RetrogeneDB ID: retro_chof_2107

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_49733:4101..4715(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNLS
• Ensembl ID: ENSCHOG00000003060
• Aliases: None
• Description: renalase, FAD-dependent amine oxidase [Source:HGNC Symbol;Acc:25641]

Sequence

>retro_chof_2107
GGTGCAGAGATCTACTTCAGACAGCGTGTGACCCAGATCAACCTGAGAAACGATAAGTGAGACGTCTCCAAGGAGACAGC
CCCCCCTGAGCAGTCTGATCTTCTTGTCCTCACAATGCCAGTTCCTCAGATTCTGCAGCTTCAAGGTGACATCGTGAACT
TAATTAGTAACTGCCAAAGGCAGCAACTGAGTCTGTGAGCTACTCCTCTCGCTATGCTCTAGGCCTCTTTTATGAAGCTG
GCATGAAGATTGATGTCCCTTGGGCTGGGCAGTACATCACCAGTAATCCCTGCATATGTTTCATCTCCATTGATAATTAG
AAGTGCCATATAGAGCGTCAGAAATCTGACCTTCCCTCATGATTCACACCGCTGTTTCATTTGGAGGTGCATACTTGGAA
CACAAAATTGAGGATGTGCAGGAAGTAATCTTCTGGCAGCTGGAAAACATTTTGCCAGGTTTGCTTCAGCCAGTTGATAC
AAAATGCCAGAGATGGATACATTCACAGGTTACAAGTGCTGCTGCCAACTGTCCTGGCCAAATGACCTTCATAATAAACC
TTTCCTTCTGTGTGGAGGGGATGGATTTACTCAATACAACTTTATGGCTGCATA

Alignment

ORF - retro_chof_2107 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.76 %
• Parental protein coverage: 60.23 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  GAEIYFRQCVTQINLRNDKWEVSKETGPPEQFDLVVLTMPVPQILQLQGDIVNLINDCQRQQL-ESVSYS
          GAEIYFRQ.VTQINLRNDK..VSKET.PPEQ.DL.VLTMPVPQILQLQGDIVNLI..CQRQQL.ESVSYS
Retrocopy GAEIYFRQRVTQINLRNDK*DVSKETAPPEQSDLLVLTMPVPQILQLQGDIVNLISNCQRQQL<ESVSYS

Parental  SRYALGLFYEAGTKIDVPWAGQYISSNPCIRFISIDNKKRHIE-SSEIGPSLVIHTTVSFGVAYLEHKIE
          SRYALGLFYEAG.KIDVPWAGQYI.SNPCI.FISIDN.K.HIE..SEI.PSL.IHT.VSFG.AYLEHKIE
Retrocopy SRYALGLFYEAGMKIDVPWAGQYITSNPCICFISIDN*KCHIE<ASEI*PSLMIHTAVSFGGAYLEHKIE

Parental  DVQEVIIQQLENILPGLPQPVDTKCQRWRYSQVTSAAANCPGQMI-LHRKPFLVCGGDGFTQSNF-DGCI
          DVQEVI..QLENILPGL.QPVDTKCQRW..SQVTSAAANCPGQM..LH.KPFL.CGGDGFTQ.NF..GCI
Retrocopy DVQEVIFWQLENILPGLLQPVDTKCQRWIHSQVTSAAANCPGQMT<LHNKPFLLCGGDGFTQYNF<YGCI

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_2107 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	ENSCHOG00000003060	1 retrocopy	retro_chof_2107 ,