RetrogeneDB ID: retro_pcap_391

Retrocopy location

• Organism: Hyrax (Procavia capensis)
• Coordinates: scaffold_66225:6197..6619(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZNF385D
• Ensembl ID: ENSPCAG00000001775
• Aliases: None
• Description: zinc finger protein 385D [Source:HGNC Symbol;Acc:26191]

Sequence

>retro_pcap_391
TCGACAGCCACCGGCAATAGCTCATGTCCTTCCACGGAGACGGAAGAAGAAAAGGCCGAACGGCTGCTTTCCTGTTCATT
ATGCAAGGTTGCCCTCAAAGCGGCTCGCAGCTGGAGGCGCCCAACAGTGGTACCAAGCACAAAACCATGCTAGAAGCCCG
GAATGGAAGTCGGACCATCAAAGCATTTCCTAGAGCAGCAGTAAAAGGCAAAGGATCTGTTAATAAGGGGAACACAGGCA
GACAAAACAAAACGTTGCACTGTGAAATCTGTGAAATGCATGTCAACTTGGAAACACAACTTAAACAGCTCAGCAACAGC
AGAAGGCACAAAGACAGAGCTGCTGGAAAGCCCCTGAAACCTAAGTGCAGTCCTTACAACAAACCGCAGAAAGAATCATA
TCCACTGGGGGTAAAATTAGTA

Alignment

ORF - retro_pcap_391 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.69 %
• Parental protein coverage: 53.01 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  STATGNSSCPSAETEEEKAKRLLYCSLCKVAVNSA-SQLEAHNSGTKHKTMLEARNGSGTIKAFPRAGVK
          STATGNSSCPS.ETEEEKA.RLL.CSLCKVA...A.SQLEA.NSGTKHKTMLEARNGS.TIKAFPRA.VK
Retrocopy STATGNSSCPSTETEEEKAERLLSCSLCKVALKAA<SQLEAPNSGTKHKTMLEARNGSRTIKAFPRAAVK

Parental  GKGPINKGNTGLQNKTFHCEICDVHVNSETQLKQHISSRRHKDRAAGKPPKPKYSPYNKLQKGAHPLGVK
          GKG..NKGNTG.QNKT.HCEIC..HVN.ETQLKQ...SRRHKDRAAGKP.KPK.SPYNK.QK...PLGVK
Retrocopy GKGSVNKGNTGRQNKTLHCEICEMHVNLETQLKQLSNSRRHKDRAAGKPLKPKCSPYNKPQKESYPLGVK

Parental  LV
          LV
Retrocopy LV

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Procavia capensis was not studied using RNA-Seq expression data.

ChIP-Seq

Procavia capensis was not studied using ChIP-Seq data.

EST

Procavia capensis was not studied using EST data.

TSS

Procavia capensis was not studied using FANTOM5 data.

Lab

retro_pcap_391 was not experimentally validated.

Homology

Retrocopy orthology:

Procavia capensis 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Procavia capensis	ENSPCAG00000001775	1 retrocopy	retro_pcap_391 ,