RetrogeneDB ID: retro_pcap_20

Retrocopy location

• Organism: Hyrax (Procavia capensis)
• Coordinates: scaffold_17927:34587..34935(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSPCAG00000005265
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSPCAG00000005420
• Aliases: None
• Description: None

Sequence

>retro_pcap_20
ATGGATTCCAAACAGGCAGCCACGCTGCTGGCGTTGCTGCTGCTAATAACTGACTGGGGCCACCCTGAAGGACCAAGAGG
CCAAGATGAAGGAGACCAGATCTTAGTGGAGGAAGACAATGGACTCCACCCACTGCAGGACACTCCCGCCACTGGATCAC
TTTTGCGCTTTCTGCTCCAGGCCACACAGAGAGCAGGCTGGAGCCCAGCCTTCCTGTTTCAGCTCCACAGATTTGGCAGA
AATACTCGGGGATCCTGTAGCAACGAATGGCTGAGTCCCCAGGCTGTTAGGGGACTGAGCTCTCAGTTCTGGAGCCTGGC
TGCCCTACAACGCTTTGGGAAGAAGTGA

Alignment

ORF - retro_pcap_20 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.17 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MDSKQAATLLVLLLLITDWGHAEGPGGQDEGDQILVEEDNGLHPLQDTPTTGSLLRFLLQATQRAGRSPA
          MDSKQAATLL.LLLLITDWGH.EGP.GQDEGDQILVEEDNGLHPLQDTP.TGSLLRFLLQATQRAG.SPA
Retrocopy MDSKQAATLLALLLLITDWGHPEGPRGQDEGDQILVEEDNGLHPLQDTPATGSLLRFLLQATQRAGWSPA

Parental  FLFQPQRFGRNTRGSWSNEWLSPQAVRGLSSQFWSLAAPQRFGKK
          FLFQ..RFGRNTRGS.SNEWLSPQAVRGLSSQFWSLAA.QRFGKK
Retrocopy FLFQLHRFGRNTRGSCSNEWLSPQAVRGLSSQFWSLAALQRFGKK

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_20 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	ENSPCAG00000005420	1 retrocopy	retro_pcap_20 ,