RetrogeneDB ID: retro_chof_1628

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_34567:8491..9246(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GMPR2
• Ensembl ID: ENSCHOG00000001231
• Aliases: None
• Description: guanosine monophosphate reductase 2 [Source:HGNC Symbol;Acc:4377]

Sequence

>retro_chof_1628
ACCATCTGGCAGCCAGCTCAGGCACGAGTTCTTCTGACTTTGAGCAGCTGGAACAAATCCTGGAAGCTATTCCTCAGGTG
AAATATGTATGCCTGGATGTGGCAAATGGCTACTCTGAACACTTTGTTAAATGTGCAAAGGATGTGCAGAAGCATTTCCC
CCAACACACCATCATGGCAGGGAATGTGGTAACAGAAGAGATGGTGGAAGAACTGATCCTCTCAGGGGCTGACATCATCA
AAGTGGGAATTGGGCCAGGCTCTGTGTGTACCACCCGAAAGAAAACTGGAGTGGGGTATCTGCAGCTCAGTGCAGTAACG
GAGCATGCAGATGCTGCTCATGGTCTCTAAGGCCACATCATCTCAGATGGAGGCTGCAGCTGTCCTGGGGATGTGGCCGA
GGCTTTTGGAGCAGGGGCTGACTTTGTGATGCTGGGTGGCATGCTGGCTGGGCACAGCAAGTCAGGTGGTGAGCTCATTG
AGAGGGATGGCAAGAAGTACAAGCTGTTCTACAGAATGAGTTCTGAAATGGCTATGAAGAAGTGTGCTGGGGGCGTGGCT
GAGTACAGGGCCTCAGAGGGCAAGACAGTGGAGGTTCCCTTTAAAGGAAATGTGGAACACACCATCCGAGACATCCTTGG
AGGGATTTGCTCCACATGTACCTACGTCGGAGCAGCTAAGCTAAAGGAGTTGAGCTGGAGAACTACCTTCATCCATGTCA
CCCAGCAGGTGAACCCGATCTTCAATGATGACAAA

Alignment

ORF - retro_chof_1628 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.33 %
• Parental protein coverage: 72.05 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SIWQPAQA-VLLTLSSWKRSWKLF-PR-KYICLDVANGYSEHFVECVKEVRKRFPQHTIMAGNVVTGEMV
          .IWQPAQA.VLLTLSSW..SWKLF.P..KY.CLDVANGYSEHFV.C.K.V.K.FPQHTIMAGNVVT.EMV
Retrocopy TIWQPAQARVLLTLSSWNKSWKLF<PQVKYVCLDVANGYSEHFVKCAKDVQKHFPQHTIMAGNVVTEEMV

Parental  EELILSGADIIKVGIGPGSVCTTRKKTGVGYPQLSAVMECADAAHGLKGHIISDGGCSCPGDVAKAFGAG
          EELILSGADIIKVGIGPGSVCTTRKKTGVGY.QLSAV.E.ADAAHGL.GHIISDGGCSCPGDVA.AFGAG
Retrocopy EELILSGADIIKVGIGPGSVCTTRKKTGVGYLQLSAVTEHADAAHGL*GHIISDGGCSCPGDVAEAFGAG

Parental  ADFVMLGGMLAGHSESGGELIERDGKKYKLFYGMSSEMAMNKYAGGVAEYRASEGKTVEVPFKGDVEHTI
          ADFVMLGGMLAGHS.SGGELIERDGKKYKLFY.MSSEMAM.K.AGGVAEYRASEGKTVEVPFKG.VEHTI
Retrocopy ADFVMLGGMLAGHSKSGGELIERDGKKYKLFYRMSSEMAMKKCAGGVAEYRASEGKTVEVPFKGNVEHTI

Parental  RDILGGIRSTCTYVGAAKLKELSRRTTFIRVTQQVNPIFNDDK
          RDILGGI.STCTYVGAAKLKELS.RTTFI.VTQQVNPIFNDDK
Retrocopy RDILGGICSTCTYVGAAKLKELSWRTTFIHVTQQVNPIFNDDK

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_1628 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001231	1 retrocopy	retro_chof_1628 ,
Echinops telfairi	ENSETEG00000018395	1 retrocopy	retro_etel_373,
Microcebus murinus	ENSMICG00000001736	1 retrocopy	retro_mmur_1510,
Ictidomys tridecemlineatus	ENSSTOG00000002336	1 retrocopy	retro_itri_1331,