RetrogeneDB ID: retro_chof_1200

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_22357:7672..8098(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAMP2
• Ensembl ID: ENSCHOG00000003045
• Aliases: None
• Description: receptor (G protein-coupled) activity modifying protein 2 [Source:HGNC Symbol;Acc:9844]

Sequence

>retro_chof_1200
ATGATATATAAGCCCCAGAATCCCTGGCTCAACTTCTTCCCACCACAGGCATCTTGGAGTCAGAAGGGAAGATAGTGGAG
GAGAAGGATGAGACAGATGTCTATTTTGCTGGCTGAATTATAAGGCTTAACTGGACTCTATTCAAAAAGATTGGTGTGAC
TGAGCCCTGATCAGCAGGCCTTAGAGCACTCTGTGAGATTACTTGGAGCTGAATGCTGAAGAGTTTGACCAGGGCTTCCC
CACTCCCCGGGCAGAGACGATCATCTTTGGCACTCACCAGATCCACTTTGCCAACTGCTCCTCGGTGCACCCTATCTTCT
CTGGCCCCCCAGAGGATGTGCTCCTAACCATGATCATAGCCCCCATCAGCCTCCTACCCTTCCTCGTCACCCCTGTGTGT
GGGAGAGTCAAGAGAGTGAGGTCCAG

Alignment

ORF - retro_chof_1200 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.81 %
• Parental protein coverage: 80.79 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VVLKPQ-ESLAQPLPTPGILKSEGKTVEEEYKTYVQHS-WLHYKSYMDSIKKDWCDWAMISRPYSSLRDC
          ...KPQ.ESLAQ.LPT.GIL.SEGK.VEE...T.V....WL.YK...DSI.KDWCD.A.ISRP.S.L.D.
Retrocopy MIYKPQ<ESLAQLLPTTGILESEGKIVEEKDETDVYFA<WLNYKA*LDSIQKDWCD*ALISRP*STL*DY

Parental  LELNAEKFGLGFPNPWAERIIFDTHQIHFANCSLVQPTFSDPPEDVLLAMIIAPICLIPFLVTLV-VWRS
          LELNAE.F..GFP.P.AE.IIF.THQIHFANCS.V.P.FS.PPEDVLL.MIIAPI.L.PFLVT.V.VW.S
Retrocopy LELNAEEFDQGFPTPRAETIIFGTHQIHFANCSSVHPIFSGPPEDVLLTMIIAPISLLPFLVTPV<VWES

Parental  KDSEAQ
          ..SE.Q
Retrocopy QESEVQ

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_1200 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003045	1 retrocopy	retro_chof_1200 ,