RetrogeneDB ID: retro_chof_2665

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_95482:3360..3876(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCHOG00000007106
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ARMC10
• Ensembl ID: ENSCHOG00000002095
• Aliases: None
• Description: armadillo repeat containing 10 [Source:HGNC Symbol;Acc:21706]

Sequence

>retro_chof_2665
TCAGATGATACTATTTTGTGTCCTCAACAGCTGCAGAAAGTGCTTTGCTTGGTTGAAATGTCTGAAAAGCCTTATATTCT
TGAAGCAGCTTTAATTGCTCTGGGTAACAATGCTGCTTATGCATTTAACAGAGATGTTATTCGTGATCTGGGTGGCCTCC
CAATTGTTGCAAAGATTCTCAATACTCAGGATCCCATAGTTAAGGAAAAAGCTTTAATTGTTCTGAATAACTTGAGTGTG
AATGCTGAAAATCAGCGCAGGTTTAAGATATACATGAATCAAGTGTGTGATGACACAGTCACTTCTCGCTTGAACTCATC
TGTGCAGCTGGCTGGACTAAGATTGCTTACAGATATGACTGTTACTAATGAGTATCAGCACATGCTTGCTAATTCCATTT
CAGACTTTTTTCATTTATTTTCAGCGGGAAATGAAGAAACCAAACTTCAGGTTTTGAAACTCCTTTTGAATTTGGCTGAA
AATCCAGCCATGACTAGAAAACTGCTCAGGGCCCAA

Alignment

ORF - retro_chof_2665 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.47 %
• Parental protein coverage: 67.45 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SYDDVLNAEQLQKLLYLLESTEDPVIIERALVTLGNNAAFSANQAIIRELGGIPIVGNMINSPNHSIKEK
          S.D..L...QLQK.L.L.E..E.P.I.E.AL..LGNNAA...N...IR.LGG.PIV....N......KEK
Retrocopy SDDTILCPQQLQKVLCLVEMSEKPYILEAALIALGNNAAYAFNRDVIRDLGGLPIVAKILNTQDPIVKEK

Parental  ALNALNNLSVNVENQSKIKIYMNQVCEDVFSDPLNSAVQLAGLRLLTNMTVTNDYQHMLNSYLTDLFHVL
          AL..LNNLSVN.ENQ...KIYMNQVC.D.....LNS.VQLAGLRLLT.MTVTN.YQHML.....D.FH..
Retrocopy ALIVLNNLSVNAENQRRFKIYMNQVCDDTVTSRLNSSVQLAGLRLLTDMTVTNEYQHMLANSISDFFHLF

Parental  LIGNGSTKVQVLKLLVNLSENPAMTERLLSAQ
          ..GN..TK.QVLKLL.NL.ENPAMT..LL.AQ
Retrocopy SAGNEETKLQVLKLLLNLAENPAMTRKLLRAQ

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_2665 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 9 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000004247	1 retrocopy	retro_cfam_1264,
Choloepus hoffmanni	ENSCHOG00000002095	1 retrocopy	retro_chof_2665 ,
Callithrix jacchus	ENSCJAG00000021208	2 retrocopies	retro_cjac_1758, retro_cjac_2104,
Cavia porcellus	ENSCPOG00000019936	1 retrocopy	retro_cpor_1022,
Homo sapiens	ENSG00000170632	1 retrocopy	retro_hsap_2815,
Microcebus murinus	ENSMICG00000010160	1 retrocopy	retro_mmur_638,
Myotis lucifugus	ENSMLUG00000006088	3 retrocopies	retro_mluc_1587, retro_mluc_1825, retro_mluc_624,
Mus musculus	ENSMUSG00000038525	3 retrocopies	retro_mmus_1292, retro_mmus_2256, retro_mmus_969,
Vicugna pacos	ENSVPAG00000008914	1 retrocopy	retro_vpac_19,