RetrogeneDB ID: retro_chof_2521

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_82301:3084..3821(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PFKFB2
• Ensembl ID: ENSCHOG00000012180
• Aliases: None
• Description: 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 2 [Source:HGNC Symbol;Acc:8873]

Sequence

>retro_chof_2521
GTAACCAGCTATCCCACAGTGATTATCATGGTGGGTCTCCCAGACCAGGGGAAGACCTACATCTCCAAGAAGTTGACCCA
CTACCTCAACTGGATTGGCATCCCAACAAGTGTTCAATTTGGGGGCATATTGCTGGGAGGCCGTGAAGTAGTGCAGCTCC
TACAACTTCTTTTGCCCTGACAAGAAGAGGTTATAAAAATCCAAAAGCAAAGTGCCTTAGCTGCCTTCAGAGATGTCAAA
ATGTACCTGAGGCAGTAAGGGGGTCGAACTGCAGTTTTTGGTGCCACCAATACAACGAGAGAGAGGAGACACATGATCCT
TCACTTTGCCAAAGAAAATGACTTCAAGGTATTTTTCATTGAATCTATGTGTGACAACCCTACAGTGGTAACTTCTAACA
TCAGGAAAGTGAAACTCTCTAGCCTGCATTACAAACATCACAACTAACAGAAGACATGGAAGACTTCATGAAGAGGGCTA
ATTGCTATGAAGCCAACTATCAGCCCCTTGACCCAGATAAACGTGACAGGGACTTGTCAATAATCAAGGTGATCGATAAT
GGCTGGAGGTTCTTGGTGAACAAAGTCCAGGACCACATCCAGAGCTGAATTGTGTACTACCTGATGAACATCCACGTGTA
GCCCAGCACCATCTACTTGTGTCGGCATGGAGAGAGTAAGTACAACATCCAAGAGAAGATTGGAGGGGACTCTGGCCTGT
ACAGCAGGGGAAAGAAG

Alignment

ORF - retro_chof_2521 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.54 %
• Parental protein coverage: 60.99 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MTNSPTLIVMIGLPARGKTYVSKKLTRYLNWIGV-PTK-VFNLGVYRREAVKSYKSYDFFRHDN-EEAMK
          .T..PT.I.M.GLP..GKTY.SKKLT.YLNWIG..P.K.VFNLG.Y..EAVK...SY.FF..D..EE..K
Retrocopy VTSYPTVIIMVGLPDQGKTYISKKLTHYLNWIGI<PNK<VFNLGAYCWEAVK*CSSYNFFCPDK<EEVIK

Parental  IRKQCALVALEDVKAYLTEESGQIAVFDATNTTRERRDMILNFAKDNSFKVFFVESVCDDPDVIAANILE
          I.KQ.AL.A..DVK.YL....G..AVF.ATNTTRERR.MIL.FAK.N.FKVFF.ES.CD.P.V...NI..
Retrocopy IQKQSALAAFRDVKMYLRQ*GGRTAVFGATNTTRERRHMILHFAKENDFKVFFIESMCDNPTVVTSNIRK

Parental  VKVSSPDYPERNRENV-MEDFLKRIECYKVTYQPLDPDNYDKDLSFIKVINVGQRFLVNRVQDYIQSKIV
          VK.SS..Y...N.....MEDF.KR..CY...YQPLDPD..D.DLS.IKVI..G.RFLVN.VQD.IQS.IV
Retrocopy VKLSSLHYKHHN*QKT<MEDFMKRANCYEANYQPLDPDKRDRDLSIIKVIDNGWRFLVNKVQDHIQS*IV

Parental  YYLMNIHVQPRTIYLCRHGESEFNILGKIGGDSGLSVRGKQ
          YYLMNIHV.P.TIYLCRHGES..NI..KIGGDSGL..RGK.
Retrocopy YYLMNIHV*PSTIYLCRHGESKYNIQEKIGGDSGLYSRGKK

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_2521 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012180	1 retrocopy	retro_chof_2521 ,