RetrogeneDB ID: retro_chof_8

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_188074:1087..1810(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCHOG00000006088
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSCHOG00000007262
• Aliases: None
• Description: None

Sequence

>retro_chof_8
CCTCTTACTGAGGAAGAAATTGTTGACCTAAGAGAGAGGCATTATGATTCTATTGCTGAAAAACAGAAAAATCTTGATAT
GAAAATTCAAAAAGAGTTAGCCTTACAAGAAGAGAAGTTAAGACTAGAAGAAGAAGCTTTATACGCTGCACAGCGTGAAG
CAGCCAGGGCAGCAAAGCAGCGAAAGCTCTTGGAGCAAGAGAAGCAGAGGTTTGTGCAGCGATACCATCCTTCCAACAAA
GGAGAATATCAAAGTTCTGGACCAGAAGATGACTTTGAGTCTTGTTTGAGAAATGTAAAGTCACAGTATGAAGTTTTTCG
AAATAGTAGACTCTCATCAGATGCTACAGTTTTGACGCCAAATACAGAAAGCAGTTGTGACTTAATGACCAAAACTAAAT
CAACTAGTGGAAATGATGACAGCACATCCTTAGATCTAGAGTGGGAAGATGAAGAAGGCATGAATAGAATGCTTCCAATG
AGAGAACGTTCCAAAACAGAGGAAGATATTCTCCGTGCAGCACTTAAGTATAGCAGCAAGAAGACTGGAAGTAATCCTAC
CTCAGCCTCTGATGATTCCAATGGGCTGGAGTGGGAGAATGATTTTGTTAGTGCTGAAATGGATGATAATGGCAATTCTG
AGTATTCTGGATTTGTAAATCCTGTATTAGAACTGTCTGATTCTGGCATAAAGCAATCTGATATAAATCAAAATAATCGG
TAG

Alignment

ORF - retro_chof_8 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.7 %
• Parental protein coverage: 79.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PLTEEEIVDLRERHYDSIAEKQKNLDMKIQKELALQEEKLRLEEEALYAAQREAARAAKQRKLLEQEKQR
          PLTEEEIVDLRERHYDSIAEKQKNLDMKIQKELALQEEKLRLEEEALYAAQREAARAAKQRKLLEQEKQR
Retrocopy PLTEEEIVDLRERHYDSIAEKQKNLDMKIQKELALQEEKLRLEEEALYAAQREAARAAKQRKLLEQEKQR

Parental  FVQRYHPSNKGEYQSSGPEDDFESCLRNVKSQYEVFRNSRLSSDATVLTPNTESSCDLMTKTKSTSGNDD
          FVQRYHPSNKGEYQSSGPEDDFESCLRNVKSQYEVFRNSRLSSDATVLTPNTESSCDLMTKTKSTSGNDD
Retrocopy FVQRYHPSNKGEYQSSGPEDDFESCLRNVKSQYEVFRNSRLSSDATVLTPNTESSCDLMTKTKSTSGNDD

Parental  STSLDLEWEDEEGINRLLPMREHPKTEEDILFAVLKCSSKKTGNNSNSASDDSNGLEWENDFVSAEM-DN
          STSLDLEWEDEEG.NR.LPMRE..KTEEDIL.A.LK.SSKKTG.N..SASDDSNGLEWENDFVSAEM.DN
Retrocopy STSLDLEWEDEEGMNRMLPMRERSKTEEDILRAALKYSSKKTGSNPTSASDDSNGLEWENDFVSAEMDDN

Parental  GNSEYSGFVNPVLELSDSGIKQPGTDQN
          GNSEYSGFVNPVLELSDSGIKQ....QN
Retrocopy GNSEYSGFVNPVLELSDSGIKQSDINQN

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_8 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 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007262	2 retrocopies	retro_chof_1995, retro_chof_8 ,
Monodelphis domestica	ENSMODG00000005746	1 retrocopy	retro_mdom_160,
Oryctolagus cuniculus	ENSOCUG00000004413	1 retrocopy	retro_ocun_91,
Otolemur garnettii	ENSOGAG00000001631	1 retrocopy	retro_ogar_1054,
Sus scrofa	ENSSSCG00000009128	1 retrocopy	retro_sscr_245,