RetrogeneDB ID: retro_chof_873

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_159553:1378..1785(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SRD5A1
• Ensembl ID: ENSCHOG00000005509
• Aliases: None
• Description: steroid-5-alpha-reductase, alpha polypeptide 1 (3-oxo-5 alpha-steroid delta 4-dehydrogenase alpha 1) [Source:HGNC Symbol;Acc:11284]

Sequence

>retro_chof_873
TCCTTGCTTTTCCCATTTCTGATTCGAGGAGGAAAAACCAACGCCGTTCCATTTGTGGACTTTGGCATTCATATTCTGTA
CCTTTAATGGCTACGTGCAAAGCAGACACTTGAGCCAGTATGTGCTGTATGATGAAGACTGGGTAACCGAGCCGTTTTCT
AACAAGTTTTGTTTTGTGGTTAACGGGCATGCTGATAAACATCCATTCGGACCATATCAGAAAACCAGGTGAGACTGGAT
ACAAAATACCAAGGGGAGGCTTATTTGAATATATAACTGAAGTCAACTATTTTGAAGAAATAGTTGAGCGGCCTGACTTT
GCGCTTGCCAGCTGGTCCATTCGTGGCATGGCTTTTGCTCTTTTCACATTTTGTGTTTCATTCAATAGAGCAAAACAGCA
TCACCAG

Alignment

ORF - retro_chof_873 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.65 %
• Parental protein coverage: 86.96 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SLIFPFLIRGGK-PMPLYSWTLAFVFCAFNGYLQGRYLSQYAVYDEDWVTDPRFLTGF-ILWLTGMLINI
          SL.FPFLIRGGK.P.P...WTLAF.FC.FNGY.Q.R.LSQY..YDEDWVT.P.F...F..LWLTGMLINI
Retrocopy SLLFPFLIRGGK>PTPFHLWTLAFIFCTFNGYVQSRHLSQYVLYDEDWVTEP-FSNKF>VLWLTGMLINI

Parental  HSDHILRNLRKPGETGYKIPRGGLFEYITAANYFGEIIEWCGFALASWSIQGLAFALFTFCFLFSRAKQH
          HSDHI....RKPGETGYKIPRGGLFEYIT..NYF.EI.E...FALASWSI.G.AFALFTFC..F.RAKQH
Retrocopy HSDHI----RKPGETGYKIPRGGLFEYITEVNYFEEIVERPDFALASWSIRGMAFALFTFCVSFNRAKQH

Parental  HQ
          HQ
Retrocopy HQ

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_873 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000005509	1 retrocopy	retro_chof_873 ,
Homo sapiens	ENSG00000145545	1 retrocopy	retro_hsap_4763,
Gorilla gorilla	ENSGGOG00000016593	1 retrocopy	retro_ggor_2967,
Nomascus leucogenys	ENSNLEG00000011414	1 retrocopy	retro_nleu_2347,
Pongo abelii	ENSPPYG00000015333	1 retrocopy	retro_pabe_3708,
Tursiops truncatus	ENSTTRG00000012679	1 retrocopy	retro_ttru_1340,