RetrogeneDB ID: | retro_ecab_1070 | ||
Retrocopylocation | Organism: | Horse (Equus caballus) | |
| Coordinates: | X:53507731..53508247(+) | ||
| Located in intron of: | None | ||
Retrocopyinformation | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental geneinformation | Parental gene summary: | ||
| Parental gene symbol: | IGFBP5 | ||
| Ensembl ID: | ENSECAG00000013425 | ||
| Aliases: | None | ||
| Description: | insulin-like growth factor binding protein 5 [Source:HGNC Symbol;Acc:5474] |
Retrocopy-Parental alignment summary:
>retro_ecab_1070
TGCTTCAATGAAAAGAGCCACCATGAGCAAGCCAAGATGGAGAGAGACTCCCATGAGCACGAGAAGCCAACCACCTCTGA
GATGGTGGAGACCTACTCCCCTAAGATCTTCTGGCCCAAGCACATCTGCACCTCTGAGCTGAAGGCCCAGGTAGTGAAGA
AGGTCCGCAGAAAGAAGTTGACCCAGTCCAAGTTTGTGGGGGAAGCTGAGAACACTGCCCACCCCCGAGTCATCAGTACG
CCTGACAGGAGACAGGAATCTGAGCAGGACCCCTGAGGCAGACACGTGGAGGCTTCCCTGCAGGAGCTCAATGCCAGCAC
ACGCATGGTGCCGGGAGCTGTGTACCCACCACACTGTGACCACAAAGGGTTCTACGAGAGAAAACAGTGCAAGCCTTCCC
ATGGCCACAAACGTGGCATCTGCTGGTTCATGGACAAGTACAGAATGAAGCTGCCAGGCATGGAGTATGTCGCCGGGGAT
TTTCAGTGCCACACCTTTGACAGCGGCAACATTGAG
TGCTTCAATGAAAAGAGCCACCATGAGCAAGCCAAGATGGAGAGAGACTCCCATGAGCACGAGAAGCCAACCACCTCTGA
GATGGTGGAGACCTACTCCCCTAAGATCTTCTGGCCCAAGCACATCTGCACCTCTGAGCTGAAGGCCCAGGTAGTGAAGA
AGGTCCGCAGAAAGAAGTTGACCCAGTCCAAGTTTGTGGGGGAAGCTGAGAACACTGCCCACCCCCGAGTCATCAGTACG
CCTGACAGGAGACAGGAATCTGAGCAGGACCCCTGAGGCAGACACGTGGAGGCTTCCCTGCAGGAGCTCAATGCCAGCAC
ACGCATGGTGCCGGGAGCTGTGTACCCACCACACTGTGACCACAAAGGGTTCTACGAGAGAAAACAGTGCAAGCCTTCCC
ATGGCCACAAACGTGGCATCTGCTGGTTCATGGACAAGTACAGAATGAAGCTGCCAGGCATGGAGTATGTCGCCGGGGAT
TTTCAGTGCCACACCTTTGACAGCGGCAACATTGAG
ORF - retro_ecab_1070 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 76.88 % |
| Parental protein coverage: | 63.84 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | CLNEKSYREQAKIDRDSREHEEPTTSEMAEETYSPKVFRPKHTRISELKAEAVKKDRRKKLTQSKFVGGA |
| C.NEKS..EQAK..RDS.EHE.PTTSEM.E.TYSPK.F.PKH...SELKA..VKK.RRKKLTQSKFVG.A | |
| Retrocopy | CFNEKSHHEQAKMERDSHEHEKPTTSEMVE-TYSPKIFWPKHICTSELKAQVVKKVRRKKLTQSKFVGEA |
| Parental | ENTAHPRVISAPEMRQESEQGPCRRHMEASLQELKASPRMVPRAVYLPNCDRKGFYKRKQCKPSRGRKRG |
| ENTAHPRVIS.P..RQESEQ.P..RH.EASLQEL.AS.RMVP.AVY.P.CD.KGFY.RKQCKPS.G.KRG | |
| Retrocopy | ENTAHPRVISTPDRRQESEQDP*GRHVEASLQELNASTRMVPGAVYPPHCDHKGFYERKQCKPSHGHKRG |
| Parental | ICWCVDKYGMKLPGMEYVDGDFQCHTFDSSNVE |
| ICW..DKY.MKLPGMEYV.GDFQCHTFDS.N.E | |
| Retrocopy | ICWFMDKYRMKLPGMEYVAGDFQCHTFDSGNIE |
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 | 596 .73 RPM |
| SRP021940_cerebellum | 0 .00 RPM | 30 .02 RPM |
| SRP021940_embryo | 0 .00 RPM | 368 .71 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 996 .62 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 164 .82 RPM |
| SRP021940_testis | 0 .00 RPM | 4 .60 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_1070 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_1070 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_1070 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000013425 | 1 retrocopy |
retro_ecab_1070 ,
|