RetrogeneDB ID: retro_chof_1211

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_225987:1859..2289(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SRD5A3
• Ensembl ID: ENSCHOG00000004093
• Aliases: None
• Description: steroid 5 alpha-reductase 3 [Source:HGNC Symbol;Acc:25812]

Sequence

>retro_chof_1211
GAGCTGGCGCTGTCTGCGTTCTTAATACTAGCGTTTCTGTGGATGCACAGCTTGTGAAGACTCTTTAAGTGTTTCTACGT
CAGTGTCTTCTCCATCGCCGTGATTCATGTCGTGCAGTGTGGTTTTGGACTTGTTTACTATGTCCTCCTTGGCCTAACCA
TGCTGAGCCAAGTGCCCACGGATGGCAGAAGGTCCACAGGGAAAAATCTGTTTGATGCAAGCACAGTGGTTCCACATCCT
TCGAAGGATGATGTTCATCTGGTCCTCGGTCCATCAGTATAAGGGCACATAATTCTTAGCAATCTCAGTAAAAATAAAGC
AGGGGTGGTTATTCACTGTAACCGCAGAATCCTTTTGTAGACTGGTTGAATATGTTTTCTCCCCCTAACTATTTAGCACA
GTTGATGACTTACATTCTGTGGCTGTCACC

Alignment

ORF - retro_chof_1211 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.33 %
• Parental protein coverage: 74.49 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  ELALSAFLVLAFLWIHSLRRLFECFYISVFSNAVIHVVQYSFGLVYYVLVGLTVLSQVPMDGRNVYVIGK
          ELALSAFL.LAFLW.HSL.RLF.CFY.SVFS.AVIHVVQ..FGLVYYVL.GLT.LSQVP.DGR.....GK
Retrocopy ELALSAFLILAFLWMHSL*RLFKCFYVSVFSIAVIHVVQCGFGLVYYVLLGLTMLSQVPTDGRR--STGK

Parental  NL-LMQARWFHILGMMMFIWSSAHQYK-CHVILGNLRKNRAGVVIHCNHRI-PYGDWFEYVSSPNYLAEL
          NL.LMQA.WFHIL..MMFIWSS.HQYK..H.IL.NL.KN.AGVVIHCN.RI.P..DW....S.PNYLA.L
Retrocopy NL>LMQAQWFHILRRMMFIWSSVHQYK<GHIILSNLSKNKAGVVIHCNRRI<PFVDWLNMFSPPNYLAQL

Parental  MIYI-SMAVT
          M.YI.S.AVT
Retrocopy MTYI<SVAVT

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_1211 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000004093	1 retrocopy	retro_chof_1211 ,
Microcebus murinus	ENSMICG00000000317	1 retrocopy	retro_mmur_1071,
Pan troglodytes	ENSPTRG00000016070	1 retrocopy	retro_ptro_798,
Tursiops truncatus	ENSTTRG00000000958	1 retrocopy	retro_ttru_913,