RetrogeneDB ID: retro_chof_496

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_1148:6824..7202(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ASF1A
• Ensembl ID: ENSCHOG00000013007
• Aliases: None
• Description: anti-silencing function 1A histone chaperone [Source:HGNC Symbol;Acc:20995]

Sequence

>retro_chof_496
GACTTGGGATGGAAAATTATCTATGTGGGCTCTGCAGAAAGTGAAGAATACGACCAAGTTTTAGACTCTGTTTTAGTGGG
TCCTGTTCCTGCAGGAAGGCATATGTTTGTATTTCAGGCTGATGCACCTAATCCAGAACTCATTCCAGATGCAGATGCAG
TAGGTGTAACAGTTGTGTTAATTATATGCACCTATCGAGGTCAAGAATTTATTAGAGTTGGCTATTATGTAAATAATGAA
TATACTGAGACAGAATTAAGGGAAAATCCGCCAGTAAAACCAGCCTTTTCTAAGCTTCAAAGGAATATTTCGGCATCTAA
TCCCAGAGTCACAAGATTCCACATTAATTGGGAAGATAACACAGAAAAACTGGAAGAT

Alignment

ORF - retro_chof_496 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.65 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DLEWKIIYVGSAESEEYDQVLDSVLVGPVPAGRHMFVFQADAPNPGLIPDADAVGVTVVLITCTYRGQEF
          DL.WKIIYVGSAESEEYDQVLDSVLVGPVPAGRHMFVFQADAPNP.LIPDADAVGVTVVLI.CTYRGQEF
Retrocopy DLGWKIIYVGSAESEEYDQVLDSVLVGPVPAGRHMFVFQADAPNPELIPDADAVGVTVVLIICTYRGQEF

Parental  IRVGYYVNNEYTETELRENPPVKPDFSKLQRNILASNPRVARFHINWEDNTEKREN
          IRVGYYVNNEYTETELRENPPVKP.FSKLQRNI.ASNPRV.RFHINWEDNTEK.E.
Retrocopy IRVGYYVNNEYTETELRENPPVKPAFSKLQRNISASNPRVTRFHINWEDNTEKLED

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_496 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.

---

Parental genes homology:

Parental genes homology involve 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000013007	1 retrocopy	retro_chof_496 ,
Felis catus	ENSFCAG00000023561	1 retrocopy	retro_fcat_1357,
Myotis lucifugus	ENSMLUG00000013053	1 retrocopy	retro_mluc_1410,
Otolemur garnettii	ENSOGAG00000034346	1 retrocopy	retro_ogar_2054,
Ochotona princeps	ENSOPRG00000004979	1 retrocopy	retro_opri_416,
Tupaia belangeri	ENSTBEG00000000592	2 retrocopies	retro_tbel_2900, retro_tbel_4175,