RetrogeneDB ID: retro_chof_1986

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_444063:635..887(-)
• 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_1986
CCAGGGGACCAGGAGCGCCAGCGCACAGGAGCCTGCGCCTGGGGTCTCCTCATCCGTGGGGGTGACCTGTGCCACATGGG
AGGTGGTGGCAGCATTCTCCTGGGAGGGCTGAACGGCCTGGGTGGATGGCCAAGGCCGGGGGGGGGGGGCAGCACAGCTG
TGGCAACGAGCTCCTGGCCAGCTATTTGTCCTCCAATCTTGTGTTTCAGCGCCTTCTCTGCTTCATCCGGATTCTCAATC
TCAACACAGGCG

Alignment

ORF - retro_chof_1986 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.92 %
• Parental protein coverage: 54.04 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PGDRERRRTGDLRLGERDLLLIRGGDLRHMGGGGSILLGGLKRRGGGRGQGASTAVAVI--SWPSICPPP
          PGD.ER.RTG....G....LLIRGGDL.HMGGGGSILLGGL...GG..........AV...SWP.IC.PP
Retrocopy PGDQERQRTGACAWG----LLIRGGDLCHMGGGGSILLGGLNGLGGWPRXXXXXSTAVATSSWPAIC-PP

Parental  SMCFSAFSASSGFSNSTYA
          ..CFSAFSASSGFS.ST.A
Retrocopy ILCFSAFSASSGFSISTQA

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_1986 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,