RetrogeneDB ID: retro_chof_1329

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_26452:7837..8973(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ETNPPL
• Ensembl ID: ENSCHOG00000012630
• Aliases: None
• Description: ethanolamine-phosphate phospho-lyase [Source:HGNC Symbol;Acc:14404]

Sequence

>retro_chof_1329
ATGTGCAAGTACTGCAGCAAGCAGGACACCCTGGCGCTAAGGAGGAAGCACATTGGACCCTCACGTAAAGTTTTCTTTGC
TGCGATCCCATCAAAATAGTGCAAGCCCAGAGGCAGTACATGTTTGTTGAGAAATATGAACAGTACTTGGACTGCATCAA
CAACGTTGCCCATGTGGGACACTGTCACCCTGAAGTGGTCAAAGCTGCCATGCAACAAATGGAACTGCTAAATACAAATT
CTCGATTTCTCCACGACAGCATAGTTGAGTATGCCAAACGCCTTTCAGCAACCCTGCCAGAGAAACTCTCTGTTTGCTAT
TTTACAAATCAGGCTCTGAAGCCAATGATTTAGCTTTACCCCTGGCTCGGCAGTACAGAGGCCACCAAGATGTGATCATT
CTCGACCATGTTTACCATGGTCACCTTTCATCTTTAATTGAGATCAGTCCTTATAAATTTCGAAGGGGCAAAGTTGTCAA
GAAAGGATTTGTACTTGTGGCACCAAATTCAGGTACTTACAGAGGAAAATGTAGAGAAGACCCTGCAGACCCAGCCACTG
CTTATGTAGATGAGGCAAAGAATATTATTGAAGAAGCTCATAAAAGTGGAAGAAAGATTGCTGCCTTTATTGCTGAGTCC
ATGCAGAGTTGTGGTGGACAAATAATTCCTCCAACAGGCTACTTCCAGAAAGTGGCAGAACACATCCACAGAGCAGAAGT
TGTGTTTATAGCTGATGAAGTTCAAGTAGGCTTTGGCCGAATTGGGAAATATTTCTGGAGCTTCCAAATGCATGGCGAAG
ACTTTGTTCCAGACATCGTCACAATGGGAAAACCAGTGAGCAATGGCCACTCAGTAGCATGTGTGGCAACAACCAGAGAA
GTTGCAGAGGCTTTCAGTAGCTCTGGGATGGAGTATTTCAGCGTGTATGGAGGAAATCTAGTATCTTGTGCTGCTGGCCT
GGCCTTGCTGGATATAATTGAAAATGAGGACCGTCAAGGAAGTGCCACACGTGTAGGGAATTACCTTATTGAGTTACCGG
ACAAGCAGAAGGCTAAACACACTTTGATAAGGAGATATCAGGGTTGTTGGCCTTTTTATTGGAATTGATTTAGTGAAGGA
CCAGCAGAAAAATTCC

Alignment

ORF - retro_chof_1329 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.08 %
• Parental protein coverage: 75.86 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MCELYSKQNTLALRRKHIGPSCKVFFAA-DPIKIVRAQRQYMFDEKDEQYLDCINNVAHVGHCHPEVVKA
          MC...SKQ.TLALRRKHIGPS.KVFFAA.DPIKIV.AQRQYMF.EK.EQYLDCINNVAHVGHCHPEVVKA
Retrocopy MCKYCSKQDTLALRRKHIGPSRKVFFAA<DPIKIVQAQRQYMFVEKYEQYLDCINNVAHVGHCHPEVVKA

Parental  AMKQMELLNTNSRFLHDSIVEYAKRLSATLPEKLSVCYFTN-SGSEANDLALRLARQYRGHQDVITLDHA
          AM.QMELLNTNSRFLHDSIVEYAKRLSATLPEKLSVCYFTN.SGSEANDLAL.LARQYRGHQDVI.LDH.
Retrocopy AMQQMELLNTNSRFLHDSIVEYAKRLSATLPEKLSVCYFTN<SGSEANDLALPLARQYRGHQDVIILDHV

Parental  YHGHLSSLIEISPYKFRKGKDVKKEFVHVAPNPDTYRGKYREDHADPATAYADEVKKIIEEAHKAGRKIA
          YHGHLSSLIEISPYKFR.GK.VKK.FV.VAPN..TYRGK.RED.ADPATAY.DE.K.IIEEAHK.GRKIA
Retrocopy YHGHLSSLIEISPYKFRRGKVVKKGFVLVAPNSGTYRGKCREDPADPATAYVDEAKNIIEEAHKSGRKIA

Parental  AFIAESMQSCGGQIIPPAGYFQKVAXXXHRAEGVFIADEVQVGLG-IGKQFWSFQMHGEDFVPDIVTMG-
          AFIAESMQSCGGQIIPP.GYFQKVA...HRAE.VFIADEVQVG.G.IGK.FWSFQMHGEDFVPDIVTMG.
Retrocopy AFIAESMQSCGGQIIPPTGYFQKVAEHIHRAEVVFIADEVQVGFGRIGKYFWSFQMHGEDFVPDIVTMGK

Parental  PMGNGHPMACVVTTKEIAEAFSSSGMEYFNTYGGNPVSCAVGLAVLDIIENEDLQGNATRVGNYLIELLN
          P..NGH..ACV.TT.E.AEAFSSSGMEYF..YGGN.VSCA.GLA.LDIIENED.QG.ATRVGNYLIEL..
Retrocopy PVSNGHSVACVATTREVAEAFSSSGMEYFSVYGGNLVSCAAGLALLDIIENEDRQGSATRVGNYLIELPD

Parental  KQKAKHILI-GDIRGVGLFIGIDLVKDEQKRT
          KQKAKH.LI.GDIR.VGLFIGIDLVKD.QK..
Retrocopy KQKAKHTLI>GDIRVVGLFIGIDLVKDQQKNS

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_1329 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012630	1 retrocopy	retro_chof_1329 ,
Microcebus murinus	ENSMICG00000002187	1 retrocopy	retro_mmur_566,