14 RPM |
| SRP051959_liver | 0 .32 RPM | 34 .90 RPM |
| SRP051959_lung | 0 .96 RPM | 34 .75 RPM |
| SRP051959_lymph_node | 0 .75 RPM | 38 .90 RPM |
| SRP051959_skeletal_muscle | 0 .09 RPM | 82 .66 RPM |
| SRP051959_spleen | 0 .80 RPM | 36 .43 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_1941 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_1941 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_1941 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 4 parental genes, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000020261 | 2 retrocopies |
retro_cjac_1941 , retro_cjac_2823,
|
| Otolemur garnettii | ENSOGAG00000011197 | 1 retrocopy | |
| Procavia capensis | ENSPCAG00000009780 | 2 retrocopies | |
| Ictidomys tridecemlineatus | ENSSTOG00000009438 | 1 retrocopy |