RetrogeneDB ID: | retro_ecab_438 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 18:76263489..76264320(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | IMPA1 | ||
| Ensembl ID: | ENSECAG00000023030 | ||
| Aliases: | None | ||
| Description: | inositol(myo)-1(or 4)-monophosphatase 1 [Source:HGNC Symbol;Acc:6050] |
Retrocopy-Parental alignment summary:
>retro_ecab_438
ATGGCTGGTCCTTGGCAGGAATGCATGGATTATGCAGTAACACTAGCAAGACAAGCTGGAGAGGTGGTTCGTGACGCCCT
GAAAAATGAAATGAATGTTATGATTAAAAGTTCTCCAACTGATTTGGTAACTGCTACTGACCAAAAAGTTGAAAAAATGC
CTATCTCTTCTATAAAGGAAAAATACCCTTCTCACAGTTTCATTGGTGAGGAATCTGTGGCAGCTGGGGAAAAAAGTGTC
TTAACCGACAACCCTACATGGATCATTGACCCTATCTATGGGACAACCAGCTTTGTACATAGATTTCCTTTTGTAGCTGT
TTTGATTGACTTTGTTGTAAATAAAAAGATGGAATTTGGGGTTGTGTACAGTTGTGTGGAATATAAGATGTACACCGGCA
GGAAGGGAAAAGGTGCCTTCTGTAACAGTCAAAAACTGCAGGTTTCACAACAAGAAGATATTACCAAATCACGCTTGGTG
ACAGAGTTGGGGCCTTCAGGAACACCGGAGACTGTAAGTATTATTCTTTCTAATATGGAAAAGCTTCTTTGCATTCCCAT
TCATGGGATCTGAGGGGTTGGGACAGCAGCTGTTAATATGTGCCTTGTGGCAGCTGGAGCTGTGGATGCGTATTATGAAA
TGGGAGTTCACTGCTGGGACATGGCAGGAGCTGGCATCATTGTTACCGAAGCTGGTGGAGTACTCATGGATGTAATCGGT
GGTCCATTTGGTTTGATGTCACGAAGAATAATTGCTGCAAGTAGTGAAAGTTTAGCAGAAAGGCTAGCCAAAGAAATTCA
GATATTATCTTTTCAAAGAGACGATGAAGAT
ORF - retro_ecab_438 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 90.25 % |
| Parental protein coverage: | 100.0 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | MADPWQECMDYAVTLARRAGEVVRDALKNEMNVMIKSSPADLVTATDQKVEKMLISSIKEKYPSHSFIGE |
| MA.PWQECMDYAVTLAR.AGEVVRDALKNEMNVMIKSSP.DLVTATDQKVEKM.ISSIKEKYPSHSFIGE | |
| Retrocopy | MAGPWQECMDYAVTLARQAGEVVRDALKNEMNVMIKSSPTDLVTATDQKVEKMPISSIKEKYPSHSFIGE |
| Parental | ESVAAGEKSVLTDNPTWIIDPIDGTTNFVHRFPFVAVSIGFVVNKKMEFGVVYSCMEDKMYTGRKGKGAF |
| ESVAAGEKSVLTDNPTWIIDPI.GTT.FVHRFPFVAV.I.FVVNKKMEFGVVYSC.E.KMYTGRKGKGAF | |
| Retrocopy | ESVAAGEKSVLTDNPTWIIDPIYGTTSFVHRFPFVAVLIDFVVNKKMEFGVVYSCVEYKMYTGRKGKGAF |
| Parental | CNGQKLQVSRQEDITKSLLVTELGSSRTPETVRIVLSNMEKLLCIPIHGIRGVGTAAVNMCLVAAGVADA |
| CN.QKLQVS.QEDITKS.LVTELG.S.TPETV.I.LSNMEKLLCIPIHGI.GVGTAAVNMCLVAAG..DA | |
| Retrocopy | CNSQKLQVSQQEDITKSRLVTELGPSGTPETVSIILSNMEKLLCIPIHGI*GVGTAAVNMCLVAAGAVDA |
| Parental | YYEMGIHCWDMAGAGIIVTEAGGVLMDVTGGPFDLMSRRIIAASSKTLAERIAKEIQILPFQRDDED |
| YYEMG.HCWDMAGAGIIVTEAGGVLMDV.GGPF.LMSRRIIAASS..LAER.AKEIQIL.FQRDDED | |
| Retrocopy | YYEMGVHCWDMAGAGIIVTEAGGVLMDVIGGPFGLMSRRIIAASSESLAERLAKEIQILSFQRDDED |
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 | 2 .83 RPM |
| SRP021940_cerebellum | 0 .05 RPM | 10 .75 RPM |
| SRP021940_embryo | 0 .03 RPM | 11 .64 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 6 .88 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 7 .77 RPM |
| SRP021940_testis | 0 .00 RPM | 9 .34 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_438 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_438 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_438 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Equus caballus | ENSECAG00000023030 | 1 retrocopy |
retro_ecab_438 ,
|
| Macaca mulatta | ENSMMUG00000002628 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000006271 | 1 retrocopy |