RetrogeneDB ID: retro_chof_1591

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_33295:9659..10112(+)
• 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_1591
GGCTCCATCTCCATTCTGGGTTCTGATGATGCCACCACTTGTCACACTGTGGTCCTGAGGCACACAGGTAATGGGGCTAC
CTGCTTGACACACTGTAATGGAACCGACACCAAAGCTGAGGTCCCCTTGATCATGAACTCCATAAAATCCTTTTCCAACC
ACACTTAATGTGGAAGGCTGGAAGTACACCTCGTGGGAGGCTTCAGTGATGATAGGCAGTTGTCACAAAAACTTACTCAT
CAACTTCTTAGTGAATTCGACAGACAAGATGATATTCACTTGGTGACATTATGTGTGACAGAATTAAATGACCGAGAAGA
AAATGAAATACACTTTCCAATAATTTATGGCATTGCTGTCAACATTAAAAGTGCAGAGATTTACAGAGCCTCCTTTCAAG
ATGAAGGTCCAGAGGAGGAGCTGTGTGCTGCGTGAGCTCTAACAGGAGGACCT

Alignment

ORF - retro_chof_1591 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.42 %
• Parental protein coverage: 53.71 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GSISILGSDDATTCHIVVLRHTGNGATCLTHCDGTDTKAEVPLIMNSIKSFSNHTQCGRLEVHLVGGFSD
          GSISILGSDDATTCH.VVLRHTGNGATCLTHC.GTDTKAEVPLIMNSIKSFSNHT.CGRLEVHLVGGFSD
Retrocopy GSISILGSDDATTCHTVVLRHTGNGATCLTHCNGTDTKAEVPLIMNSIKSFSNHT*CGRLEVHLVGGFSD

Parental  DRQLSQKLTHQLLSEFDRQEDDIHLVTLCVTELNDREENEKHFPIIYGIAVNIKTAEIYRASFQDRGPEE
          DRQLSQKLTHQLLSEFDRQ.DDIHLVTLCVTELNDREENE.HFPIIYGIAVNIK.AEIYRASFQD.GPEE
Retrocopy DRQLSQKLTHQLLSEFDRQ-DDIHLVTLCVTELNDREENEIHFPIIYGIAVNIKSAEIYRASFQDEGPEE

Parental  ELRAARALAGGP
          EL.AA.AL.GGP
Retrocopy ELCAA*ALTGGP

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_1591 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,