RetrogeneDB ID: | retro_chof_2178 | ||
Retrocopy location | Organism: | Sloth (Choloepus hoffmanni) | |
| Coordinates: | scaffold_55808:3543..4655(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | None | |
| Aliases: | None | ||
| Status: | NOVEL | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | NAPEPLD | ||
| Ensembl ID: | ENSCHOG00000002097 | ||
| Aliases: | None | ||
| Description: | N-acyl phosphatidylethanolamine phospholipase D [Source:HGNC Symbol;Acc:21683] |
Retrocopy-Parental alignment summary:
>retro_chof_2178
AGAAAACACCAGAATTCAGCATGGAATTCTGCAGGAAGCAGATCTTCTAGGTTTTCCAGGAAAAGCTTCAAACTGGATTA
TAGATTAGAGGAAGATGTAACTAAATCAAAGAAAAGAAAAGATGGGAGATTTGTTAACCCTTGGCCAACTTGGAAAAATC
CCTCTATTCCAAATGCCCTCAGATGGTTGATAATGGAAAAAAATCACAGCACTGTTCCATGTTCCAAAGAGGAACTTGAT
AAAGGCCTCCCAGTGCTTAAACGCTATAATATCAATGGCCCTGAAGAAGCTGGAGTGAAGGAAGCTGCCTTAAGAGTCAC
ATGGCTGAGACATGCAACAGTAATGGTAGAAATGAATGAGCTCATATTTCTCATGAATACCATTCTTAGCCATCGTGCTT
CACCATCACAGCATGTGGGTCCAAAATGCTTTCATCACCCTCCATGCACAAGTAAGCTGCCCCCAATAGATGTGGTCCTT
ATCAGTCACAACCAGTATGATCACCTGGACTACAATTCTGTCATTGCTCTGAATGAGCAATGTGGTAATGAGTTGAGTTG
GTTTGTGACTTTGGGTCTCCTAGACTGGATGCAAAAATGTGGCTGTGAGAATGTGACTGAGCTGGATGGGTGGGAAAATT
GTGTCCCCAGACATGATAAGGTCACCTTTGTATTTACACTGTCCCTGCACTGGTGTAAGAGGACTCTAATGGATGTCAGT
AAGGTTCTGTGGGGCAGCTGGTATGTCTTGGGGCCTTGGAATAGATTTTTTTTTGCAGGAGATACTGGTTATTGCCCTGC
TTTTGAAGAGATAGGAAAAAGACTTGGATTTTTGACCTTGCAGCTATTCTTATTGGAGCTTATGAACCCAGGTGGTTTAT
GAAATGGCAGCACATAGAACCATAAGAAGTTGTAAGGATTCATACTGATGTTCAAGCAAAGAAAACTGTGGCAATTCACT
GGGGAACTTTTGTCTTAGAAAATGAGCATTACTTAGAACCTCCAGTGAAACTGCATCAAGCTCTAGGAAGATACAGACTT
ATGACTAAAGATTTTTTTGTCTTGAAGCATGGAGAATCAAGATATCTAAATAGTGATGATAAAAACTTTGAA
ORF - retro_chof_2178 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 81.28 % |
| Parental protein coverage: | 94.66 % |
| Number of stop codons detected: | 1 |
| Number of frameshifts detected: | 1 |
Retrocopy - Parental Gene Alignment:
| Parental | RKRQNSARNSGGSDSSRFSRKSFKLDYRLEEDVTKSKKGKDGRFVNPWPTWKNPSIPNALRWLIMEKDHS |
| RK.QNSA.NS.GS.SSRFSRKSFKLDYRLEEDVTKSKK.KDGRFVNPWPTWKNPSIPNALRWLIMEK.HS | |
| Retrocopy | RKHQNSAWNSAGSRSSRFSRKSFKLDYRLEEDVTKSKKRKDGRFVNPWPTWKNPSIPNALRWLIMEKNHS |
| Parental | NVPRSKEELDKELPVLKPYFINDPEKAGVKEAGLRVKWLGHATVMLEMGEILFLTDPIFSQCVSPSQ-VG |
| .VP.SKEELDK.LPVLK.Y.IN.PE.AGVKEA.LRV.WL.HATVM.EM.E..FL...I.S...SPSQ.VG | |
| Retrocopy | TVPCSKEELDKGLPVLKRYNINGPEEAGVKEAALRVTWLRHATVMVEMNELIFLMNTILSHRASPSQHVG |
| Parental | LKYFCCPPCTIFELPPADVVLISHNHYDHLDYNSVIALNERFGNELRWFVPLGLLDWMQKCGCENVIELD |
| .K.F..PPCT...LPP.DVVLISHN.YDHLDYNSVIALNE..GNEL.WFV.LGLLDWMQKCGCENV.ELD | |
| Retrocopy | PKCFHHPPCT-SKLPPIDVVLISHNQYDHLDYNSVIALNEQCGNELSWFVTLGLLDWMQKCGCENVTELD |
| Parental | WWEENCVPRHDKVTFVFTPSQHWCKRTLMDDNKVLWGSWSVLGPWNRFFFAGDTGYCPAFEEIGKRFG-P |
| .W.ENCVPRHDKVTFVFT.S.HWCKRTLMD..KVLWGSW.VLGPWNR...AGDTGYCPAFEEIGKR.G.. | |
| Retrocopy | GW-ENCVPRHDKVTFVFTLSLHWCKRTLMDVSKVLWGSWYVLGPWNRXXXAGDTGYCPAFEEIGKRLG<I |
| Parental | FDLAAIPVGAYEPRWFMKWQHIDPEEAVRIHIDVQAKKSVAIHWGTFVLANEHYLDPPVKLREALGRYGL |
| FDLAAI..GAYEPRWFMKWQHI.P.E.VRIH.DVQAKK.VAIHWGTFVL.NEHYL.PPVKL..ALGRY.L | |
| Retrocopy | FDLAAILIGAYEPRWFMKWQHIEP*EVVRIHTDVQAKKTVAIHWGTFVLENEHYLEPPVKLHQALGRYRL |
| Parental | TTEDFFVLKHGESRYLNSDDKNVE |
| .T.DFFVLKHGESRYLNSDDKN.E | |
| Retrocopy | MTKDFFVLKHGESRYLNSDDKNFE |
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_2178 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 7 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Choloepus hoffmanni | ENSCHOG00000002097 | 7 retrocopies |
retro_chof_159, retro_chof_1769, retro_chof_2110, retro_chof_2178 , retro_chof_2277, retro_chof_2441, retro_chof_2660,
|