RetrogeneDB ID: retro_chof_792

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_14839:4349..4963(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCHOG00000003102
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000013237
• Aliases: None
• Description: None

Sequence

>retro_chof_792
ATGCATGGGACTTTGGAGAAAAAGCAAATTTTGCAATAATATGACAGTAAAGTATGATTTGAGCTTCGAGAAAGAAATAT
TGGGTTGCAGAAGGTGAGGTGCTGACTGAGCTAAGGGCCTTGGTGAAAGTAGCTGGGGAGGAATGCCCTACTTTCACCCC
ACCCAGAGGAGAGATGTTGGACCAGGTGAAAATGCATGGAAAAGACTTTTTTGAAAATCTTTGTCAATTGATCCTGGAAG
AAGCAGGTCAAAACGAACAGTTCTCACAAGGTGCACCAGGCAACTCTCTGGAAACTTCTTTAGCAGAAATATTTCCTTTA
GCAAAAACCTTGGATCCAAATTTAATTCAAATGGTAGTACTATGGGATTAGTAGACAGTGTCTTCTTGGTGAGTCCATAG
AGCTTATATGAGAAGCCTGTTTGATTATTTTCTGACTGACCTTAAGTGTTCCTTTCCAGCAACTGTGAGCAAGTCTGAGA
TTGCACCAGTCAGTCCCAATAAAGGGATTAGTCTCTTTATCATAAATCTGGAGGAAGGAAAAGAAGGTAAACCCACAGTT
AAGCATGTTTATATGATCCTAAAGGAGCATCTAAACAGAGTGACTGAAACCCAC

Alignment

ORF - retro_chof_792 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.38 %
• Parental protein coverage: 75.93 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  MHGILEK-SKLCNNMTVKYDS-KLRER-KYGVAEGKALTELRTLAKIAGEECPTFTPPGGETLDQVKMRG
          MHG.LEK.SK.CNNMTVKYD...LRER.KY.VAEG..LTELR.L.K.AGEECPTFTPP.GE.LDQVKM.G
Retrocopy MHGTLEK>SKFCNNMTVKYDL<ELRER<KYWVAEGEVLTELRALVKVAGEECPTFTPPRGEMLDQVKMHG

Parental  KVFFENLCQLILEEADQKEQFSQGAPGNSLETSLAEIFPLAK-NLRSEFNSNGSTPGLAASVLVVS-HGA
          K.FFENLCQLILEEA.Q.EQFSQGAPGNSLETSLAEIFPLAK.NL.S.FNSNGST.GL..SV..VS.H.A
Retrocopy KDFFENLCQLILEEAGQNEQFSQGAPGNSLETSLAEIFPLAK<NLGSKFNSNGSTMGLVDSVFLVS>HRA

Parental  YMRSLFDYFLTDLKCSLPATVSKSEIASVSPNTGISLFIINLEEGKEGKPTVQCVCMNLKEHLNGVTETH
          YMRSLFDYFLTDLKCS.PATVSKSEIA.VSPN.GISLFIINLEEGKEGKPTV..V.M.LKEHLN.VTETH
Retrocopy YMRSLFDYFLTDLKCSFPATVSKSEIAPVSPNKGISLFIINLEEGKEGKPTVKHVYMILKEHLNRVTETH

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_792 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000013237	2 retrocopies	retro_chof_2605, retro_chof_792 ,
Mus musculus	ENSMUSG00000038028	1 retrocopy	retro_mmus_2365,
Tursiops truncatus	ENSTTRG00000016535	1 retrocopy	retro_ttru_1692,