RetrogeneDB ID: retro_chof_1158

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_21470:11658..12152(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZBTB8OS
• Ensembl ID: ENSCHOG00000004061
• Aliases: None
• Description: zinc finger and BTB domain containing 8 opposite strand [Source:HGNC Symbol;Acc:24094]

Sequence

>retro_chof_1158
CAGCAGGAGGAAGATGAGAGAGACTATGATTTGACTGAGGAGCAGAAGGCAGTCAAGGCCAAGTATCCTCCCGTCAATTG
GAAGTACAAGTATTTGGATCATACAGCTGATGTCCAGTTACACGCATGGGGAGACAGTCCGGAGGAAGCACTGAGCAACA
TGCAATGGCCGTGTTTGGTTACGCGACAGATACTGGGACTGTTGAGCCCCTCCAAACAGTAGAAGTAAAAATGCAAGGAG
GTGACTTACAATCTCTTCTTTTTCATTTTTTGGATGAGTGGCTTTATAAATTCAGTGCTGATGAATTCTTTCTACCCAGG
AAGTGAAAGTACTTAGTATTGATCAAAGAAATTTCAAATTGTGGTCAATTGGGTGGGAAAAAGAGTTTTCATTGTCCAAG
CATCCTAGGGGAACCAAAGTCAAGGCAATTAACATATTCAGCAATGCAGGTCTATAGTGAAGAGAAGCCAGAAATTTTTG
TGATCATCGACATT

Alignment

ORF - retro_chof_1158 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.93 %
• Parental protein coverage: 92.18 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  QPEEDVRDYNLTEKQKAIKAKYPPVNRKYEYLDHTADVQLHAWGDTLEEAF-EQCAMAMFGYMTDTGTVE
          Q.EED.RDY.LTE.QKA.KAKYPPVN.KY.YLDHTADVQLHAWGD..EEA..EQ.AMA.FGY.TDTGTVE
Retrocopy QQEEDERDYDLTEEQKAVKAKYPPVNWKYKYLDHTADVQLHAWGDSPEEAL<EQHAMAVFGYATDTGTVE

Parental  PLQTVEVETQGDDLQSLLFHFLDEWLYKFSADEFFIPR-EVKVLNIDQRNFKLRSIGWGEEFSLSKHPQG
          PLQTVEV..QG.DLQSLLFHFLDEWLYKFSADEFF.PR.EVKVL.IDQRNFKL.SIGW..EFSLSKHP.G
Retrocopy PLQTVEVKMQGGDLQSLLFHFLDEWLYKFSADEFFLPR<EVKVLSIDQRNFKLWSIGWEKEFSLSKHPRG

Parental  TEVKAI-TYSAMQVYSEEKPEVFVIIDI
          T.VKAI.TYSAMQVYSEEKPE.FVIIDI
Retrocopy TKVKAI>TYSAMQVYSEEKPEIFVIIDI

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_1158 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.

---

Parental genes homology:

Parental genes homology involve 16 parental genes, and 27 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000010550	1 retrocopy	retro_cfam_2152,
Choloepus hoffmanni	ENSCHOG00000004061	2 retrocopies	retro_chof_1005, retro_chof_1158 ,
Cavia porcellus	ENSCPOG00000015349	2 retrocopies	retro_cpor_356, retro_cpor_903,
Dasypus novemcinctus	ENSDNOG00000001861	2 retrocopies	retro_dnov_1056, retro_dnov_2193,
Equus caballus	ENSECAG00000020982	1 retrocopy	retro_ecab_610,
Felis catus	ENSFCAG00000000700	1 retrocopy	retro_fcat_703,
Homo sapiens	ENSG00000176261	2 retrocopies	retro_hsap_2396, retro_hsap_2992,
Gorilla gorilla	ENSGGOG00000007519	2 retrocopies	retro_ggor_2072, retro_ggor_231,
Myotis lucifugus	ENSMLUG00000000745	5 retrocopies	retro_mluc_1961, retro_mluc_2533, retro_mluc_2570, retro_mluc_2617, retro_mluc_2622,
Macaca mulatta	ENSMMUG00000009939	1 retrocopy	retro_mmul_1915,
Monodelphis domestica	ENSMODG00000017419	2 retrocopies	retro_mdom_400, retro_mdom_901,
Mus musculus	ENSMUSG00000057572	1 retrocopy	retro_mmus_2631,
Oryctolagus cuniculus	ENSOCUG00000000940	1 retrocopy	retro_ocun_492,
Otolemur garnettii	ENSOGAG00000011630	1 retrocopy	retro_ogar_3231,
Pongo abelii	ENSPPYG00000001589	2 retrocopies	retro_pabe_13, retro_pabe_2478,
Tursiops truncatus	ENSTTRG00000014968	1 retrocopy	retro_ttru_1200,