RetrogeneDB ID: | retro_cjac_1240 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 14:2446953..2447359(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | IMMP1L | ||
| Ensembl ID: | ENSCJAG00000006042 | ||
| Aliases: | None | ||
| Description: | IMP1 inner mitochondrial membrane peptidase-like (S. cerevisiae) [Source:HGNC Symbol;Acc:26317] |
Retrocopy-Parental alignment summary:
>retro_cjac_1240
ATGCTTCTTGATGTTCTAGGGAAAACATTTCAACTCGTTGGCTATACTATTCAGCATGGCCTGTATAGCTCATTGTGCTT
TTGAATACGTTGGTGGGGTTGTCATGTGTTCTGGACCATCAATGGAGCCTACAATTCAAAATTCAAATATTGACTTTGCA
GAAAACCTTAGTCGACATTGTTATGGTATCCAAAGAGGTGACACGGTGATTGCAAAAAGCCCAAGTGATCCAAAATCAAA
TATCTGTAAAAGAGTAATCGGTTTGGAAGGAGACAAAATCCTCACTACTGGACCATCAAATTTATTTAAAAGCCATAGTT
ATGTGCCAGTGGATCATGTTTGGTTAGCAGGTGATAATCTACAGAATTCTACAAATTCCAGGTACTGTGGACCTATTCTG
TATGGA
ORF - retro_cjac_1240 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 87.5 % |
| Parental protein coverage: | 81.33 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | MLRGVLGKTFRLVGYTIQYG-CIAHCAFEYVGGVVMCSGPSMEPTIQNSDIVFAENLSRHFYGIQRGDIV |
| ML..VLGKTF.LVGYTIQ.G.CIAHCAFEYVGGVVMCSGPSMEPTIQNS.I.FAENLSRH.YGIQRGD.V | |
| Retrocopy | MLLDVLGKTFQLVGYTIQHG>CIAHCAFEYVGGVVMCSGPSMEPTIQNSNIDFAENLSRHCYGIQRGDTV |
| Parental | IAKSPSDPKSNICKRVIGLEGDKILTTSPSNFFKSHSYVPTGHVWLEGDNLQNSTDSRYYGPIPYG |
| IAKSPSDPKSNICKRVIGLEGDKILTT.PSN.FKSHSYVP..HVWL.GDNLQNST.SRY.GPI.YG | |
| Retrocopy | IAKSPSDPKSNICKRVIGLEGDKILTTGPSNLFKSHSYVPVDHVWLAGDNLQNSTNSRYCGPILYG |
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 .50 RPM |
| SRP051959_heart | 0 .00 RPM | 6 .31 RPM |
| SRP051959_kidney | 0 .00 RPM | 7 .30 RPM |
| SRP051959_liver | 0 .00 RPM | 5 .78 RPM |
| SRP051959_lung | 0 .00 RPM | 6 .60 RPM |
| SRP051959_lymph_node | 0 .00 RPM | 8 .61 RPM |
| SRP051959_skeletal_muscle | 0 .00 RPM | 6 .73 RPM |
| SRP051959_spleen | 0 .00 RPM | 7 .63 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_1240 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_1240 was not experimentally validated.