RetrogeneDB ID:

retro_chof_76

Retrocopy
location
Organism:Sloth (Choloepus hoffmanni)
Coordinates:GeneScaffold_1440:16904..17185(+)
Located in intron of:ENSCHOG00000001932
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:LAMTOR5
Ensembl ID:ENSCHOG00000013405
Aliases:None
Description:late endosomal/lysosomal adaptor, MAPK and MTOR activator 5 [Source:HGNC Symbol;Acc:17955]


Retrocopy-Parental alignment summary:






>retro_chof_76
GGCAGGATGGCAGAGACCTTGGTGCAACAAATTGGAGGACAAGATGAAGAATCTATCCATTATTGGAGTCCTAGGCAAAG
ATTCACAGGGACTTAATCTGGGCTGCCATGGGGACCTTGTCAGATAAGCATGTTGGAGTAATATCTGTTTTAGTCCAGTC
AACAATTAAGCTAACGTCTGTCCCCACTGATATTCCTGTGATATATCTAGAATCAGATAATGTGACCATTATGATCCAGA
AACAGGATGGCATCACAATGGCAGTGCTCCAAATAGCCTCT

ORF - retro_chof_76 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 70.53 %
Parental protein coverage: 61.18 %
Number of stop codons detected: 0
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalGGMEETLEQH-LEDTMKNPSIVGVLCTDSQGLNLGCRG-TLSDEHAGVISVLAQQAAKLTSDPTDIPVVC
G.M.ETL.Q..LED.MKN.SI.GVL..DSQGLNLGC.G.TLSD.H.GVISVL.Q...KLTS.PTDIPV..
RetrocopyGRMAETLVQQ>LEDKMKNLSIIGVLGKDSQGLNLGCHG>TLSDKHVGVISVLVQSTIKLTSVPTDIPVIY
ParentalLESDNGNIMIQKHDGITVAVHKMAS
LESDN..IMIQK.DGIT.AV...AS
RetrocopyLESDNVTIMIQKQDGITMAVLQIAS

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Choloepus hoffmanni was not studied using RNA-Seq expression data.
Choloepus hoffmanni was not studied using ChIP-Seq data.
Choloepus hoffmanni was not studied using EST data.
Choloepus hoffmanni was not studied using FANTOM5 data.
retro_chof_76 was not experimentally validated.

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 18 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000115042 retrocopies
Bos taurus ENSBTAG000000149703 retrocopies
Choloepus hoffmanni ENSCHOG00000013405 3 retrocopies
retro_chof_2428, retro_chof_76 , retro_chof_910,
Macaca mulatta ENSMMUG000000150234 retrocopies
Sus scrofa ENSSSCG000000068071 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000034015 retrocopies



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