RetrogeneDB ID: retro_chof_869

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_158558:1292..2263(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ALDH7A1
• Ensembl ID: ENSCHOG00000002143
• Aliases: None
• Description: aldehyde dehydrogenase 7 family, member A1 [Source:HGNC Symbol;Acc:877]

Sequence

>retro_chof_869
ATGTCAATGCTGCTGATCAATCAGCCCCAGTATGCTTGGCTGAAGGATCTGGGGCTCTGTGAGGAAAATGAGGGCATGCA
TAATGGAAACTGGGGAGGCCAGGGAGAGGTTATTACAACCTCTTGTCCTGCTAACAATAAACCAATAGCAAGAGACCAAC
AGGCTAGTGTGACAGACGATGAAGAAACTGTAAACAAAGCAAGAGAAACATGGAAAATATGGGTGGATATACCTGCTCCA
AAGCAAGGAGAAATAGTAAGAGAGATTGGTGGTGTCTTGTAAGAGAAGATCCAAGTGCTAGGAAATTTGGTGTCTTTAGA
GATGAGGAAAACGTTAGTAGAAAGTGTGGGAGAAGTTCAAGAATATGTGGATATTTGTGATTTTGTTTTTGGCTTATTGA
GGATGATTGGGGACCCAGCCTGCCTTCTGAAAGTCCTGGCCATGTGCTTATTGAACAGTGGAGTCCTGTAGGCCTGGTTG
GAATCATCACTGCATTCAACTTCCCTGTGGAAGTGTATGGCTGGAACATTGTCATTGCAATGATCTGTGGGAACACCTAT
CTCTGGAAAGGTATTCCAACAATGTCCCTCATTAGCGTAGCTGTCACAAAGATAATTGCAAAGGTTCTGGAGGACAACAA
ACTGTCAGGTGCAATTTGTTCCTTGACTTGTGGTGGAGCAGATATTGGCACAGCAGTGGCCAAAGATGAGTGGATGGACC
TGCTGTCCTTCACCAGGAGCACCGAGGTGAGGAAACAGGTGTCTATTATGGTGCAGGAGAGGTTTGGGAGAAATTTATTA
GAGTTTGGGGGAAACAATGTCATTGTTGCTTTTGAGGATGCAGACCTCAGCTTAGTCATTCTATCAGCTCTCTTTGTGAC
TGTGGGGACAGCTGACCAGAGGTGTATGACTGAAAGGCAATGGTTTTTACATGAAAGTATCCATGATGAAGTTGTAAATA
AATTTAAAAGG

Alignment

ORF - retro_chof_869 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.31 %
• Parental protein coverage: 66.74 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSTLLISQPQYAWLKELGLREENEGVYNGSWGGRGEVITTYCPANNEPIARVRQASVADYEETVKKAREA
          MS.LLI.QPQYAWLK.LGL.EENEG..NG.WGG.GEVITT.CPANN.PIAR..QASV.D.EETV.KARE.
Retrocopy MSMLLINQPQYAWLKDLGLCEENEGMHNGNWGGQGEVITTSCPANNKPIARDQQASVTDDEETVNKARET

Parental  WKIWADIPAPKRGEIVRQIGDALREKIQVL-NLVSLEMGKILVEGVGEVQEYVDICDFAVGLSRMIG-GP
          WKIW.DIPAPK.GEIVR.IG..L.EKIQVL.NLVSLEM.K.LVE.VGEVQEYVDICDF..GL.RMIG.GP
Retrocopy WKIWVDIPAPKQGEIVREIGGVL*EKIQVLGNLVSLEMRKTLVESVGEVQEYVDICDFVFGLLRMIG<GP

Parental  ILPSERPGHALIEQWNPLGLVGIITAFNFPVAVYGWNNAIAMICGNACLWKGAPTTSLISVAVTKIIAKV
          .LPSE.PGH.LIEQW.P.GLVGIITAFNFPV.VYGWN..IAMICGN..LWKG.PT.SLISVAVTKIIAKV
Retrocopy SLPSESPGHVLIEQWSPVGLVGIITAFNFPVEVYGWNIVIAMICGNTYLWKGIPTMSLISVAVTKIIAKV

Parental  LEDNKLPGAICSLTCGGADIGTAMAKDERVNLLSFTGSTQVGKQVSVMVQERFXXXXXXXXXXXXXXXFE
          LEDNKL.GAICSLTCGGADIGTA.AKDE...LLSFT.ST.V.KQVS.MVQERF...............FE
Retrocopy LEDNKLSGAICSLTCGGADIGTAVAKDEWMDLLSFTRSTEVRKQVSIMVQERFGRNLLEFGGNNVIVAFE

Parental  DADLSLVIPSALFAAVGTAGQRCTTARRLFLHENIHDEVVNKLKK
          DADLSLVI.SALF..VGTA.QRC.T.R..FLHE.IHDEVVNK.K.
Retrocopy DADLSLVILSALFVTVGTADQRCMTERQWFLHESIHDEVVNKFKR

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_869 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000002143	1 retrocopy	retro_chof_869 ,
Choloepus hoffmanni	ENSCHOG00000002670	1 retrocopy	retro_chof_2670,
Choloepus hoffmanni	ENSCHOG00000006418	1 retrocopy	retro_chof_1106,
Homo sapiens	ENSG00000164904	1 retrocopy	retro_hsap_3196,
Pongo abelii	ENSPPYG00000025927	1 retrocopy	retro_pabe_2651,
Sarcophilus harrisii	ENSSHAG00000013162	1 retrocopy	retro_shar_758,