RetrogeneDB ID: retro_chof_2046

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_46583:553..988(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NTAN1
• Ensembl ID: ENSCHOG00000011818
• Aliases: None
• Description: N-terminal asparagine amidase [Source:HGNC Symbol;Acc:29909]

Sequence

>retro_chof_2046
GAAAGAGCCAGACTTCTCAGAGGTCCAACTGTTCAACAAGTGGGACCCCAGGGCTTCTGTATGTCAGCAAAGAGAGCTTG
CAGTGACCTCCCCAAAAGGATGGCTCCATCTCCATTCTGGGTTCTGATGATGCCACCACTTGTCACATTGTGGTCCTGAG
GCACACAGGTAATGGGGCTACCTACTTGACACATTGTGATGAAACTGACACCAGAGCTGAGGTCCCCTTGATCGTGAACT
CCATGAAGTCATTTTCCAATCACACTCAATGTGGAAGGCTGAAAGTACACCTCATGGGAGGCTTCAGTGACGATAGGCAG
TTGGCACAAAAACTTAACTCATCAAATTCTTAGTGAATTCGACAGGCAAGAACATGATATTCACTTGGTGACATTATGTG
TGACAGAATTAAAAGACCAAGAAGAAAATGAAAAA

Alignment

ORF - retro_chof_2046 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.92 %
• Parental protein coverage: 51.24 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  ERARLLRGQSVQQVGPQG-LLYV-QQRELAVTSP-KDGSISILGSDDATTCHIVVLRHTGNGATCLTHCD
          ERARLLRG..VQQVGPQG.LLYV.QQRELAVTSP.KDGSISILGSDDATTCHIVVLRHTGNGAT.LTHCD
Retrocopy ERARLLRGPTVQQVGPQG<LLYV<QQRELAVTSP>KDGSISILGSDDATTCHIVVLRHTGNGATYLTHCD

Parental  GTDTKAEVPLIMNSIKSFSNHTQCGRLEVHLVGGFSDDRQLSQK-LTHQLLSEFDRQEDDIHLVTLCVTE
          .TDT.AEVPLI.NS.KSFSNHTQCGRL.VHL.GGFSDDRQL.QK.LTHQ.LSEFDRQE.DIHLVTLCVTE
Retrocopy ETDTRAEVPLIVNSMKSFSNHTQCGRLKVHLMGGFSDDRQLAQK>LTHQILSEFDRQEHDIHLVTLCVTE

Parental  LNDREENEK
          L.D.EENEK
Retrocopy LKDQEENEK

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_2046 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 10 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000003857	1 retrocopy	retro_acar_62,
Choloepus hoffmanni	ENSCHOG00000011818	3 retrocopies	retro_chof_1148, retro_chof_1591, retro_chof_2046 ,
Dasypus novemcinctus	ENSDNOG00000016017	5 retrocopies	retro_dnov_1068, retro_dnov_1159, retro_dnov_129, retro_dnov_874, retro_dnov_97,
Echinops telfairi	ENSETEG00000014054	1 retrocopy	retro_etel_1914,
Microcebus murinus	ENSMICG00000014995	2 retrocopies	retro_mmur_1479, retro_mmur_959,
Myotis lucifugus	ENSMLUG00000003455	1 retrocopy	retro_mluc_1398,
Mustela putorius furo	ENSMPUG00000014327	1 retrocopy	retro_mputfur_762,
Otolemur garnettii	ENSOGAG00000002538	2 retrocopies	retro_ogar_706, retro_ogar_78,
Pteropus vampyrus	ENSPVAG00000002982	1 retrocopy	retro_pvam_626,
Tupaia belangeri	ENSTBEG00000014096	2 retrocopies	retro_tbel_3921, retro_tbel_905,