RetrogeneDB ID: retro_chof_1084

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_196159:2844..3276(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE2L6
• Ensembl ID: ENSCHOG00000001515
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2L 6 [Source:HGNC Symbol;Acc:12490]

Sequence

>retro_chof_1084
GAGCTGGAGGATCGTCAGAGGTCACCTCCCCAGTATCTGCAGAACATGTTCAGTGATGATGCCAATGTCTTGGTGTGGCA
CATGCTTCTCCTGCCTGATCAACCTCCCTACAACCGTAAGGCCTTCAGCCTGTGCATCATCCTCTCTTCAGATTATCCTT
TCAAGCCCCCCACAGTGAAATTCACAACCAAGATCTACCACCCCAACATGGACGAGAACAGAAAGATATGCCTGCCCATC
ATCAGCAATGAGAACTGCAAGCCTTGCACCAAGACCTGCCAAAACTTGGAGGCCCTCAACGGGCTGGTGAATAACCTGGA
GCTGGAGCAGCCCCTGCAGGTGGAACCTGCTGATCTGCTGACACAAAACCCAGAGCTATTCAAGAGGAATGCTGAAGAGT
TCACCCTCTGGTTTGGACTGGACCGGCCTTCC

Alignment

ORF - retro_chof_1084 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.33 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ELEDLQRSPPRYLRNLFSDDANVLVWHMLLLPDQPPYNLKAFSLCIIFPPDYPFKPPMLKFTTKIYHPNV
          ELED.QRSPP.YL.N.FSDDANVLVWHMLLLPDQPPYN.KAFSLCII...DYPFKPP..KFTTKIYHPN.
Retrocopy ELEDRQRSPPQYLQNMFSDDANVLVWHMLLLPDQPPYNRKAFSLCIILSSDYPFKPPTVKFTTKIYHPNM

Parental  DENGQVCLPIISNENWKPCTKTCQVLEALNGLVNKPELGQPLRVELADLLTQNPELFKKNAEEFTRQFGL
          DEN...CLPIISNEN.KPCTKTCQ.LEALNGLVN..EL.QPL.VE.ADLLTQNPELFK.NAEEFT..FGL
Retrocopy DENRKICLPIISNENCKPCTKTCQNLEALNGLVNNLELEQPLQVEPADLLTQNPELFKRNAEEFTLWFGL

Parental  DRPS
          DRPS
Retrocopy DRPS

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_1084 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 8 parental genes, and 32 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000014519	1 retrocopy	retro_amel_1385,
Choloepus hoffmanni	ENSCHOG00000001213	21 retrocopies	retro_chof_1091, retro_chof_1169, retro_chof_1465, retro_chof_1675, retro_chof_1731, retro_chof_2071, retro_chof_2089, retro_chof_2098, retro_chof_2101, retro_chof_2190, retro_chof_2266, retro_chof_2364, retro_chof_2481, retro_chof_2485, retro_chof_2514, retro_chof_2637, retro_chof_619, retro_chof_662, retro_chof_683, retro_chof_728, retro_chof_920,
Choloepus hoffmanni	ENSCHOG00000001515	1 retrocopy	retro_chof_1084 ,
Choloepus hoffmanni	ENSCHOG00000004649	2 retrocopies	retro_chof_2549, retro_chof_439,
Choloepus hoffmanni	ENSCHOG00000007325	3 retrocopies	retro_chof_1756, retro_chof_2077, retro_chof_2358,
Choloepus hoffmanni	ENSCHOG00000010341	2 retrocopies	retro_chof_1304, retro_chof_674,
Microcebus murinus	ENSMICG00000004882	1 retrocopy	retro_mmur_1295,
Mustela putorius furo	ENSMPUG00000000263	1 retrocopy	retro_mputfur_1092,