RetrogeneDB ID: retro_chof_2408

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_72545:3666..3999(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ATP6V1G2
• Ensembl ID: ENSCHOG00000000207
• Aliases: None
• Description: ATPase, H+ transporting, lysosomal 13kDa, V1 subunit G2 [Source:HGNC Symbol;Acc:862]

Sequence

>retro_chof_2408
ATGGCCAGTCAGTCCCAGGGCATCCAACAGCTGCTGCAGGCCAAGAAGCATGCCGCAGAGAAGGTCTCTGAGGCTCACAA
GTGAAAGAACCAGAGGCTGAAGCAGGCCAAAGAAGCATCTCAGGCTGAAATTGAACAGTACCACCTGCAGAGGGAGAAAG
AGTTCAAGGCCAAGGAAGCTGCGGCTTTAGGATCCCATGGCAGTTGTAGCACTGAAGTGGAGAAGGAGACCCAGGAGATG
ACGACCATTCCGCAGACCTACTTCCAGCAGAACAGGGAGGAAGTCCTAGATAACCTCTTGGCCTTTGTCTGTGACATCCG
GCCAGAAATCCAC

Alignment

ORF - retro_chof_2408 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.46 %
• Parental protein coverage: 94.07 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASQSQGIQQLLQAEKRAAEKVADARKRKARRLKQAKEEAQMEVEQYRREREQEFQSKQQAAMGSQGNLS
          MASQSQGIQQLLQA.K.AAEKV..A.K.K..RLKQAKE..Q.E.EQY...RE.EF..K..AA.GS.G..S
Retrocopy MASQSQGIQQLLQAKKHAAEKVSEAHK*KNQRLKQAKEASQAEIEQYHLQREKEFKAKEAAALGSHGSCS

Parental  AEVEQATRRQVQGMQSSQQRNRERVLAQLLGMVCDVRPQIH
          .EVE..T.......Q...Q.NRE.VL..LL..VCD.RP.IH
Retrocopy TEVEKETQEMTTIPQTYFQQNREEVLDNLLAFVCDIRPEIH

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_2408 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
Canis familiaris	ENSCAFG00000000513	1 retrocopy	retro_cfam_794,
Choloepus hoffmanni	ENSCHOG00000000207	1 retrocopy	retro_chof_2408 ,
Macropus eugenii	ENSMEUG00000008277	1 retrocopy	retro_meug_2002,
Tarsius syrichta	ENSTSYG00000007314	1 retrocopy	retro_tsyr_871,