RetrogeneDB ID: retro_chof_682

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_134716:4343..4667(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SH3BGRL2
• Ensembl ID: ENSCHOG00000003858
• Aliases: None
• Description: SH3 domain binding glutamic acid-rich protein like 2 [Source:HGNC Symbol;Acc:15567]

Sequence

>retro_chof_682
ATGGTCAACCGCGTCTTCATTGCCTCTTCCTCCAGCTTTGTGGCGATAAAGAAGAAACAGCAGGATGTAGATAGATTTCT
GGAAGCCGACAAGATAGAATGTGAAGGGTTGGATATCAAAATGTCAGAAGAACACAGGCAATGGATGTTCAAAAACATCC
CTCTGGAAAAGAAGCCCACATGGGACAAACGTCTGCCACCTCAGATATTTAATGGCAACCGATACTGTGAAAATAATGAC
TTTTTTTTTTTTGAATCAAAGGAAACCAACACAGTCTTTTCATTCTTAGGTCTAAAACCACGTTTGGCATCAAAGGCAGA
ACCT

Alignment

ORF - retro_chof_682 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.93 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVIRVFIASSSGSVAIKKKQQDVVRFLEANKIEFEEVDITMSEEQRQWMYKNIPPEKKPTQGNPLPPQIF
          MV.RVFIASSS..VAIKKKQQDV.RFLEA.KIE.E..DI.MSEE.RQWM.KNIP.EKKPT....LPPQIF
Retrocopy MVNRVFIASSSSFVAIKKKQQDVDRFLEADKIECEGLDIKMSEEHRQWMFKNIPLEKKPTWDKRLPPQIF

Parental  NGDRYCGDYD-SFFESKESNTVYSFLGLKPRLASKAEP
          NG.RYC...D....ESKE.NTV.SFLGLKPRLASKAEP
Retrocopy NGNRYCENNDXXXXESKETNTVFSFLGLKPRLASKAEP

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_682 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003858	3 retrocopies	retro_chof_1669, retro_chof_2317, retro_chof_682 ,
Choloepus hoffmanni	ENSCHOG00000004130	1 retrocopy	retro_chof_647,
Macropus eugenii	ENSMEUG00000007073	1 retrocopy	retro_meug_78,
Tursiops truncatus	ENSTTRG00000017306	1 retrocopy	retro_ttru_141,