RetrogeneDB ID: retro_chof_723

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_140062:411..794(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SNAPIN
• Ensembl ID: ENSCHOG00000003301
• Aliases: None
• Description: SNAP-associated protein [Source:HGNC Symbol;Acc:17145]

Sequence

>retro_chof_723
GCTCTGTCTGGGGCCGGGACCCAGGTGTCAGGGCCCATAGGCCACGACCTCTTCGCCAAGGAGCTCCTAGAGTTTCTGAG
ACTCGCTTTGCAACAACTCAACTCTCACATCCATGAGGTCAGAGAGAGCCAGGTAGAGCTTAAGGAACAAACTGACAACC
TAGCTACAGAGCTGTGCCGCATTAATGAAGACCAGAAGGTGGCCCTAGATCTCAATCCCTATGTGAAGAAGCTCCTTAAA
GCCTGGTGACAAGTTGTATTGGTCAACAACATTCTACAGAATGCCCAGTAACGGCTGAGACATCTACACCACAGAGGTGC
AAAGGAACACAGCCCACTGGGGCAATGCTGGATTGAATTAACCCATCTGGTTCCCGAAGCAAG

Alignment

ORF - retro_chof_723 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.64 %
• Parental protein coverage: 94.81 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AVSGAGTPVAGPTGRDLFAEGLLEFLRPAVQQLDSHVHSVRESQVELREQIDNLATELCHINEDQKVALD
          A.SGAGT.V.GP.G.DLFA..LLEFLR.A.QQL.SH.H.VRESQVEL.EQ.DNLATELC.INEDQKVALD
Retrocopy ALSGAGTQVSGPIGHDLFAKELLEFLRLALQQLNSHIHEVRESQVELKEQTDNLATELCRINEDQKVALD

Parental  LDPYVKKLLNARRRVVLVNNILQNAQERLRRLNHSVAKE-TVRTRAMLDSVYPPGSPSK
          L.PYVKKLL.A...VVLVNNILQNAQ.RLR.L.H..AKE.T..T.AMLD...P.GS.SK
Retrocopy LNPYVKKLLKAW*QVVLVNNILQNAQ*RLRHLHHRGAKE<TQPTGAMLD*INPSGSRSK

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_723 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 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000003301	1 retrocopy	retro_chof_723 ,
Callithrix jacchus	ENSCJAG00000010373	1 retrocopy	retro_cjac_742,
Dasypus novemcinctus	ENSDNOG00000015216	1 retrocopy	retro_dnov_1023,
Mus musculus	ENSMUSG00000001018	1 retrocopy	retro_mmus_1257,
Sorex araneus	ENSSARG00000013451	1 retrocopy	retro_sara_19,