RetrogeneDB ID: retro_mmur_858

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_112973:444..1212(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PCGF5
• Ensembl ID: ENSMICG00000012035
• Aliases: None
• Description: polycomb group ring finger 5 [Source:HGNC Symbol;Acc:28264]

Sequence

>retro_mmur_858
ATGGCTACCCAAAGGAAACACTTGGTGAAAGATTTCAATCCTTACATTACCTGCTGTATCTGTAAAGGGTATCTGATCAA
GCCAACGACAGTGACGGAATGCCTCCATACCTTCTGTAAGACTTGTACTGTCCAGCACTTTGAAGATAGTAATGATTGTC
CGAGGTGTGGCAACCAGGTTCATGAGACAAATCCACTATAAATGTTAAGGCTGGATAATACACTAGAAGAAATTATATTT
AAGCTGGTCCCTGGACTACGAGAACAAGAACTTGAGCGTGAATCTGAATTTTGGAAGAAAAATAAGCCTCAAGAAAATGG
ACAAGATGATACTTCAAAAGTTGACAAACCTAAAGTAGATGAAGAAGGTGATGAAAATCAAGATGATAAAGACTATCACA
GAAGTGACCCACAAATTGCTATCTGTCTAGATTGTTTACGAAATGATGGGCAATCAGGGGACAATGTAGTAAAGGGTTTA
ATGAAGAAATTTATTCGATGTTCTACACGTGTAACTGTGGGAACTATTAAATAATTTCTAAGTTTAAAACTAAAACTTCC
AAGTTCGTATGAGTTGGATGTGCTGTGCAATGGTGAAATTATGGGGAAGGATCATACTATGGAATTCATCTACATGACAA
GATGCCGACTAAGAGGCGAAAACTTTCGGTGTCTGAACTGCTCAGCTTCGCAAGTCTGCTCTCAGGATGGCCCTTTGTAT
CAGTCATACCCTATGGTATTGCAGTATCGACCAAGAATTGATTTCGGT

Alignment

ORF - retro_mmur_858 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.97 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MATQRKHLVKDFNPYITCYICKGYLIKPTTVTECLHTFCKTCIVQHFEDSNDCPRCGNQVHETNPLEMLR
          MATQRKHLVKDFNPYITC.ICKGYLIKPTTVTECLHTFCKTC.VQHFEDSNDCPRCGNQVHETNPL.MLR
Retrocopy MATQRKHLVKDFNPYITCCICKGYLIKPTTVTECLHTFCKTCTVQHFEDSNDCPRCGNQVHETNPL*MLR

Parental  LDNTLEEIIFKLVPGLREQ-LERESEF-EENKXXXXXXXDTSKVDKPKVDEEGDENQDDKDYHRSDPQIA
          LDNTLEEIIFKLVPGLREQ.LERESEF...NK.......DTSKVDKPKVDEEGDENQDDKDYHRSDPQIA
Retrocopy LDNTLEEIIFKLVPGLREQELERESEFWKKNKPQENGQDDTSKVDKPKVDEEGDENQDDKDYHRSDPQIA

Parental  ICLD-LRNNGQSGDNVVKGLMKKFIRCSTRVTVGTIKKFLSLKLKLPSSYELDVLCNGEIMGKDHTMEFI
          ICLD.LRN.GQSGDNVVKGLMKKFIRCSTRVTVGTIK.FLSLKLKLPSSYELDVLCNGEIMGKDHTMEFI
Retrocopy ICLDCLRNDGQSGDNVVKGLMKKFIRCSTRVTVGTIK*FLSLKLKLPSSYELDVLCNGEIMGKDHTMEFI

Parental  YMTRWRLRGENFRCLNCSASQVCSQDGPLYQSYPMVLQYRPRIDFG
          YMTR.RLRGENFRCLNCSASQVCSQDGPLYQSYPMVLQYRPRIDFG
Retrocopy YMTRCRLRGENFRCLNCSASQVCSQDGPLYQSYPMVLQYRPRIDFG

Legend:

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

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_858 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_858 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus 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 4 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000011001	1 retrocopy	retro_cjac_2702,
Equus caballus	ENSECAG00000016162	1 retrocopy	retro_ecab_213,
Microcebus murinus	ENSMICG00000012035	5 retrocopies	retro_mmur_1358, retro_mmur_1499, retro_mmur_253, retro_mmur_858 , retro_mmur_982,
Procavia capensis	ENSPCAG00000007871	1 retrocopy	retro_pcap_302,