RetrogeneDB ID: | retro_ecab_217 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 10:45643605..45644196(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | AHSA2 | ||
| Ensembl ID: | ENSECAG00000005107 | ||
| Aliases: | None | ||
| Description: | AHA1, activator of heat shock 90kDa protein ATPase homolog 2 (yeast) [Source:HGNC Symbol;Acc:20437] |
Retrocopy-Parental alignment summary:
>retro_ecab_217
GCCAAGTGGGGCCAAGGGGACCTGCACTGGATCATGGAGTAGGAGAGCAGGTGTAACATGAATAACTGGCACTGGACAAA
GCAGATGTCACCAGCTGGTCCAAGGGGAAGCTCTGTGAGCTCCTGATGGGCATCATTGTGGAGAGCAAGGCTGGCCACTG
AGAGATCAGTGAGCTGAAGCAGGAGGAAGCTTCCTGCAGTAGCCACAAAGGAAAGCCAATTTTCTTCTACAAGTGGAACA
TCAAACTAAGCTGGAAAAGTACAACTAAAGAATCTGGTGCAAAGCACAAGGGATTGATTGAAACACCCAACTTTTCTGAA
GAAAATGAAGTAGATGACACTGAGGTGAATATTAGCAAAAAGAAAGGAGATAGGGATATACTGAAGGATCTTCCGTAAAC
TACAGGCACTGCCAAAGTCAGGGAGGCCCTTGTAAATTACTAAAGGCACTTAAGACAGAATTTATGATGGGAATGATTTT
AGGGACAAAGCTATGGCAACCCAGGAATTGACTGTTAAAAGGAAACTGAGTGAGAACACCATGGCCTCATCTCCAGCAGC
CTTGTGTGTAAGGGTTCCTACTGTGGCACTG
ORF - retro_ecab_217 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 72.68 % |
| Parental protein coverage: | 60.84 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | AKWGQGDPRWIVEEREDGTNVNNWHWTER-DATSWSKGKLHELLVGIIVENEAGRCEISELKQVEGEASC |
| AKWGQGD..WI.E..E...N.NNWHWT...D.TSWSKGKL.ELL.GIIVE..AG..EISELKQ.E..ASC | |
| Retrocopy | AKWGQGDLHWIME*-ESRCNMNNWHWTKQ<DVTSWSKGKLCELLMGIIVESKAGH*EISELKQEE--ASC |
| Parental | SSRKGKLIFFYEWNIKLSWKGIIKESGVKHKGLVEIPSLSEENEIDDTEVSVSKKKGDGDILKDLMKTAG |
| SS.KGK.IFFY.WNIKLSWK...KESG.KHKGL.E.P..SEENE.DDTEV..SKKKGD.DILKDL..T.G | |
| Retrocopy | SSHKGKPIFFYKWNIKLSWKSTTKESGAKHKGLIETPNFSEENEVDDTEVNISKKKGDRDILKDLP*TTG |
| Parental | TARVKEALGDY-LKALKTEFTMGMILPT-KAMATQELTVKRKLSVNPLQASSPVALGVRIPTVAV |
| TA.V.EAL..Y.LKALKTEF.MGMIL.T.KAMATQELTVKRKLS.N...ASSP.AL.VR.PTVA. | |
| Retrocopy | TAKVREALVNY<LKALKTEFMMGMILGT<KAMATQELTVKRKLSENTM-ASSPAALCVRVPTVAL |
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 .00 RPM | 1 .71 RPM |
| SRP021940_cerebellum | 0 .00 RPM | 2 .54 RPM |
| SRP021940_embryo | 0 .00 RPM | 7 .47 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 9 .09 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 4 .91 RPM |
| SRP021940_testis | 0 .00 RPM | 13 .11 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_217 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_217 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_217 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 6 parental genes, and 6 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Callithrix jacchus | ENSCJAG00000034768 | 1 retrocopy | |
| Equus caballus | ENSECAG00000005107 | 1 retrocopy |
retro_ecab_217 ,
|
| Gorilla gorilla | ENSGGOG00000014565 | 1 retrocopy | |
| Pongo abelii | ENSPPYG00000012385 | 1 retrocopy | |
| Pan troglodytes | ENSPTRG00000023268 | 1 retrocopy | |
| Tursiops truncatus | ENSTTRG00000013366 | 1 retrocopy |