RetrogeneDB ID: retro_chof_2334

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_6671:11819..12116(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000003106
• Aliases: None
• Description: None

Sequence

>retro_chof_2334
TGGGAGCTCAGGCCGAGGGTCCTGGCCGGGAGCTGAGAGCTGCTGCGCACTTGGCACGCCCCGCGCATCTCTGCGACCTG
CTCAAAAAACTCGGCTGCCGGAGTCCGCGTGGACAAGGGGGTCAAGCTGGTGACACACGGGAAGGCACACGCACCATACT
ACATTGCCTACCGTAAGGACTAGCTGTCGCTGCACACAGGTAACCTGGATGAGGAGGACCACGCTGCACAGCGAGCAGTG
GAGGATGTCTTCCTTCGCAAATTCATGCTGGTTACCTTCCCGAGCCGCCTGGCCGAC

Alignment

ORF - retro_chof_2334 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.64 %
• Parental protein coverage: 62.03 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  WLLAPCALAGSRELLCAWRALHVSAARAKNRAARVRVGKGDKPVTHEEAHAPHYIAHRKGWLSLHTGNLD
          W.L.P..LAGS.ELL..W.A...SA...KN.AA.VRV.KG.K.VTH..AHAP.YIA.RK..LSLHTGNLD
Retrocopy WELRPRVLAGS*ELLRTWHAPRISATCSKNSAAGVRVDKGVKLVTHGKAHAPYYIAYRKD*LSLHTGNLD

Parental  GEDHAAD-TVEDVFLHKFLLGTIPGCLPD
          .EDHAA...VEDVFL.KF.L.T.P..L.D
Retrocopy EEDHAAQRAVEDVFLRKFMLVTFPSRLAD

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_2334 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 13 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017491	1 retrocopy	retro_amel_1126,
Bos taurus	ENSBTAG00000007398	1 retrocopy	retro_btau_411,
Choloepus hoffmanni	ENSCHOG00000003106	1 retrocopy	retro_chof_2334 ,
Dasypus novemcinctus	ENSDNOG00000016853	3 retrocopies	retro_dnov_1195, retro_dnov_153, retro_dnov_2049,
Echinops telfairi	ENSETEG00000016782	1 retrocopy	retro_etel_1350,
Homo sapiens	ENSG00000062582	1 retrocopy	retro_hsap_836,
Gorilla gorilla	ENSGGOG00000005692	1 retrocopy	retro_ggor_687,
Loxodonta africana	ENSLAFG00000011905	1 retrocopy	retro_lafr_426,
Macaca mulatta	ENSMMUG00000002405	1 retrocopy	retro_mmul_1089,
Monodelphis domestica	ENSMODG00000013889	1 retrocopy	retro_mdom_1785,
Pan troglodytes	ENSPTRG00000019127	1 retrocopy	retro_ptro_583,
Pteropus vampyrus	ENSPVAG00000015911	4 retrocopies	retro_pvam_1129, retro_pvam_1360, retro_pvam_180, retro_pvam_978,
Tursiops truncatus	ENSTTRG00000002938	1 retrocopy	retro_ttru_1860,