RetrogeneDB ID: retro_chof_46

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_455209:13..844(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSCHOG00000010945
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: CDK17
• Ensembl ID: ENSCHOG00000013679
• Aliases: None
• Description: cyclin-dependent kinase 17 [Source:HGNC Symbol;Acc:8750]

Sequence

>retro_chof_46
GGCACCTATGCCACTGTCTACAAAGGCAAAAGCAAGCTCACAGACAACCTTGTGGCACTCAAGGAGATCAGACTGGAACA
TGAAGAGGGGGCACCCTGTACTGCCATCCGAGAAGTGTCCCTGCTCAAGGACCTCAAACACGCCAACATCGTCACACTAC
ATGACATTATTCATACGGAGAAGTCCCTCACCCTTGTCTTTGAGTACCTGGACAAGGACCTGAAGCAGTACCTAGATGAC
TGTGGGAACGTCATCAACATGCACAACGTGAAACTGTTCCTGTTCCAGCTGCTCCGTGGCCTGGCCTACTGCCACCGGCA
GAAAGTGCTACACCGAGACCTCAAGCCCCAGAACCTGCTCATTAACGAGAGGGGAGAGCTCAAGCTGGCTGACTTTGGCC
TTGCTCGGGCCAAGTCAATTCCAACAAAGACATACTCCAATGAGGTGGTGACCCTGTGGTACCGACCCCCTGACATCCTG
CTTGGGTCCACAGACTACTCCACACAGATTGACATGTGGGGCGTGGGCTGCATCTTCTATGAGATGGCCACAGGCCGGCC
CCTCTTCCCGGGCTCCACAGTGGAGGAACAGCTGCACTTCATCTTCCGCATCTTGGGAACCCCAACTGAGGAGACATGGC
CAGGTATCCTGTCCAACGAGGAGTTCAAGACATATAACTACCCCAAGTACCGAGCCGAGGCCCTTTTGAGCCATGCACCC
CGACTTGACAGTGACGGAGCTGACCTCCTCACCAAGCTGCTACAGTTTGAGGGTCGCAATCGGATCTCTGCAGAGGACGC
CATGAAACATCCATTTTTCCTCAGTCTGGGG

Alignment

ORF - retro_chof_46 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.31 %
• Parental protein coverage: 52.96 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GTYATVYKGRSKLTENLVALKEIRLEHEEGAPCTAIREVSLLKDLKHANIVTLHDIVHTDKSLTLVFEYL
          GTYATVYKG.SKLT.NLVALKEIRLEHEEGAPCTAIREVSLLKDLKHANIVTLHDI.HT.KSLTLVFEYL
Retrocopy GTYATVYKGKSKLTDNLVALKEIRLEHEEGAPCTAIREVSLLKDLKHANIVTLHDIIHTEKSLTLVFEYL

Parental  DKDLKQYMDDCGNIMSMHNVKLFLYQILRGLAYCHRRKVLHRDLKPQNLLINEKGELKLADFGLARAKSV
          DKDLKQY.DDCGN...MHNVKLFL.Q.LRGLAYCHR.KVLHRDLKPQNLLINE.GELKLADFGLARAKS.
Retrocopy DKDLKQYLDDCGNVINMHNVKLFLFQLLRGLAYCHRQKVLHRDLKPQNLLINERGELKLADFGLARAKSI

Parental  PTKTYSNEVVTLWYRPPDVLLGSSEYSTQIDMWGVGCIFFEMASGRPLFPGSTVEDELHLIFRLLGTPSQ
          PTKTYSNEVVTLWYRPPD.LLGS..YSTQIDMWGVGCIF.EMA.GRPLFPGSTVE..LH.IFR.LGTP..
Retrocopy PTKTYSNEVVTLWYRPPDILLGSTDYSTQIDMWGVGCIFYEMATGRPLFPGSTVEEQLHFIFRILGTPTE

Parental  ETWPGVSSNDEFKNYNFPKYKPQPLINHAPRLDSEGIELITKFLQYESKKRVSAEEAMKHVYFRSLG
          ETWPG..SN.EFK.YN.PKY....L..HAPRLDS.G..L.TK.LQ.E...R.SAE.AMKH..F.SLG
Retrocopy ETWPGILSNEEFKTYNYPKYRAEALLSHAPRLDSDGADLLTKLLQFEGRNRISAEDAMKHPFFLSLG

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_46 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	ENSCHOG00000012973	1 retrocopy	retro_chof_2240,
Choloepus hoffmanni	ENSCHOG00000013679	1 retrocopy	retro_chof_46 ,