RetrogeneDB ID: retro_chof_1794

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_385590:504..1086(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: AZI2
• Ensembl ID: ENSCHOG00000010432
• Aliases: None
• Description: 5-azacytidine induced 2 [Source:HGNC Symbol;Acc:24002]

Sequence

>retro_chof_1794
GAATTTAAATCCCCTTCAACTTCCTGGGAGGTGGAAAAGTTGCACTGTGACTTGAAGATTCGTAGTTTGGAAAAAGAGAT
GGAAATGATGAGGAAAGAACATAACAATCTCAAAACAGAGCTACAAAATCTGAAGAGCAAAGATCTCCAAAGACTGAGCA
TTTCAAGTGATAACATACAACAGTCATACTGGGAACCGAAGAGAGAAATGTTTAATTTTTATCTGGTATCTCAAATACAA
GCTGAACTACTAAGAAAATGGAAAACCACCTTTGCAATCAAGAATGCCTGTGCCCCAGTAGGATGAGTTTAAGACCTTAG
AAAAGTTAACACAAAACTGAACTTGATGAATTTTACTGCAACGTTTGAAAGTCATACCTCTCTCTCAACAAATGACAAAG
CTCTTTGTCATACAGCGTCTTCCCCTTTACCAGGAGACGTCAAGATTTTATCTGAGAAACCAATTCTCTAATCATAGGTA
GATAACAAGAGACCATTCTTAATGATGGTGCACACTTTCAGGAACACAACTCTTAGGGCAGAAATTCCCTGAAAAGGTAA
TTCTTTGGGTATTCCCAAACCC

Alignment

ORF - retro_chof_1794 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.29 %
• Parental protein coverage: 50.78 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  EVEKLSCDVKIHGLQQELELMTKERNDLKIELQKSKQMDLSQE-DNLKSIDLQRLSISSDNIQQAYWELK
          E....S.......L...L.....E......E........L..E..NLKS.DLQRLSISSDNIQQ.YWE.K
Retrocopy EFKSPSTSWEVEKLHCDLKIRSLEK---EMEMMRKEHNNLKTELQNLKSKDLQRLSISSDNIQQSYWEPK

Parental  REMSNLHLVTQVQAELLRKLKIPAAIKKAYAPVGCVEDLGKDNTKLHLTNFTATYKRQASVSPNGKALCH
          REM.N..LV.Q.QAELLRK.K...AIK.A.APVG.V.DL.K.NTKL.L.NFTAT.....S.S.N.KALCH
Retrocopy REMFNFYLVSQIQAELLRKWKTTFAIKNACAPVG*V*DLRKVNTKLNLMNFTATFESHTSLSTNDKALCH

Parental  TTSSPLPGDIKILSEKPVLQSWMDNER-SITNDGVNFQEHNSYGRNSL-EDNSWVFPSP
          T.SSPLPGD.KILSEKP.L.S..DN.R..I.NDG..FQEHNS.GRNSL...NS...P.P
Retrocopy TASSPLPGDVKILSEKPIL*S*VDNKR<TILNDGAHFQEHNS*GRNSL>KGNSLGIPKP

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_1794 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.

---

Parental genes homology:

Parental genes homology involve 14 parental genes, and 22 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000010432	2 retrocopies	retro_chof_1794 , retro_chof_234,
Dasypus novemcinctus	ENSDNOG00000011053	2 retrocopies	retro_dnov_1377, retro_dnov_542,
Homo sapiens	ENSG00000163512	2 retrocopies	retro_hsap_1491, retro_hsap_1564,
Gorilla gorilla	ENSGGOG00000022881	2 retrocopies	retro_ggor_1145, retro_ggor_1189,
Loxodonta africana	ENSLAFG00000008538	2 retrocopies	retro_lafr_529, retro_lafr_925,
Myotis lucifugus	ENSMLUG00000000043	3 retrocopies	retro_mluc_1707, retro_mluc_435, retro_mluc_611,
Macaca mulatta	ENSMMUG00000000056	1 retrocopy	retro_mmul_2135,
Monodelphis domestica	ENSMODG00000015075	1 retrocopy	retro_mdom_1786,
Nomascus leucogenys	ENSNLEG00000004069	1 retrocopy	retro_nleu_1714,
Oryctolagus cuniculus	ENSOCUG00000014956	1 retrocopy	retro_ocun_1778,
Otolemur garnettii	ENSOGAG00000005896	1 retrocopy	retro_ogar_3078,
Pongo abelii	ENSPPYG00000014053	2 retrocopies	retro_pabe_1241, retro_pabe_3784,
Pan troglodytes	ENSPTRG00000014707	1 retrocopy	retro_ptro_1052,
Tursiops truncatus	ENSTTRG00000016434	1 retrocopy	retro_ttru_1093,