RetrogeneDB ID: | retro_cjac_877 | ||
Retrocopy location | Organism: | Marmoset (Callithrix jacchus) | |
| Coordinates: | 11:111791837..111792773(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSCJAG00000009209 | |
| Aliases: | None | ||
| Status: | KNOWN_PSEUDOGENE | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | OR4A5 | ||
| Ensembl ID: | ENSCJAG00000009212 | ||
| Aliases: | None | ||
| Description: | olfactory receptor, family 4, subfamily A, member 5 [Source:HGNC Symbol;Acc:15162] |
Retrocopy-Parental alignment summary:
>retro_cjac_877
ATGAGACAGAGTAACAATGTTACAGAATTTGTCCTCCTGGGGCTCACTCAGGATCCTGATGTGCAAAAAGCATTATTTGC
CATGCTTTTACTCATATACATTGTGACAATGGTGGGAAATCTCCTCATTGTGGTGACTACTCTAGGCAGCCCCTCCTTGG
GCTCCCCAATGTACTTCTTCCTTGCCTACTTGTCACTTCTGGATGCCATATATTCCACTGCCATGTCACCCAAATTGATG
ATGGACTTACTCTGTGATAAAAACAGCATTTCCTTCTCAGCTTGCATGGGTCAGCTCTTCATAGAACACTTACTTGGTGG
TGCAGAGGTCTTCCTTCTGGTACTGATGGCCTTTGATCGCTATGTGGCCATCACTAAGCCACTGCAGTATTTGAATATCA
TGAATCGACAGGTTTGCATCTTTCTCTTGGTGGTGGCCGTGGTTGGAGGTTTTGTGCACTCTGTGGTTCAAATTGTTATT
GTGTACAGTCTACCATTCTGTGGCCCCAATGTCATTGACCATTTCATCTGTGACATGTACCCATTATTGGAACTGGCGTG
CACTGACACCTACTTTATAGGCCTCACTGTGGTTGCCAATGGTGGAACAATCTGTATGGTTGTCTTTACCTTTCTGCTAA
TCTCCTACGGAGTCATCCTAAACTCCCTTAAAACTTACAGTCAGGAAGGGAGGCGTAAAGCCCTGTCTACCTGCAGCTCC
CACATCACCGTGGTGGTCTTGTTTTTTGTTCCCTGTATTTTCATGTACGTTAGACCAGTTTCCAACTTTCCCTTTGATAA
ATTCGTGACTGTGTTTTATACAATTATCACACCCATGTTGAATCCTTTAATGTACACATTGAGAAATTCAGAGATGAAAA
ATGCTATGAAAAAACTCTTGTGTAAAAAGTTAAATATAGTTAGAATGAGTTTCTCC
ORF - retro_cjac_877 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 79.17 % |
| Parental protein coverage: | 99.05 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MRQKNNITEFVLLGFSQDPDVQKALFVMFLLTYFMTMVGNLLIVVTITASPSLGSPMYFFLACLSFIDAA |
| MRQ.NN.TEFVLLG..QDPDVQKALF.M.LL.Y..TMVGNLLIVVT...SPSLGSPMYFFLA.LS..DA. | |
| Retrocopy | MRQSNNVTEFVLLGLTQDPDVQKALFAMLLLIYIVTMVGNLLIVVTTLGSPSLGSPMYFFLAYLSLLDAI |
| Parental | YSTIISPKLTVDLLCDKKTISLPACMGQLFIDHLFGGAEIFLLVVMACDRYMAICKPLHYLTIMNRQVCI |
| YST..SPKL..DLLCDK..IS..ACMGQLFI.HL.GGAE.FLLV.MA.DRY.AI.KPL.YL.IMNRQVCI | |
| Retrocopy | YSTAMSPKLMMDLLCDKNSISFSACMGQLFIEHLLGGAEVFLLVLMAFDRYVAITKPLQYLNIMNRQVCI |
| Parental | LMLVLAMIGGLVHSVFQIVVVYSLPFCGPNVIDHFYCDMYPLLELTCTDTYFIGLTVVFNGGAICMIIFT |
| ..LV.A..GG.VHSV.QIV.VYSLPFCGPNVIDHF.CDMYPLLEL.CTDTYFIGLTVV.NGG.ICM..FT | |
| Retrocopy | FLLVVAVVGGFVHSVVQIVIVYSLPFCGPNVIDHFICDMYPLLELACTDTYFIGLTVVANGGTICMVVFT |
| Parental | LLLISYGVILNSLKTYSHEGRRKALSTCSSHIAVVVLFFVPCIFIYVRPVSNFPVDKFITVFYTVISPMM |
| .LLISYGVILNSLKTYS.EGRRKALSTCSSHI.VVVLFFVPCIF.YVRPVSNFP.DKF.TVFYT.I.PM. | |
| Retrocopy | FLLISYGVILNSLKTYSQEGRRKALSTCSSHITVVVLFFVPCIFMYVRPVSNFPFDKFVTVFYTIITPML |
| Parental | NPFIYTLRNSEMRNAIEKLLCKKLTIVRIRVS |
| NP..YTLRNSEM.NA..KLLCKKL.IVR...S | |
| Retrocopy | NPLMYTLRNSEMKNAMKKLLCKKLNIVRMSFS |
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 | 0 .00 RPM |
| SRP051959_heart | 0 .00 RPM | 0 .00 RPM |
| SRP051959_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP051959_liver | 0 .00 RPM | 0 .00 RPM |
| SRP051959_lung | 0 .00 RPM | 0 .00 RPM |
| SRP051959_lymph_node | 0 .00 RPM | 0 .00 RPM |
| SRP051959_skeletal_muscle | 0 .00 RPM | 0 .00 RPM |
| SRP051959_spleen | 0 .00 RPM | 0 .00 RPM |
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_877 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_877 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_cjac_877 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000009212 | 1 retrocopy |
retro_cjac_877 ,
|
| Rattus norvegicus | ENSRNOG00000046433 | 1 retrocopy |