RetrogeneDB ID: retro_ogar_2990

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873693.1:3156768..3157217(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM45A
• Ensembl ID: ENSOGAG00000002070
• Aliases: None
• Description: family with sequence similarity 45, member A [Source:HGNC Symbol;Acc:31793]

Sequence

>retro_ogar_2990
TTGAAGTTCCAGATTCATTTTTCTATTGTTCTGACTGCCAAAGATTTTAACCCAGAGAAATATGCCACCTTCACTAGGAT
GTTGTGTAGAATATACCTGAAACTGGGAGCCCAGTTAAAATGATGGAGAGTTATATTGCAGTTCTCACAAAGGGGATATG
TCAGAGTGAAGAAGATGGCTCTTTCCTTAGCAAGGACTTTGATGCCGGAAAGGCATATGTTACTGGCTCCATCAAAGACG
TATCTCAGTTTGGAATGGAAACTGTTATCTTATACACAGCACTGATGCTAAAGAAAAGAATTGTCGTCTATCACCCTCAA
ATATTAGCTGTCCAGGAATTTACCAGGACTCTGCCTGCCCTGGTGTGGCATCGATAGGACTGGACCATTCTTCATTCTGA
TGGGCACCTCAATGCAGATGAGTTGGAAGCCCTGCAGACATGCACAGGT

Alignment

ORF - retro_ogar_2990 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.28 %
• Parental protein coverage: 53.33 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  LSLVTHFSIVLTAKDFNPEKYAAFTRILCRIYLK-HGSPVKMMESYIAVLTKGICQSEENGSFLSKDFDA
          L....HFSIVLTAKDFNPEKYA.FTR.LCRIYLK..GSPVKMMESYIAVLTKGICQSEE.GSFLSKDFDA
Retrocopy LKFQIHFSIVLTAKDFNPEKYATFTRMLCRIYLK<TGSPVKMMESYIAVLTKGICQSEEDGSFLSKDFDA

Parental  RKAYLAGSIKALVYVAGTITTMLRVSKIMKQGILVLHENKHTWFAGFPRTLPALVWHRQDWTILHSNVHL
          .KAY..GSIK..V...G..T..L......K..I.V...........F.RTLPALVWHR.DWTILHS..HL
Retrocopy GKAYVTGSIKD-VSQFGMETVILYTALMLKKRI-VVYHPQILAVQEFTRTLPALVWHR*DWTILHSDGHL

Parental  SADELEALQMCTG
          .ADELEALQ.CTG
Retrocopy NADELEALQTCTG

Legend:

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

Expression

RNA-Seq

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq

Otolemur garnettii was not studied using ChIP-Seq data.

EST

Otolemur garnettii was not studied using EST data.

TSS

Otolemur garnettii was not studied using FANTOM5 data.

Lab

retro_ogar_2990 was not experimentally validated.

Homology

Retrocopy orthology:

Otolemur garnettii 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000119979	1 retrocopy	retro_hsap_4757,
Macaca mulatta	ENSMMUG00000008289	1 retrocopy	retro_mmul_411,
Otolemur garnettii	ENSOGAG00000002070	2 retrocopies	retro_ogar_1298, retro_ogar_2990 ,
Vicugna pacos	ENSVPAG00000004890	1 retrocopy	retro_vpac_549,