RetrogeneDB ID: retro_chof_943

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_172781:605..974(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL27
• Ensembl ID: ENSCHOG00000005103
• Aliases: None
• Description: mitochondrial ribosomal protein L27 [Source:HGNC Symbol;Acc:14483]

Sequence

>retro_chof_943
AGCGGTGCTTGCGCTGAGAGTGCGGAAGCAGTGACAACCCTGTTGAACCCCCCTCAGGCTACAGCACTTGCTGTCAGATA
TGCATCCAAGAAGATAGGTGGCAGCTCCAAAAACCTCAGTGGAAAGTCAACAGGCAGATGCTATGGCATCAAGAAAAAGG
AAGGTCACTACGTTCAAGCTGGTGACATACTTGGGACTCGGCACCATTTCCGCTGGCACCCAGGAACCCTCGTGGGGTTG
GGGAAGAAGTGCCTGTATGCCCTGGAGGAGGGGGTCGTTCGCTACACTAAGGAGGTCTCCGGGCCCAGTCCAAGAAGCTT
GGAGGCTGTGGATCTGGTCACCAAGCTGCCCAAGGGTACTCTGCTGTTC

Alignment

ORF - retro_chof_943 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.77 %
• Parental protein coverage: 77.99 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SFASLEVGDRMTTLLNPSQTAALAVRYASKKTGGSSKNLGGKSSRRRYGIKKMEGHYVHAGNILGTQRRF
          S.A..E.....TTLLNP.Q..ALAVRYASKK.GGSSKNL.GKS..R.YGIKK.EGHYV.AG.ILGT...F
Retrocopy SGACAESAEAVTTLLNPPQATALAVRYASKKIGGSSKNLSGKSTGRCYGIKKKEGHYVQAGDILGTRHHF

Parental  RWHPGAHVGLGKRKCLYALEEGVVHYTKEVYVPHPSNSEAVDLVTKLPKGAVLY
          RWHPG..VGLGK.KCLYALEEGVV.YTKEV..P.P...EAVDLVTKLPKG..L.
Retrocopy RWHPGTLVGLGK-KCLYALEEGVVRYTKEVSGPSPRSLEAVDLVTKLPKGTLLF

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_943 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 11 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000017031	1 retrocopy	retro_cfam_1454,
Choloepus hoffmanni	ENSCHOG00000005103	1 retrocopy	retro_chof_943 ,
Callithrix jacchus	ENSCJAG00000018851	2 retrocopies	retro_cjac_28, retro_cjac_378,
Dasypus novemcinctus	ENSDNOG00000023845	2 retrocopies	retro_dnov_1233, retro_dnov_1731,
Erinaceus europaeus	ENSEEUG00000010549	3 retrocopies	retro_eeur_126, retro_eeur_22, retro_eeur_9,
Echinops telfairi	ENSETEG00000014252	2 retrocopies	retro_etel_13, retro_etel_893,
Microcebus murinus	ENSMICG00000009698	1 retrocopy	retro_mmur_624,
Macaca mulatta	ENSMMUG00000017231	1 retrocopy	retro_mmul_64,
Mus musculus	ENSMUSG00000024414	2 retrocopies	retro_mmus_1696, retro_mmus_2918,
Oryctolagus cuniculus	ENSOCUG00000004601	2 retrocopies	retro_ocun_1026, retro_ocun_1936,
Otolemur garnettii	ENSOGAG00000005385	1 retrocopy	retro_ogar_53,