RetrogeneDB ID: | retro_mdom_243 | ||
Retrocopy location | Organism: | Opossum (Monodelphis domestica) | |
| Coordinates: | 1:579593974..579597247(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSMODG00000009906 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | ATP2B1 | ||
| Ensembl ID: | ENSMODG00000009874 | ||
| Aliases: | None | ||
| Description: | ATPase, Ca++ transporting, plasma membrane 1 [Source:HGNC Symbol;Acc:814] |
Retrocopy-Parental alignment summary:
>retro_mdom_243
CCCTCGGGTCCATCACCGGCCCGGGCAGGTTCCGCGAGTTTATCTCAGTTACAAGAGAGGCTGCTGCAGGTGAGCTTGAA
GGACCTGGGGCAGTTAATGAGATTACGGGGCTTGGAAGCGTTGGAGCAGCTGGAGGCGCACTTCGGAGGCGTTTCTGGGT
TGTGCCTGCTACTGCAGACGAACCCCGAGTTCGGGCTCCCCCTGGACCCTGTCGAACTGAGCCGTAGGCGAGAACAGTTC
GGCACCAATGAGGTGCCAAAACCCCGGGGCAAATATTTTTTGGAACTGGTATGGGACTCGCTGCAGGACACTACGCTCAT
TTTCCTGGAGGTGGCCGCTGTACTGTCACTAGCCGTGGCCTTCTATGAGCTCAAGATCAACAGAGAGACCAAAGGTTGCG
ACGTTGGCGGGGTCGTAGCAGGCTCTGAGAAGGAGGCAGAAGATGAGTTGGTAAGGTGGCTGGAGGGCACTGTCCTGCTG
ATATCCGTGGCTTTGGTGGTTCTGGCCACAGCCTTAAGTGACTGGAACAAGGAAAAGCAGTTCAGGAATCTGGAAGACCG
AGTGGTCCAAAGTCAGAAAGGAAAGGTATTTCGGAATGGCCAGATCCTGGAGGTACCTGTCAAGGACATCGTGGTGGGTG
ACGTGGTCCCGGTGTCATATGGGGATATGCTGCCTGCAGATGGGGTATTACTCCATGGGCTAAACTTAAAAATGGACGAG
AGTTCCTTGACCGGAGAACTGAACATGGTGAATAAGTCCTTGGACCGGGACCCAATTCTTCTGTCTGGAACCTACGTGAG
GGAGGGCTGGGGCAAAATCATAGTAACAGCTGTAGGGCCCAATTCACAAACTGGGATCATCCTGACCTTGCTTGATGCTA
GTGCCCAGCAAGGAAACCTGGAAGCTCAGAGGAAAGCGCAGCAGTGGGAAAGTCATTGCAAAAGTATATTAAAACTAAAA
CATTCTTACTCCAAAGAAAAGTTAGTGCTACAAAAGAAACTGTCAAAATTAGCAGTTTTGATTACAAAGTGTAGTATGCT
TATGGCTTCAATCACAGTAGTCACCCTTGTGACTCACTTTGTCATTAATACTTTTGTGATCGAGGGACAAAAATGGACTT
TGGATTGTACTTCAGTTTATACCCGATACTTTATTAAATTTTTCATTATTGGAATAACAATCTTGGTGGTGTCTATACCT
GAAGGTCTTCCTCTTGCAGTTACACTGTCTTTGGCTTACTGGGTAAAGAGAATGATGAAGGACAATAACCTAGTAAGGCA
TTTGGATGTTTATGAGTCAGTAAGAAATGCCACAACTATTTGTTTAGACAAAACTGGAACGCTGACCATGAACAGAATGA
CTGTAGTCCAAGCGTATATTGGTGAGAATCATTACCAAAGGCTTCCCAAAACCAATTCTATCCCAGACCCCATCCTGGAG
TACCTTTTAAAAGGTATTACTATTAATTGTTCTTATACTTCCAATGTCATTCTTCCCAAAGGTGGTCAGAAGTCAGTACA
ACAAATTGGCAATAAGACCGAATGTGCCTTATTGGGATTTCTCCTGCATTTGGACTTGGATTATGAAACAGAAAGAAACA
AAATACCACAGCAGAGTTTGTATAAAGTATATACCTTCAACTCAGATAGAAAATACATGAGCACTGTATTAAAATTGTCC
AGCGGAGGTTTCCTGATGTTTAGTAAAGGTCGTTCTGAAATAGTATTAGAGAAGTGTTGTAAAATCCTGGACAAAATGGG
AGAGCCTGTGGAATTGACAGAAACCAAAAAAGAAGAGATCTTTCATAATATTATTGAGCCAATGACTTCTGAGGGACTTC
AAACCATTTGTCTAGCCTTCAGAGAATTCTCAGACCAGGAAATGGAACCAGACTGGGACAGAGAAGAGGATATCATTACA
GAACTTACTTGTATTGCCCTTGTAGGCATTGAAGATCCTGTTAGACCTGAGGTTCCAAGTGCCATTAAGGAATGCCAGCA
AGCTGGAATTACTGTACGGATGGTCACTGGGGATAACCTCAATACTGCACGGGCTATAGCATTCAAATGTGGCATCTTGA
ACCTCCATGACAATTATTTGTCTCTAGAAGGCAGAGATTTCAATAGACTAATACGTAATAAATATGGGAAGATTGAACAG
ACACTTTTAGATAAGATTTGGCCAAGGCTTCGTGTGCTTGCAAGCTCTTCCCCCTCTGACAAGTACGCTCTTGTAAAGGG
TATAATTGACAGTGATGTTTTGGGAGTGAGGCAGATTGTAGCTGTAACCGGGGATGGCACTAATGATGGCCCAGTGTTAA
AAGTGGCAGATGTTGGGTTTGCCTTGGGTATCATTGGAACAGATATCGCTAGAGAAGCTTCAGACATCATTCTCATGGAC
GAGAACTTCACAAGCATTATGAAAGCAATTATGTGTGGAAGGAGCATTTATGACAACATCTCCAAGTTCCTCCAGTTTCA
GCTTACTCTTAGTATAGTAGCAACAACAGTGGCTTTTATAGGGGCATGTGTGACACAGGATTCACCATTTAAAGCGGTAC
AAATGCTATGGATTAACCTCATAATGGATACATTTGCTTCCTTGGCCTTAGTCACTGAAAAGCCAACAAAGACGCTTCTG
CTAAGAGACTTTCCTGAAAAGAAACAGCATCTCTTGTCCAGCTCCATGGTAAAGTATATTTTGGGCCATGCAGTGTACCA
GCTTACAGTCACTTTTGTTCTTATGTTTGTTGGTGAAGAGCTGTTTGGTTTTGAGAGTGGAAGAAAAGCTCTTCTCCACG
CCTCTCCTTCTACCCACTACACAATGATTTTCAACACTTTCGTTATGATGCAACTTTTCAATGAAATTAATGCCCGAAAG
ATTCATGGGGAGAGAAATGTTTTGGAAGGAATGCGTAGCAATAATTTCTTTTGCATCATTGTGGGGGGAACCTTTGCCTT
TCAGTTCCTCATTGTACAATTTGGTGGAAATATTTTCTGTTGTACCAGTCTTAGTCCAGACTTGTGGCTGTGGTGCATTT
TCCTAGGAGCAGGGATATTAGTGTGGGGTCAGTTTGTAACCAACATTCCCAACAAGTGTGTGGAACCCCTCATCAGGTTG
ATGGGTGGGAGATCAGAAGAAAAGGTTGAGACTATATGTCCTACAATATCAATGACTGAGGACCTGTGGTGGGTTCAGAA
CCCAAGCAGAATCCAGAATCAGAAAAGACTCATAAAAACATATCATTCTTACTTTCGTAGGAGTTTGTCCCAA
ORF - retro_mdom_243 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 63.59 % |
| Parental protein coverage: | 61.65 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | KEKSVLQGKLTKLAVQIGKAGLLMSAITVIILVLYFVIDTFWVQKRPWLAECTPIYIQYFVKFFIIGVTV |
| KEK.VLQ.KL.KLAV.I.K...LM..ITV..LV..FVI.TF......W...CT..Y..YF.KFFIIG.T. | |
| Retrocopy | KEKLVLQKKLSKLAVLITKCSMLMASITVVTLVTHFVINTFVIEGQKWTLDCTSVYTRYFIKFFIIGITI |
| Parental | LVVAVPEGLPLAVTISLAYSVKKMMKDNNLVRHLDACETMGNATAICSDKTGTLTMNRMTVVQAYINEKH |
| LVV..PEGLPLAVT.SLAY.VK.MMKDNNLVRHLD..E...NAT.IC.DKTGTLTMNRMTVVQAYI.E.H | |
| Retrocopy | LVVSIPEGLPLAVTLSLAYWVKRMMKDNNLVRHLDVYESVRNATTICLDKTGTLTMNRMTVVQAYIGENH |
| Parental | YKKVPDPDAIPASILSCLVTGISVNCAYTSKILPPEREGGLPRHVGNKTECALLGLVLDLKRDYQDVRNE |
| Y...P....IP..IL..L..GI..NC.YTS....P..........GNKTECALLG..L.L..DY...RN. | |
| Retrocopy | YQRLPKTNSIPDPILEYLLKGITINCSYTSNVILPKGGQKSVQQIGNKTECALLGFLLHLDLDYETERNK |
| Parental | IPEEALYKVYTFNSVRKSMSTVLKNSDGSYRIFSKGASEIILKKCFKILSANGEAKVFRPRDRDDIVKTV |
| IP...LYKVYTFNS.RK.MSTVLK.S.G....FSKG.SEI.L.KC.KIL...GE...........I.... | |
| Retrocopy | IPQQSLYKVYTFNSDRKYMSTVLKLSSGGFLMFSKGRSEIVLEKCCKILDKMGEPVELTETKKEEIFHNI |
| Parental | IEPMASEGLRTICLAFRDFPAGEPEPEWDNENDIVTGLTCIAVVGIEDPVRPEVPDAIRKCQRAGITVRM |
| IEPM.SEGL.TICLAFR.F...E.EP.WD.E.DI.T.LTCIA.VGIEDPVRPEVP.AI..CQ.AGITVRM | |
| Retrocopy | IEPMTSEGLQTICLAFREFSDQEMEPDWDREEDIITELTCIALVGIEDPVRPEVPSAIKECQQAGITVRM |
| Parental | VTGDNINTARAIASKCGILHPGEDFLCLEGKDFNRRIRNEKGEIEQERIDKIWPKLRVLARSSPTDKHTL |
| VTGDN.NTARAIA.KCGIL......L.LEG.DFNR.IRN..G.IEQ...DKIWP.LRVLA.SSP.DK..L | |
| Retrocopy | VTGDNLNTARAIAFKCGILNLHDNYLSLEGRDFNRLIRNKYGKIEQTLLDKIWPRLRVLASSSPSDKYAL |
| Parental | VKGIIDSTVSEQRQVVAVTGDGTNDGPALKKADVGFAMGIAGTDVAKEASDIILTDDNFTSIVKAVMWGR |
| VKGIIDS.V...RQ.VAVTGDGTNDGP.LK.ADVGFA.GI.GTD.A.EASDIIL.D.NFTSI.KA.M.GR | |
| Retrocopy | VKGIIDSDVLGVRQIVAVTGDGTNDGPVLKVADVGFALGIIGTDIAREASDIILMDENFTSIMKAIMCGR |
| Parental | NVYDSISKFLQFQLTVNVVAVIVAFTGACITQDSPLKAVQMLWVNLIMDTLASLALATEPPTESLLLRKP |
| ..YD.ISKFLQFQLT...VA..VAF.GAC.TQDSP.KAVQMLW.NLIMDT.ASLAL.TE.PT..LLLR.. | |
| Retrocopy | SIYDNISKFLQFQLTLSIVATTVAFIGACVTQDSPFKAVQMLWINLIMDTFASLALVTEKPTKTLLLRDF |
| Parental | YGRNKPLISRTMMKNILGHAFYQLVVVFTLLFAGEKFFDIDSGRNAPLHAPPSEHYTIVFNTFVLMQLFN |
| ......L.S..M.K.ILGHA.YQL.V.F.L.F.GE..F...SGR.A.LHA.PS.HYT..FNTFV.MQLFN | |
| Retrocopy | PEKKQHLLSSSMVKYILGHAVYQLTVTFVLMFVGEELFGFESGRKALLHASPSTHYTMIFNTFVMMQLFN |
| Parental | EINARKIHGERNVFEGIFNNAIFCTIVLGTFVVQIIIVQFGGKPFSCSELSIEQWLWSIFLGMGTLLWGQ |
| EINARKIHGERNV.EG...N..FC.IV.GTF..Q..IVQFGG..F.C..LS...WLW.IFLG.G.L.WGQ | |
| Retrocopy | EINARKIHGERNVLEGMRSNNFFCIIVGGTFAFQFLIVQFGGNIFCCTSLSPDLWLWCIFLGAGILVWGQ |
| Parental | LISTIPTSRLKFLKEAGHGTQKEEI |
| ....IP......L.....G...E.. | |
| Retrocopy | FVTNIPNKCVEPLIRLMGGRSEEKV |
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 |
|---|---|---|
| SRP007412_brain | 0 .00 RPM | 0 .00 RPM |
| SRP007412_cerebellum | 0 .00 RPM | 0 .00 RPM |
| SRP007412_heart | 0 .00 RPM | 0 .00 RPM |
| SRP007412_kidney | 0 .00 RPM | 0 .00 RPM |
| SRP007412_liver | 0 .00 RPM | 0 .00 RPM |
| SRP007412_testis | 353 .97 RPM | 0 .00 RPM |
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_243 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_243 was not experimentally validated.
Retrocopy orthology:
Monodelphis domestica does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Macropus eugenii | ENSMEUG00000014296 | 1 retrocopy | |
| Monodelphis domestica | ENSMODG00000009874 | 1 retrocopy |
retro_mdom_243 ,
|
| Pelodiscus sinensis | ENSPSIG00000005441 | 1 retrocopy |