RetrogeneDB ID: retro_chof_1769

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_37984:4027..5028(+)
• 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_1769
AAAGGAAAAGGGAACTTTGTTAACCCTTGGCCAACTTGGAAAAATCTCTCTATTCCAAATACCCTTAGATCGTTGATTTT
AGAAAAAGAGCACAGCAATATTCCACATCCCAAAGAGGAACTTGATAAAGAACTCCCAGTGCTTAAGCCCTATTTCAGCA
ATGACTCTGAAGAAGCTGGAGTGAAGGAAGCTGGCTTAAGAGTCACATGGCTGGGACATGCAACAGTAATGGTAGAAATG
GATGAGCTCGTATTTCTCATGGATCCCATTTTTAGCCATCATGCTTCAGCATCATAGTACATGGGTCCAAAATGCTTTTG
TCATCCTCCATGTACAATAAGCAAGCTGCCTCCAATAGATGTGGTCCTTATCAGTCAAAATCACTATGATCACCTGGACA
ATTCTGTCATTGCTCTGAATGAGTGATTCAGTAATGAGTTGAGATGGTTTATGCCTTTGGGTCTCCTTGACTGGATGCAG
AAATGCAGCTGAGAGAATATGATTAAGCTGGACCAGTGGGAGGAGAATTGTGTCCCCAGACATGATAAGTTCACCTTTGT
CTTTCCACCATCCCAGCACTGGTGCAAGAGGACTCTAATGGATGACAATAACGTTCTGTGGGACAGCTGGTCTGTCTTAG
GAACTTGGAATAGATTCTTTTTTTGCAGGAGATACTGGTTATTGCCCTGCTTTTGAAGAGAAAGGAAAAGGTTTGGACCT
TTTAACCTTGCAGCTATTCTTATTGGAGCTTATGAACCCAGGTGGCTTATGAAATGGCAGCACATAGACCCAGAAGAAGC
TGTAAGGATTAACACTGATGTTCAAGCAGAGAAATCTGTGGCAATTCACTGGGGAACTTTGTCTTAGCAAATGAGCATTA
CTTAGACCCTCCGGTGAAATTTCATGAAGCTCTAGGAAGATACAGACTCATGACTGAAGATTTTTTTGTCTTGAAGCATG
GAGAATCAAGATACCTAAATAGTAATGATAAAAACTTTGAA

Alignment

ORF - retro_chof_1769 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.12 %
• Parental protein coverage: 85.24 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  KGKDGRFVNPWPTWKNPSIPNALRWLIMEKDHSNVPRSKEELDKELPVLKPYFINDPEKAGVKEAGLRVK
          KGK.G.FVNPWPTWKN.SIPN.LR.LI.EK.HSN.P..KEELDKELPVLKPYF.ND.E.AGVKEAGLRV.
Retrocopy KGK-GNFVNPWPTWKNLSIPNTLRSLILEKEHSNIPHPKEELDKELPVLKPYFSNDSEEAGVKEAGLRVT

Parental  WLGHATVMLEMGEILFLTDPIFSQCVSPS-QVGLKYFCCPPCTIFELPPADVVLISHNHYDHLDYNSVIA
          WLGHATVM.EM.E..FL.DPIFS...S.S...G.K.FC.PPCTI..LPP.DVVLIS.NHYDHLD.NSVIA
Retrocopy WLGHATVMVEMDELVFLMDPIFSHHASAS*YMGPKCFCHPPCTISKLPPIDVVLISQNHYDHLD-NSVIA

Parental  LNERFGNELRWFVPLGLLDWMQKCGCENVIELDWWEENCVPRHDKVTFVFTPSQHWCKRTLMDDNKVLWG
          LNE.F.NELRWF.PLGLLDWMQKC..EN.I.LD.WEENCVPRHDK.TFVF.PSQHWCKRTLMDDN.VLW.
Retrocopy LNE*FSNELRWFMPLGLLDWMQKCS*ENMIKLDQWEENCVPRHDKFTFVFPPSQHWCKRTLMDDNNVLWD

Parental  SWSVLGPWNRF-FFAGDTGYCPAFEEIG-KRFGPFDLAAIPVGAYEPRWFMKWQHIDPEEAVRIHIDVQA
          SWSVLG.WNRF.FFAGDTGYCPAFEE.G.KRFGPF.LAAI..GAYEPRW.MKWQHIDPEEAVRI..DVQA
Retrocopy SWSVLGTWNRF>FFAGDTGYCPAFEEKG<KRFGPFNLAAILIGAYEPRWLMKWQHIDPEEAVRINTDVQA

Parental  KKSVAIHWGT-FVLANEHYLDPPVKLREALGRYGLTTEDFFVLKHGESRYLNSDDKNVE
          .KSVAIHWGT.FVLANEHYLDPPVK..EALGRY.L.TEDFFVLKHGESRYLNS.DKN.E
Retrocopy EKSVAIHWGT<FVLANEHYLDPPVKFHEALGRYRLMTEDFFVLKHGESRYLNSNDKNFE

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_1769 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.

---

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,