RetrogeneDB ID: | retro_chof_1510 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_311305:7..1281(-) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | PAPSS2 | ||
| Ensembl ID: | ENSCHOG00000002724 | ||
| Aliases: | None | ||
| Description: | 3'-phosphoadenosine 5'-phosphosulfate synthase 2 [Source:HGNC Symbol;Acc:8604] |
Retrocopy-Parental alignment summary:
>retro_chof_1510
CAGAGAGCAACTAGTGTCACCCATCAAGCCCACCATGTCAGCAGGAACAAGAGAGGTCAGGTGGTAGGGATCAAAAGTGG
CTTTCATGTTTGCACAGTTTGGCTAACAGGCTTATCTGGAGCACAGAAGACCACAGTGGACATGGCTTTGGAGGAATACT
TAGTTTGCCATGGTATTCCATGTTGTACCTTGGATGGTGACAACATTCTTCAGGGTCTCAATAAGAATCTTGGTTTTAGT
CCTGAAGACAGGGAAGAGAATGTTTGATGCATTGCAGAAGTTGCTAAGCTAGTTGCAGATGCCAGCCTAGTGTGTATCAC
AAGTTATATATCACCTTATACTCAGGATTGCAACAATGCATGGCAAATTCATGAGGGTTCAAGTTTACCTTTTTTTGAAA
TATTTGTTGATGCTCCTCTGCATGTTTGTGAACAGAGGGATGTTAAGGGACTGTACAAAAAAGCACAGGCTGGAGAAATT
AAAGGTTTCACTGGGATTGATTCTGACTATGAAAAATCAGAGGCCCCTGAATTCTTGCTGAAAACAGACTCCTTGATGTA
ATTGACTGCATTCAGCAAGTTATGGAACTCCTACAAGAAAGGGACATTGTACCTGTGGATGCTTCTTATGAAGTAAAAGA
ACTGTATGTGCCAGAAAATAAACTTCATTTGGCAAAAACAGATGCAGAAACGTTACCGGCACTGAAAATTAATAAAGCGG
ATATGCAGTGGGTGCAAGTTTTGGCTGAAGGTTGAGCAACACCACTGAATGGCTTTATGAGAGAGAGGGAGTACTTGCAG
TGCCTTCATTTTGATTGTCTTCTGGATGGGGGTGTCATTAACTTGTCAGTACCTATAGTTCTGACAGCTACCCAAGAAGA
TAAAGAGAGGCTGGATGGCTGCACAGCATTTGCTCTGATGCATGAGGGCTACCGCGTGGCTATTCTTCGTAATCCAGAGT
TTTTTGAGCACAGGAAGGAAGAGCGCTGTGCCAGACAGTAGGGGACCACGTGCAAGAACCATCCCTACATCAAGATGGTT
ATGGAACAAGGAGATTGGCTGGTTGTAGGAGATCTTCAGGTCCTGGACCAAATTTATTGGAATGATGGTCTTGATCAATA
TCTTACTTACTCCCACTGAGCTAAAGTTTAAAGCTATGAATGCTGATGTTATGCTGATGCTGTCTTTGCATTACCTGGTG
CACAATGGACATGCTCTATTAAGCAGGACACTCATAAGCAGCTCATGGAGAGGGCTACCAGTGCCCCCACCCTT
ORF - retro_chof_1510 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 67.05 % |
| Parental protein coverage: | 69.74 % |
| Number of stop codons detected: | 3 |
| Number of frameshifts detected: | 3 |
Retrocopy - Parental Gene Alignment:
| Parental | QKSTNVVYQAHHVSRNKRGQVVGTRGGFRGCTVWMTGLSGAGKTTISFALEEYLVSHAIPCYSLDGDNIR |
| Q..T.V..QAHHVSRNKRGQVVG...GF..CTVW.TGLSGA.KTT...ALEEYLV.H.IPC..LDGDNI. | |
| Retrocopy | QRATSVTHQAHHVSRNKRGQVVGIKSGFHVCTVWLTGLSGAQKTTVDMALEEYLVCHGIPCCTLDGDNIL |
| Parental | HGLNKNLGFSAGDREENIRRIAEVARLFADAGLICITSFISPFAKDRANARKIHESTGLPFFEIFIDAPL |
| .GLNKNLGFS..DREEN...IAEVA.L.ADA.L.CITS.ISP...D..NA..IHE...LPFFEIF.DAPL | |
| Retrocopy | QGLNKNLGFSPEDREENV*CIAEVAKLVADASLVCITSYISPYTQDCNNAWQIHEGSSLPFFEIFVDAPL |
| Parental | NICESRDVKGLYKRARAGEIKGFTGIDSDYEKPEAPECVLKTS-VSSVSDCVQQVVELLQEQNIVPHTVI |
| ..CE.RDVKGLYK.A.AGEIKGFTGIDSDYEK.EAPE..LKT.....V.DC.QQV.ELLQE..IVP.... | |
| Retrocopy | HVCEQRDVKGLYKKAQAGEIKGFTGIDSDYEKSEAPEFLLKTD<LLDVIDCIQQVMELLQERDIVPVDAS |
| Parental | KGIHELFVPENKLDQVRAEAETLPSLSITKLDLQWVQVLSEGWATPLKGFMREKEYLQALHFGTLLDGMI |
| ....EL.VPENKL......AETLP.L.I.K.D.QWVQVL.EG.ATPL.GFMRE.EYLQ.LHF..LLDG.. | |
| Retrocopy | YEVKELYVPENKLHLAKTDAETLPALKINKADMQWVQVLAEG*ATPLNGFMREREYLQCLHFDCLLDG-- |
| Parental | LDGVINLSIPIVLPVSVDDKKWLEGCSEFALEHGGRRVAILQNPEFYEHRKEERCSRVWGTTCAKHPHIK |
| ..GVINLS.PIVL.....DK..L.GC..FAL.H.G.RVAIL.NPEF.EHRKEERC.R..GTTC..HP.IK | |
| Retrocopy | --GVINLSVPIVLTATQEDKERLDGCTAFALMHEGYRVAILRNPEFFEHRKEERCARQ*GTTCKNHPYIK |
| Parental | MVMESGDWLVGGDLKVLERIRWNDGLDQY-RLTPLELKQKCKDMNADVVFAFQLRNPVHNGHALL-MQDT |
| MVME.GDWLV.GDL.VL..I.WNDGLDQY..LTP.ELK.K...MNADV.....L...VHNGHALL..QDT | |
| Retrocopy | MVMEQGDWLVVGDLQVLDQIYWNDGLDQY>LLTPTELKFKA--MNADVMLMLSLHYLVHNGHALL<KQDT |
| Parental | HRQLLERGYKHPVL |
| H.QL.ER....P.L | |
| Retrocopy | HKQLMERATSAPTL |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
Choloepus hoffmanni was not studied using RNA-Seq expression data.
Choloepus hoffmanni was not studied using ChIP-Seq data.
Choloepus hoffmanni was not studied using EST data.
Choloepus hoffmanni was not studied using FANTOM5 data.
retro_chof_1510 was not experimentally validated.
Retrocopy orthology:
Choloepus hoffmanni 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 1 parental gene, and 2 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000002724 | 2 retrocopies |
retro_chof_1510 , retro_chof_1686,
|