RetrogeneDB ID: retro_chof_1522

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_314651:0..804(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AZIN1
• Ensembl ID: ENSCHOG00000005164
• Aliases: None
• Description: antizyme inhibitor 1 [Source:HGNC Symbol;Acc:16432]

Sequence

>retro_chof_1522
ATGAAAGGATTTATTGACGATGCAAACTAGTCCGTTGGCCTGTTGGATGAAGGAACAAACCTTGGAAATGTTATTGATAA
CTATGTTTATGAACATACCCTGACAGGAAAAAATGCATTTTTTGTGGGAGATCTTGGAAAGTTTGTGAAGAAACACAGTT
GATGGCAGAATGTAGTGGCTCAGATAAAGCCATTTTACACAGTAAAGTGCAACTCTACTCCAGGTGTACTTGAGATTTTG
GCAGCTCTTGGAACTGGATTTGCTTGCTCCAGTAAAAATGAAATGGCTTTAGTGCAAGAATTGGGTGTATCTCCAGAAAA
CATTATTTATATAAGTCCATGCAAGCAAGTATCTCAGGTAAAGTATGCAGCAAAAATTGGAGTGAATATCATGACATGTG
ACAATGAAATTGAATTGAAGAAAATTTCACGTAATCACCCAAATGCCAAGGTTTTACTACAGATTGCAACAGAAGATAAT
AGTGGAGGTGAAGAGAGTAGCATGAAGTTTGGCACTACACTGAAGAATTGTAGGCATCTCTTGGAATGTGCTAAGGAACT
CGATGTCCAAATAATTGGGGTTAAATTTCACATTTCTAGTGCTTGCAAAATATCTCAAGTATATGTACACGCTCTATCTG
ATGCGTGATGTGTGTTTGACATGGCTGGAGAATTTGGTTTCAAGATGAACATTTTAGACATTGGTGGAGGCTTCACAAGA
ACTGAATATCAGTTGGAAGAGGTTAATCATGTTATCAGCCCTTTATTGCATATCTACTTTCCTGAAGGATCTGGCATTAA
GATA

Alignment

ORF - retro_chof_1522 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.15 %
• Parental protein coverage: 59.82 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKGFIDDANYSVGLLGEGTNLGNVIDNYVYEHTLTGKNAFFVGDLGKIVKKHSQWQNVVAQIKPFYTVKC
          MKGFIDDAN.SVGLL.EGTNLGNVIDNYVYEHTLTGKNAFFVGDLGK.VKKHS.WQNVVAQIKPFYTVKC
Retrocopy MKGFIDDAN*SVGLLDEGTNLGNVIDNYVYEHTLTGKNAFFVGDLGKFVKKHS*WQNVVAQIKPFYTVKC

Parental  NSTPAVLEILAALGTGFACSSKNEMALVQELGVSPENIIYISPCKQVSQIKYAAKIGVNIMTCDNEIELK
          NSTP.VLEILAALGTGFACSSKNEMALVQELGVSPENIIYISPCKQVSQ.KYAAKIGVNIMTCDNEIELK
Retrocopy NSTPGVLEILAALGTGFACSSKNEMALVQELGVSPENIIYISPCKQVSQVKYAAKIGVNIMTCDNEIELK

Parental  KISRNHPNAKVLLHIATEDNSGGEESSMKFGTTLKNCRHLLECAKELDVQIIGVKFHVSSACKISQVYVH
          KISRNHPNAKVLL.IATEDNSGGEESSMKFGTTLKNCRHLLECAKELDVQIIGVKFH.SSACKISQVYVH
Retrocopy KISRNHPNAKVLLQIATEDNSGGEESSMKFGTTLKNCRHLLECAKELDVQIIGVKFHISSACKISQVYVH

Parental  ALSDARCVFDMAGEFGFKMNILDIGGGFTGTEYQFEAVNHVISPLLDIYFPEGSGIKI
          ALSDA.CVFDMAGEFGFKMNILDIGGGFT.TEYQ.E.VNHVISPLL.IYFPEGSGIKI
Retrocopy ALSDA*CVFDMAGEFGFKMNILDIGGGFTRTEYQLEEVNHVISPLLHIYFPEGSGIKI

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_1522 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000005164	2 retrocopies	retro_chof_1086, retro_chof_1522 ,
Choloepus hoffmanni	ENSCHOG00000010898	2 retrocopies	retro_chof_1618, retro_chof_2111,
Equus caballus	ENSECAG00000016922	1 retrocopy	retro_ecab_1096,
Oryctolagus cuniculus	ENSOCUG00000015196	1 retrocopy	retro_ocun_1439,
Tursiops truncatus	ENSTTRG00000000140	1 retrocopy	retro_ttru_1210,