RetrogeneDB ID: retro_chof_2441

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_75645:3535..4711(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: NAPEPLD
• Ensembl ID: ENSCHOG00000002097
• Aliases: None
• Description: N-acyl phosphatidylethanolamine phospholipase D [Source:HGNC Symbol;Acc:21683]

Sequence

>retro_chof_2441
ATGGATGAAAATGAAAGCAACCAGCCCCTGATGACAAGCAGCCAATATCTTCAAGAAGCAGTAAGAAAATGTCAGAATTC
AGCATGGAATCCTGGAGGAAGTGATTCTTCTAGGTTTTCTAGGAAAAGCTTCAAACTGGATTACAGATTAGAGGAAGATA
TAACTAAACCAAAGAAAGGAAAAATGGGAGCTTTGTTAACCCTTGGCCAACTTGGAAAAATCTCTCTACACCAAATGTCC
TCAGATGGTTGATTATAGAAAAAGATCACAGCAATATTCCATGTTCCAAAGAGGAACTTGATAAAGAATTCCCAGTGCTT
AAGTCCTGTTTTATCAATGACTCCGAAGAAGCTGGAGTGAAGGAAGCTGGCTTAAGACTCACATGGCTGGGACATGCAAC
AGTAATGGTAGAAGGGGATGAGCTCATGTTTCTCATGGATCCCATTTTTAGCCATCATGCTTCACCATCACAGTACATGG
TTCCAAAATGCTTTCATCATCCTCCATGAACAATAAGCAAGCTGCCCCCAATAGATGTGGTCCTTATCAGTCAAAATCAC
TATGATTACCTGAACTACAATTCTGTCATGCTCTGAATGAGTGATTCAGTAATGAGTTGAGATGGTTTTTGCCTTTCGGT
CTCCTCGACTGGATTCAAAAATGTGGCTGTGAGAATGTGATTGAGCTGGACCAGTGGGAGAATTGTGTCCTCAGACATAA
GGTCACCTTTGTCTTTCCACCATCCCAGCACTGGTGCAAGAGGACTCTAACGGATGACAGTAAGGTTTTGTGGGGCAGCT
GGTCTGTCTTGGGACCTTGTAATAGATTCTTTTTTGCAGGAGATACTGGTTATTGCACCGCTATTGAAGAGATAGGAAAA
AGATTTGAACCTTTTGACCTTGCAGCTATTCTTCTTGGAACTTATGAACCCAGGTGGTTTATGAAATGGCAGCACATAGA
CCCAGAAGAAGCTGTAAGGATTCACACTGATGTCCAAACAGAGAAATCTGTGGCAATTCACTGGGGAACTTTTGTCTTAG
CAAATGAGCATTACTTAGACCCTCCAGTGAAACTGCATGAAGTTCTAGGAAGATATGGACTTATGACTGAAGATTTCTTT
TTGTCTTGAAGCATGGAGAATCAAGATACCTAAATAGTGATGATAAAACCTTTGAA

Alignment

ORF - retro_chof_2441 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.65 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MEENESNQPLMTSSQYPKEVVRKRQNSARNSGGSDSSRFSRKSFKLDYRLEEDVTKSKKGK-DGRFVNPW
          M.ENESNQPLMTSSQY..E.VRK.QNSA.N.GGSDSSRFSRKSFKLDYRLEED.TK.KKGK..G.FVNPW
Retrocopy MDENESNQPLMTSSQYLQEAVRKCQNSAWNPGGSDSSRFSRKSFKLDYRLEEDITKPKKGK<NGSFVNPW

Parental  PTWKNPSIPNALRWLIMEKDHSNVPRSKEELDKELPVLKPYFINDPEKAGVKEAGLRVKWLGHATVMLEM
          PTWKN.S.PN.LRWLI.EKDHSN.P.SKEELDKE.PVLK..FIND.E.AGVKEAGLR..WLGHATVM.E.
Retrocopy PTWKNLSTPNVLRWLIIEKDHSNIPCSKEELDKEFPVLKSCFINDSEEAGVKEAGLRLTWLGHATVMVEG

Parental  GEILFLTDPIFSQCVSPSQVGL-KYFCCPPCTIFELPPADVVLISHNHYDHLDYNSVI-ALNERFGNELR
          .E..FL.DPIFS...SPSQ....K.F..PP.TI..LPP.DVVLIS.NHYD.L.YNSV..ALNE.F.NELR
Retrocopy DELMFLMDPIFSHHASPSQYMVPKCFHHPP*TISKLPPIDVVLISQNHYDYLNYNSVM<ALNE*FSNELR

Parental  WFVPLGLLDWMQKCGCENVIELDWWEENCVPRHDKVTFVFTPSQHWCKRTLMDDNKVLWGSWSVLGPWNR
          WF.P.GLLDW.QKCGCENVIELD.WE.NCV.RH.KVTFVF.PSQHWCKRTL.DD.KVLWGSWSVLGP.NR
Retrocopy WFLPFGLLDWIQKCGCENVIELDQWE-NCVLRH-KVTFVFPPSQHWCKRTLTDDSKVLWGSWSVLGPCNR

Parental  FFFAGDTGYCPAFEEIGKRFGPFDLAAIPVGAYEPRWFMKWQHIDPEEAVRIHIDVQAKKSVAIHWGTFV
          FFFAGDTGYC.A.EEIGKRF.PFDLAAI..G.YEPRWFMKWQHIDPEEAVRIH.DVQ..KSVAIHWGTFV
Retrocopy FFFAGDTGYCTAIEEIGKRFEPFDLAAILLGTYEPRWFMKWQHIDPEEAVRIHTDVQTEKSVAIHWGTFV

Parental  LANEHYLDPPVKLREALGRYGL-TTEDF-FVLKHGESRYLNSDDKNVE
          LANEHYLDPPVKL.E.LGRYGL.T...F.FVLKHGESRYLNSDDK..E
Retrocopy LANEHYLDPPVKLHEVLGRYGLMTEDFF<FVLKHGESRYLNSDDKTFE

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Choloepus hoffmanni was not studied using RNA-Seq expression data.

ChIP-Seq

Choloepus hoffmanni was not studied using ChIP-Seq data.

EST

Choloepus hoffmanni was not studied using EST data.

TSS

Choloepus hoffmanni was not studied using FANTOM5 data.

Lab

retro_chof_2441 was not experimentally validated.

Homology

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.

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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,