RetrogeneDB ID: | retro_cjac_675 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 10:40810522..40810846(+) | ||
| Located in intron of: | ENSCJAG00000021006 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | EMC8 | ||
| Ensembl ID: | ENSCJAG00000017312 | ||
| Aliases: | None | ||
| Description: | ER membrane protein complex subunit 8 [Source:HGNC Symbol;Acc:7864] |
Retrocopy-Parental alignment summary:
>retro_cjac_675
AGTCCAAACCAGGTTGCAGAGAAGGTATCTTCCGGAATCGCTGAGGGCTTCAGTGATACTGCACTCATCATGGTAGACAA
CACCAAGTTCACGATGTACTGCATAGTGCCTACAATCCACATGTACGAGCACCATGAGAACAGACGGCAGTGCAGAGACC
CACACCATGACTAGTGTGAAGACGGGCCAGAGGCGCAGAGGATCTCTGTATCACTCCTGGACAGCTGGTACTACCAGATG
CTTGTAGATCTCAATAACCAGCTGGATAACATTCAGAATGACTGGACAAACCCAGAGATCAATAAAGCTGTTCTGCACCT
GTGC
ORF - retro_cjac_675 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 81.48 % |
| Parental protein coverage: | 51.43 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | SPNQVAEKVASRIAEGFSDTALIMVDNTKFTMDCVAPTIHVYEHHENRWRCRDPHHDYCEDWPEAQRISA |
| SPNQVAEKV.S.IAEGFSDTALIMVDNTKFTM.C..PTIH.YEHHENR..CRDPHHD.CED.PEAQRIS. | |
| Retrocopy | SPNQVAEKVSSGIAEGFSDTALIMVDNTKFTMYCIVPTIHMYEHHENRRQCRDPHHD*CEDGPEAQRISV |
| Parental | SLLDSRSYETLVDFDNHLDDIRNDWTNPEINKAVLHLC |
| SLLDS..Y..LVD..N.LD.I.NDWTNPEINKAVLHLC | |
| Retrocopy | SLLDSWYYQMLVDLNNQLDNIQNDWTNPEINKAVLHLC |
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 .02 RPM | 4 .28 RPM |
| SRP051959_heart | 0 .02 RPM | 4 .81 RPM |
| SRP051959_kidney | 0 .04 RPM | 4 .86 RPM |
| SRP051959_liver | 0 .06 RPM | 7 .43 RPM |
| SRP051959_lung | 0 .03 RPM | 5 .37 RPM |
| SRP051959_lymph_node | 0 .02 RPM | 5 .96 RPM |
| SRP051959_skeletal_muscle | 0 .07 RPM | 8 .08 RPM |
| SRP051959_spleen | 0 .08 RPM | 3 .74 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_675 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_675 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_675 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 6 parental genes, and 10 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Canis familiaris | ENSCAFG00000019922 | 1 retrocopy | |
| Callithrix jacchus | ENSCJAG00000017312 | 1 retrocopy |
retro_cjac_675 ,
|
| Erinaceus europaeus | ENSEEUG00000011856 | 1 retrocopy | |
| Macropus eugenii | ENSMEUG00000009360 | 5 retrocopies | |
| Monodelphis domestica | ENSMODG00000004596 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000010372 | 1 retrocopy |