RetrogeneDB ID: retro_chof_1050

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_190214:1066..1406(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZFAND5
• Ensembl ID: ENSCHOG00000002366
• Aliases: None
• Description: zinc finger, AN1-type domain 5 [Source:HGNC Symbol;Acc:13008]

Sequence

>retro_chof_1050
ACAGTTACTGGTTCCAACAGTCCTACCTCAGATTCTGTATCTTCACACAGAGCAGACGCGAGTTTGAACAACTGTGGAGG
AGCTGCCGGCAGAACATCTGAAGAAATCAAGAAATATGACTGTGGCTGCCTTGCCTGTAACTCAGCAAATAATAGAAGTG
AACTTCTCCAAAGAGGACAAAACACCCCAAAAACAGAGGTGGCAAAGCCAGTTGTCTCTCAGCCCAGTCCATCAATTTCT
CAGCTGAGTGCTTCTAAAAGTGAAGTTTTAAAACACTCTTGAGTTACACAAAGCAAAAAAGAACAGATGTTTCATGTGCA
GAAACAAAGTTGGCCTTACA

Alignment

ORF - retro_chof_1050 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.67 %
• Parental protein coverage: 52.31 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  TASGSNSPTSDSASVQRADSSLNNCEGAAGSTSE-KSRNVTVAALPVTQQMTEMSISREDKITTPK-TEV
          T..GSNSPTSDS.S..RAD.SLNNC.GAAG.TSE.KSRN.TVAALPVTQQ..E...S.EDK.T..K.TEV
Retrocopy TVTGSNSPTSDSVSSHRADASLNNCGGAAGRTSE>KSRNMTVAALPVTQQIIEVNFSKEDK-TPQK<TEV

Parental  SEPVVTQPSPSISQPSTSQSEE-KAPELPKQKKSR-CFMCRKKVGLT
          ..PVV.QPSPSISQ.S.S.SE..K.......KK...CFMCR.KVGLT
Retrocopy AKPVVSQPSPSISQLSASKSEVLKHS*VTQSKKEQ>CFMCRNKVGLT

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_1050 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 14 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000002366	2 retrocopies	retro_chof_1050 , retro_chof_1846,
Choloepus hoffmanni	ENSCHOG00000009491	2 retrocopies	retro_chof_1516, retro_chof_2072,
Cavia porcellus	ENSCPOG00000005076	2 retrocopies	retro_cpor_1398, retro_cpor_774,
Felis catus	ENSFCAG00000027317	1 retrocopy	retro_fcat_641,
Homo sapiens	ENSG00000107372	1 retrocopy	retro_hsap_2063,
Gorilla gorilla	ENSGGOG00000008957	1 retrocopy	retro_ggor_1485,
Myotis lucifugus	ENSMLUG00000007173	2 retrocopies	retro_mluc_1233, retro_mluc_1993,
Monodelphis domestica	ENSMODG00000004426	1 retrocopy	retro_mdom_1910,
Mustela putorius furo	ENSMPUG00000008951	1 retrocopy	retro_mputfur_143,
Mus musculus	ENSMUSG00000024750	1 retrocopy	retro_mmus_1176,
Oryctolagus cuniculus	ENSOCUG00000000795	1 retrocopy	retro_ocun_1546,
Procavia capensis	ENSPCAG00000007436	1 retrocopy	retro_pcap_112,
Pongo abelii	ENSPPYG00000019290	1 retrocopy	retro_pabe_1676,
Vicugna pacos	ENSVPAG00000000700	1 retrocopy	retro_vpac_23,