RetrogeneDB ID: retro_chof_2273

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_62518:4396..4686(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000004876
• Aliases: None
• Description: None

Sequence

>retro_chof_2273
CTGCTGTATCATGAGTTGGAGGGGCAGGAGCTTCTGTGGCAGCAGTAGCCAGAGGACCAAGGTGGCCATTGCACAGGATA
TTTGCATCCTGGAGAGAAGATCTTCTCATCCATGGGTGACCTGAGCTACATGGGAGGTGGTGGCTGCATTCTCCTGGGAG
GGCTGAACTGTCTGGGGGGTGGCTGATGCAAGGGGCCAGCACACCTGTGGCAGCCATCCCCTGGCCATCTATTTGTCCTC
TGTCCATGTGTTTCAGCACTTTGTCTTCATCCATATTCTCAAAGACAACA

Alignment

ORF - retro_chof_2273 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.9 %
• Parental protein coverage: 62.73 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LLREELELERLRWRRRPGDRERRRTGDLRLGERDLLLIRGGDLRHMGGGGSILLGGLKRRGGG-RGQGAS
          LL..ELE...L.W...P.D.....TG.L..GE........GDL..MGGGG.ILLGGL...GGG...QGAS
Retrocopy LLYHELEGQELLWQQ*PEDQGGHCTGYLHPGEK--IFSSMGDLSYMGGGGCILLGGLNCLGGG<LMQGAS

Parental  TAVAVISWPSICPPPSMCFSAFSASSGFSNST
          T.VA.I.WPSIC.P.SMCFS..S.SS.FS..T
Retrocopy TPVAAIPWPSIC-PLSMCFSTLS-SSIFSKTT

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_2273 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000004876	3 retrocopies	retro_chof_1586, retro_chof_1986, retro_chof_2273 ,
Homo sapiens	ENSG00000167970	1 retrocopy	retro_hsap_3023,
Tursiops truncatus	ENSTTRG00000008219	1 retrocopy	retro_ttru_1557,
Vicugna pacos	ENSVPAG00000009975	1 retrocopy	retro_vpac_116,