RetrogeneDB ID: retro_chof_2630

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_92565:4891..5186(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ARL8B
• Ensembl ID: ENSCHOG00000007757
• Aliases: None
• Description: ADP-ribosylation factor-like 8B [Source:HGNC Symbol;Acc:25564]

Sequence

>retro_chof_2630
GGTCAATTCAGTGAATATTTGATACCCACAGTGGGCTTCAACATGAGCAAAGTAACTAAAGGTAACGTCACAATAAAGAT
TTGGGACATAGGCGGATTCCAGAGCATGTGGGAACGGAACTGCAGAGAAACAATGCTATTGTTTACTGGATAGGTGCTGC
ATATCCTGAAAAGTTTGAAGCCTCTGGGTGTGAGCTACATACACTTCTAGTAAACCACGGTTATAAGGAATTCCAGTGCT
AATACTTGGAAATAAGTGAGATCTTTCCAATGCCTGGGATGAGAAACAGCTAATT

Alignment

ORF - retro_chof_2630 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.19 %
• Parental protein coverage: 70.34 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GQFSEDMIPTVGFNMRKVTKGNVTIKIWDIGGQPRFRSMWERYCRGV-NAIVYMIDAADREKIEASRNEL
          GQFSE..IPTVGFNM.KVTKGNVTIKIWDIGG...F.SMWER.CR...NAIVY.I.AA..EK.EAS..EL
Retrocopy GQFSEYLIPTVGFNMSKVTKGNVTIKIWDIGG---FQSMWERNCRET<NAIVYWIGAAYPEKFEASGCEL

Parental  HNLL-DKPQLQGIPVLVLGNQGDLPNALEKKPLI
          H.LL..KP.L.GIPVL.LGN..DL.NA...K.LI
Retrocopy HTLL<SKPRL*GIPVLILGNK*DLSNAWDEKQLI

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_2630 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 12 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006427	4 retrocopies	retro_chof_1024, retro_chof_1807, retro_chof_2368, retro_chof_36,
Choloepus hoffmanni	ENSCHOG00000007757	2 retrocopies	retro_chof_1196, retro_chof_2630 ,
Callithrix jacchus	ENSCJAG00000015842	2 retrocopies	retro_cjac_1120, retro_cjac_470,
Homo sapiens	ENSG00000134108	1 retrocopy	retro_hsap_361,
Gallus gallus	ENSGALG00000008314	1 retrocopy	retro_ggal_25,
Gorilla gorilla	ENSGGOG00000004952	1 retrocopy	retro_ggor_373,
Microcebus murinus	ENSMICG00000000244	2 retrocopies	retro_mmur_1220, retro_mmur_1239,
Mustela putorius furo	ENSMPUG00000017035	2 retrocopies	retro_mputfur_1390, retro_mputfur_541,
Oryctolagus cuniculus	ENSOCUG00000014090	2 retrocopies	retro_ocun_1942, retro_ocun_751,
Pongo abelii	ENSPPYG00000013694	1 retrocopy	retro_pabe_343,
Tarsius syrichta	ENSTSYG00000001724	1 retrocopy	retro_tsyr_2150,
Vicugna pacos	ENSVPAG00000012114	2 retrocopies	retro_vpac_495, retro_vpac_519,