RetrogeneDB ID: retro_chof_855

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: scaffold_15622:4965..5364(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CA10
• Ensembl ID: ENSCHOG00000009007
• Aliases: None
• Description: carbonic anhydrase X [Source:HGNC Symbol;Acc:1369]

Sequence

>retro_chof_855
CAGAATTCACCAAAAATCCATGAAGGCTGGTGGTCGTACAAGGAGGTGGTCCAGTGAAGCTTTGTTCCAGTTCCTTCTTT
CTGGGGATTGGTGAACTCAGCTTGGAATCTTTGCTCTGTGGGGAAATGGCAGTCACCTGTCAACATAGAGACCAGTCACA
TGATCTTTGACCCCTTTCTGATGCTCCTTCATATCAACACTGGGGGCAGGAAGGTCAGTGGGGCCATGTATAATACTGGA
AGACACATGTCCCTCCACCTGGACAAAGAGCACTTGGTCAACATTTCAGGAAGGCCCATGACATACAGCCACCATCTGGA
GGAGATCCAGCTACACTTTGGAAGTGAGGACAGCCAAAGGTCAGAGCACATCCTCAATGGACAGGCCTTCTCTGGGGAG

Alignment

ORF - retro_chof_855 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.96 %
• Parental protein coverage: 67.5 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RNSPKSIEGWWAYQREVVPRGGFVPVPSFWGLVNSAWNLCSVGKRQSPVNIETSHMIFDPFLTPLRINTG
          .NSPK..EGWW.Y..EVV....FVPVPSFWGLVNSAWNLCSVGK.QSPVNIETSHMIFDPFL..L.INTG
Retrocopy QNSPKIHEGWWSY-KEVV-Q*SFVPVPSFWGLVNSAWNLCSVGKWQSPVNIETSHMIFDPFLMLLHINTG

Parental  GRKVSGTMYNTGRHVSLRLDKEHLVNVSGGPMTYSHRLEEIRLHFGSEDSQGSEHLLNGQAFSGE
          GRKVSG.MYNTGRH.SL.LDKEHLVN.SG.PMTYSH.LEEI.LHFGSEDSQ.SEH.LNGQAFSGE
Retrocopy GRKVSGAMYNTGRHMSLHLDKEHLVNISGRPMTYSHHLEEIQLHFGSEDSQRSEHILNGQAFSGE

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_855 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000009007	1 retrocopy	retro_chof_855 ,
Dasypus novemcinctus	ENSDNOG00000010755	1 retrocopy	retro_dnov_512,
Monodelphis domestica	ENSMODG00000012548	1 retrocopy	retro_mdom_700,