RetrogeneDB ID: | retro_ecab_179 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 1:104002470..104002992(-) | ||
| Located in intron of: | ENSECAG00000017976 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SPRYD7 | ||
| Ensembl ID: | ENSECAG00000011472 | ||
| Aliases: | None | ||
| Description: | SPRY domain containing 7 [Source:HGNC Symbol;Acc:14297] |
Retrocopy-Parental alignment summary:
>retro_ecab_179
AAGGAGATGCCGGCCATGCAGCTGGATACGCAGCACATGGGAGCAGATGTTGTCATTGTGAAAAATGGGAGAAGAATATG
TGGAACAGGAGGTTGTTTAGCCAGTGTGCCTTTACATCAAAACAAAAGCTACTTTGAATTCAAAATCCAGTCCACAGGAA
TCTGGGGTATTGGCGTTGCAACTCAGAAAGTTAACTTGAATCAGATTCCTCTTGGCCAAGATGTGCACAGTCTGGTGATG
AGAAATGATGGGGCCCTGTACCACAACAACGAGGAGAAAAATAGGCTGCCAGCAAACAGCCTTCCACAGGAGGGAGACCT
AGTGGGTATTACATATGACCAGGTAGAATTAAATGTGTATTTGAATGGAAAAAACATGCCTTGTCCAGCATCAGGCATAC
GAGGGACAATGTATCCAGTTGTTTATGTTGATGACAGTGCAATTTTGGATTGCCAGTTCAGTGAATTTTATCATATTCCT
CCGCCTGGTTTTGAAAAAATATCATTTGAACAGCAAATCTTC
ORF - retro_ecab_179 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 91.95 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | REMPAVQLDTQHIGTDVVIVKNGRRICGTGGCLASAPLHQNKSYFEFKIQSTGIWGVGVATQKVNLNQIP |
| .EMPA.QLDTQH.G.DVVIVKNGRRICGTGGCLAS.PLHQNKSYFEFKIQSTGIWG.GVATQKVNLNQIP | |
| Retrocopy | KEMPAMQLDTQHMGADVVIVKNGRRICGTGGCLASVPLHQNKSYFEFKIQSTGIWGIGVATQKVNLNQIP |
| Parental | LGRDVHSLVMRNDGALYHNNEEKNRLPANSLPQEGDVVGITYDHVELNVYLNGKNMHCPASGVRGTVYPV |
| LG.DVHSLVMRNDGALYHNNEEKNRLPANSLPQEGD.VGITYD.VELNVYLNGKNM.CPASG.RGT.YPV | |
| Retrocopy | LGQDVHSLVMRNDGALYHNNEEKNRLPANSLPQEGDLVGITYDQVELNVYLNGKNMPCPASGIRGTMYPV |
| Parental | VYVDDSAILDCQFSEFYHTPPPGFEKILFEQQIF |
| VYVDDSAILDCQFSEFYH.PPPGFEKI.FEQQIF | |
| Retrocopy | VYVDDSAILDCQFSEFYHIPPPGFEKISFEQQIF |
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 |
|---|---|---|
| SRP021940_articular_cartilage | 0 .12 RPM | 2 .30 RPM |
| SRP021940_cerebellum | 0 .62 RPM | 9 .76 RPM |
| SRP021940_embryo | 0 .20 RPM | 4 .04 RPM |
| SRP021940_placental_villous | 1 .11 RPM | 6 .59 RPM |
| SRP021940_synovial_membrane | 0 .30 RPM | 2 .55 RPM |
| SRP021940_testis | 0 .58 RPM | 7 .03 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_179 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_179 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_179 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 2 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000011472 | 1 retrocopy |
retro_ecab_179 ,
|
| Monodelphis domestica | ENSMODG00000010799 | 2 retrocopies |