RetrogeneDB ID: | retro_ecab_139 | ||
Retrocopy location | Organism: | Horse (Equus caballus) | |
| Coordinates: | 1:112756536..112757238(+) | ||
| Located in intron of: | ENSECAG00000018053 | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | SERPINE2 | ||
| Ensembl ID: | ENSECAG00000016075 | ||
| Aliases: | None | ||
| Description: | serpin peptidase inhibitor, clade E (nexin, plasminogen activator inhibitor type 1), member 2 [Source:HGNC Symbol;Acc:8951] |
Retrocopy-Parental alignment summary:
>retro_ecab_139
TATGTTAAAAATGAAACAGGGATTTGATTAACAATCTCCTTTCCCTGGATCTTATCAATGGTGTGTTCACTGGACTGGTC
CTTGTCAGTGCAGTGCATTTTAAAGGTTTAGAGAAATCAAAGTTTCAACCTGAGAACACAAAGAAATATATGTTTTTGAC
AGCTGATAGAAAATCCTATCAGTGCTGATGCTAGTTCAGCTCTGCATGTTCTGGTGGGGGGCAGCAAGCACCCCTAATGA
TTTATGGTACAACTTCATTGAATGCCCTACCGTGGGGAAAATATCAGTATGCTGATTCTGCTATCCACCTCCACTCCACT
GTCGGCCATCACCCGCCACATCAGCATGCAAACCATAGACCACTGATGTGAGCACCATGGCACCAAGAGCACACAGCTGA
TCCTGCCCAAGTTCACAGCCATAGAACAAACTGATTTGAAGGAGCCGCTGAAAGTTCTTGGTGTTACTGAGATACTTAAT
CTATCAAAGGCAAATTTTGCAAAGATAACAAGGTCAGAAAACCTTCATGTTTCTCATGTCTTGCAGAAAGCAAAGGTTGA
AGTCAATGTAGACAGAACCAAAGCTTCAGCAGCAACAACTAGGAATCTAATCACAAGAGCATCACCTTGGTTTATAGAAG
ACAGAACTTTTTTATCTTTCATCCTACATAATCCCACAAGTGCTGTCTTACTCAGGGGCAGA
ORF - retro_ecab_139 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 69.55 % |
| Parental protein coverage: | 59.95 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 5 |
Retrocopy - Parental Gene Alignment:
| Parental | WVKNET-RGMIDNLLSPDLIDGVLTRLVLVNAVYFKGLWKSRFQPENTKKRTFVAADGKSYQ-VPMLAQL |
| .VKNET.R..I.NLLS.DLI.GV.T.LVLV.AV.FKGL.KS.FQPENTKK..F..AD.KSYQ.V.ML.QL | |
| Retrocopy | YVKNET<RDLINNLLSLDLINGVFTGLVLVSAVHFKGLEKSKFQPENTKKYMFLTADRKSYQ<VLMLVQL |
| Parental | SVFRCGSTSTPSDLWYNFIE-LPYHGESISMLIALPTESSTPLSAIIPHISTKTID-SWMSTMVP-KRVQ |
| ..F..G..STP.DLWYNFIE..PY.GE.ISMLI.L.T..STPLSAI..HIS..TID....STM.P.K..Q | |
| Retrocopy | CMFWWGAASTPNDLWYNFIE<MPYRGENISMLILLST--STPLSAITRHISMQTID>TDVSTMAP<KSTQ |
| Parental | VILPKFTAVAQTDLKEPLKVLGITEMFEPSKANFAKITRSENLHVSHILQKAKIEVSEDGTKASAATTAI |
| .ILPKFTA..QTDLKEPLKVLG.TE....SKANFAKITRSENLHVSH.LQKAK.EV..D.TKASAATT.. | |
| Retrocopy | LILPKFTAIEQTDLKEPLKVLGVTEILNLSKANFAKITRSENLHVSHVLQKAKVEVNVDRTKASAATTRN |
| Parental | LIARSSPPWFIVDRPFLFFIRHNPTGAVLFMGQ |
| LI.R.S.PWFI.DR.FL.FI.HNPT.AVL..G. | |
| Retrocopy | LITRAS-PWFIEDRTFLSFILHNPTSAVLLRGR |
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 | 726 .78 RPM |
| SRP021940_cerebellum | 0 .00 RPM | 128 .07 RPM |
| SRP021940_embryo | 0 .00 RPM | 65 .75 RPM |
| SRP021940_placental_villous | 0 .00 RPM | 92 .81 RPM |
| SRP021940_synovial_membrane | 0 .00 RPM | 137 .10 RPM |
| SRP021940_testis | 0 .00 RPM | 78 .07 RPM |
Equus caballus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_ecab_139 retrocopy.
Equus caballus was not studied using FANTOM5 data.
retro_ecab_139 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_ecab_139 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 | |
|---|---|---|---|
| Equus caballus | ENSECAG00000016075 | 1 retrocopy |
retro_ecab_139 ,
|
| Mustela putorius furo | ENSMPUG00000016691 | 1 retrocopy |