RetrogeneDB ID: retro_chof_874

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_159766:881..1459(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CYB5R1
• Ensembl ID: ENSCHOG00000006457
• Aliases: None
• Description: cytochrome b5 reductase 1 [Source:HGNC Symbol;Acc:13397]

Sequence

>retro_chof_874
CTCATCGTTAAGCAGGTCATCAGCCGTGACACCCAGCGGTTCCGCTTCGCCCTCCCGGCGCCCCATCACGTCCTGGGCCT
CTCCATCGGCCAGCACATCTACCTCTCTGCTTGAATCAATGGCAATTTGGTCATCTGGCCCTACACACCCATCTCCAACA
AGACAACGAGGGCTTCAGGGACCTGGTCATCAAGGTTTACTTTAAAGACACCCATCCAAGTTTCCTGCTGGAGGGAAGAT
TCCCGGTGCCTGGAAAGCATGAATATTGGAGATACCATTGAATTCCAGGCCCGAACTGGCTACTGGTCTACCAGGGCAAA
GGAAAGTTTGCCATCTGTCCAGACAAGAAGTCCAGTTCCATAGTCAAGATGGTCAAGTCAGTCAGCATGATTGCAGGAGG
AAGGGGCATCACCCCAATGCTGCAGATGATCTGTGCCATCCTGAAGGACCTGGCCAACCACACCCTGTGCCACCTGCTCT
TCGCCAACCATACCAAGAAGGACATTCTGCTGCGGCCTGAGCTGGAGGAACTGAGTAATGAGCATTCCGCTTGCGTCAAG
CTCTGGTACATGGTAGAC

Alignment

ORF - retro_chof_874 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.57 %
• Parental protein coverage: 75.78 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  LLDKTTVSHNTKKFRFALPTAHHILGLPVGKHVYLSARIDGCLVIRPYTPVTS-DEDQGYVDLVIKVYLK
          L..K...S..T..FRFALP..HH.LGL..G.H.YLSA.I.G.LVI.PYTP........G..DLVIKVY.K
Retrocopy LIVKQVISRDTQRFRFALPAPHHVLGLSIGQHIYLSA*INGNLVIWPYTPISN<QDNEGFRDLVIKVYFK

Parental  GVHP-KFPEGGKM-SQYLNSLKIGDMVEFR-GPSGLLTYTGKGNFNIQPNKKSPPEPRMAKKLGMIAGGT
          ..HP.KFP.GGK..S..L.S..IGD..EF..GP..LL.Y.GKG.F.I.P.KKS.....M.K...MIAGG.
Retrocopy DTHP<KFPAGGKI<SRCLESMNIGDTIEFQ<GPNWLLVYQGKGKFAICPDKKSSSIVKMVKSVSMIAGGR

Parental  GITPMLQLIRAILKDPEDPTQCFLLFANQTEKDIILREDLEELQAQHPNRFKLWFTVD
          GITPMLQ.I.AILKD....T.C.LLFAN.T.KDI.LR..LEEL...H....KLW..VD
Retrocopy GITPMLQMICAILKDLANHTLCHLLFANHTKKDILLRPELEELSNEHSACVKLWYMVD

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_874 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000006457	1 retrocopy	retro_chof_874 ,