RetrogeneDB ID: retro_chof_647

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_130544:885..1182(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000004130
• Aliases: None
• Description: None

Sequence

>retro_chof_647
ATTAAGAAGAAACAGCAAGATGTGCTTGGTTTCTTGGAAGCCAACAAAATAGGATTTGAAGAAAAAGATATTGCAGCCAA
TGAAGAGAATCGGAAGTGGATGAGAGAAAATGTACCTGAAAACAGTCGACCAGCCACAGGGTATCCCCTGCCACCTCAAA
TTTTCAATGAAAGCCAGTACCGTGGGGACTATGATGATTTCTTTGAAGCCAGAGAAAATAATGCAGTGTATGCCTTTTTA
GGCTTGACAGCACCTCCTGGTTCAAAGGAAGCAGAAGCCCAGGCAAAGCAGCAAGCA

Alignment

ORF - retro_chof_647 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 100. %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IKKKQQDVLGFLEANKIGFEEKDIAANEENRKWMRENVPENSRPATGYPLPPQIFNESQYRGDYDDFFEA
          IKKKQQDVLGFLEANKIGFEEKDIAANEENRKWMRENVPENSRPATGYPLPPQIFNESQYRGDYDDFFEA
Retrocopy IKKKQQDVLGFLEANKIGFEEKDIAANEENRKWMRENVPENSRPATGYPLPPQIFNESQYRGDYDDFFEA

Parental  RENNAVYAFLGLTAPPGSKEAEAQAKQQA
          RENNAVYAFLGLTAPPGSKEAEAQAKQQA
Retrocopy RENNAVYAFLGLTAPPGSKEAEAQAKQQA

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_647 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 7 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003858	3 retrocopies	retro_chof_1669, retro_chof_2317, retro_chof_682,
Choloepus hoffmanni	ENSCHOG00000004130	1 retrocopy	retro_chof_647 ,
Callithrix jacchus	ENSCJAG00000003568	2 retrocopies	retro_cjac_1102, retro_cjac_140,
Cavia porcellus	ENSCPOG00000012267	3 retrocopies	retro_cpor_1172, retro_cpor_244, retro_cpor_844,
Dipodomys ordii	ENSDORG00000011106	2 retrocopies	retro_dord_199, retro_dord_588,
Equus caballus	ENSECAG00000012612	1 retrocopy	retro_ecab_648,
Ictidomys tridecemlineatus	ENSSTOG00000013216	1 retrocopy	retro_itri_1152,