RetrogeneDB ID: retro_chof_69

Retrocopy location

• Organism: Sloth (Choloepus hoffmanni)
• Coordinates: GeneScaffold_118:14365..14640(-)
• Located in intron of: ENSCHOG00000001827

Retrocopy information

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

Parental gene information

• Parental gene symbol: RPP21
• Ensembl ID: ENSCHOG00000012222
• Aliases: None
• Description: ribonuclease P/MRP 21kDa subunit [Source:HGNC Symbol;Acc:21300]

Sequence

>retro_chof_69
CGTGGCTGCTCTTCCCTCCTCATCCCAATGACTTGCACCCAATGCCAGAGACGTTGCAGGTGCCAGTGCTGGACTTTACA
GACCTGCCTACATGCCAGTGCAGCCAACGATTCCTCAGTGATCCCATGCATCTGCTCTGGGGAGACCGGCCTGAGGCCCA
ACTAGTGGGCCAGGCAGATCCCAAGCCATCACAGCCTATATGAAACACAGCCTACCCCAGACTAGCCCACCATCCTGAGG
AGAAGAAAGTTCAGCCTCGGAGTCCCAGTCACCAG

Alignment

ORF - retro_chof_69 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.19 %
• Parental protein coverage: 93.75 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  RRCSSL-IGLTCTQRQRRRRGQCWTVQTCL-TCQRSQRFLNDPTHLLWGDRLEAQLGSQADPKPPQPLPN
          R.CSSL.I..TCTQ.QRR.R.QCWT.QTCL.TCQ.SQRFL.DP.HLLWGDR.EAQL..QADPKP.QP..N
Retrocopy RGCSSLLIPMTCTQCQRRCRCQCWTLQTCL<TCQCSQRFLSDPMHLLWGDRPEAQLVGQADPKPSQPI*N

Parental  TAHPSLAHHP-EKKVQPQSVNHQ
          TA.P.LAHHP.EKKVQP.S..HQ
Retrocopy TAYPRLAHHPEEKKVQPRSPSHQ

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_69 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000012222	1 retrocopy	retro_chof_69 ,
Loxodonta africana	ENSLAFG00000010777	1 retrocopy	retro_lafr_630,
Monodelphis domestica	ENSMODG00000015967	2 retrocopies	retro_mdom_1142, retro_mdom_1340,