RetrogeneDB ID: retro_chof_2354

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_67720:2989..3467(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE2Z
• Ensembl ID: ENSCHOG00000013754
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2Z [Source:HGNC Symbol;Acc:25847]

Sequence

>retro_chof_2354
TGGACTGGCCCCACCTGGAGTCCAGCCCACGGCATCCCTTCTGTGCTCATCTCCATTCAGCCCCTCATGACTGAGAACCC
CTATCACAATGAGCCTGGCTCCAAACAGGAGAGAGATCCAGGAGAATGCAAAAACTACAATGAATGTATCTGACACACCA
TCAGAGTGGCGGGCAGTCTGTGACCTGATGGAAGGAAAGTTCCCTGCCCTGAACCACTATGGTGGGTGACGGAGAAGTCC
TTCCTGGAGTATTATGACTTCTATGAGGTGGCTTGCAAAGATCTCCTACATCTTCAAGACCAGACAATGAAGGACCCTTT
TGGAGAGAATCAGGGCCACTTTGACTATGAGCCCTTCTTGATGTGTCTGGAATGATTCTTCCAAGAGTGCTGGAGAAGCT
CCATAAAGAGGACCCCGAAATGGACTTTGATAGCAGCTCCTGGGGACAGAGACAGATTTGCACAGAAGACTGAGCATT

Alignment

ORF - retro_chof_2354 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.55 %
• Parental protein coverage: 64.52 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  WTGPAWSPAQSISSVLISIQSLMTENPYHNEPGFEQERHPGDSKNYNECIRHETIRVAVCDMMEG-KCPC
          WTGP.WSPA..I.SVLISIQ.LMTENPYHNEPG..QER.PG..KNYNECI.H.TIRVA......G.K.PC
Retrocopy WTGPTWSPAHGIPSVLISIQPLMTENPYHNEPGSKQERDPGECKNYNECI*H-TIRVAGSL*PDGRKVPC

Parental  PEPLRGVMEKSFLEYYDFYEVACKDRLHLQGQTMQDPFGEKRGHFDYQSLLMRL-GLIRQKVLERLHNEN
          PEPL..V.EKSFLEYYDFYEVACKD.LHLQ.QTM.DPFGE..GHFDY...LM.L.G.I...VLE.LH.E.
Retrocopy PEPLWWVTEKSFLEYYDFYEVACKDLLHLQDQTMKDPFGENQGHFDYEPFLMCL<GMILPRVLEKLHKED

Parental  AEMDSDSSS-SGTETDLHGSLRV
          .EMD.DSSS..GTETDLH..L..
Retrocopy PEMDFDSSS<LGTETDLHRRLSI

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_2354 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000013754	1 retrocopy	retro_chof_2354 ,
Monodelphis domestica	ENSMODG00000012285	1 retrocopy	retro_mdom_839,
Mustela putorius furo	ENSMPUG00000015342	1 retrocopy	retro_mputfur_342,