RetrogeneDB ID: retro_ogar_1396

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873545.1:14230991..14231703(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: C6orf203
• Ensembl ID: ENSOGAG00000008839
• Aliases: None
• Description: chromosome 6 open reading frame 203 [Source:HGNC Symbol;Acc:17971]

Sequence

>retro_ogar_1396
ATGGCGGTGAATAATGTCCGATTACTTGCTGGTGGTTTAAGAAAGACAGATGCCTGGATTGGACTCTGGGGTGTGCTCCG
TGGGACATTTTGTACACACAAACGCTGTACCTCCTGGAATCGATACTTGTATTTTTCAAGTACTGAGTTAAATATATCAG
ATTATAAAGCACTTTCCCATGATATGTTCTCACTGAGAATCCCATCTCCTGAACATATTTTTCCATTTTTCATAAGACCG
AAAAGTAATGTAAGCTCTAAAAAGTCTACTAAAAAGTCTCCACAAAAAGTAGAGCATGAAGAGGACTCTGATACAGAAAA
GGATCGTGATGAAATGAGCGAGGCAGAAGAGGAGCTTGAGGACAACCCTGGCGTGGTCAGAGACTACAAAGACCTGGAGA
AAGCAGTGCCATCGTTTCGATATGATGTGATCTTGAAGACAGGCCTAGATATTGGGAGGAACAAAGTGGAAGATGCATTC
TACAAAGGTGAACTCAGGCTCCATGAAGAAAAATTATGGAAGAAAAGCAGAACGGTGAAAAGTGGGAGATACATTGGATC
TTCTCGTTGAAGGGGACAAAGAGGCAGGAACAGAGATGGTGATGTGAATTCTCCTGGGAAAAGCCTCGGAAGAGAAGACT
GCAAATGAAAAATACTGAGTGGTGTTGCGATGCTGGAAGAGGCTAGAGTTGCCTAAGAAGAATGTGTCTAAA

Alignment

ORF - retro_ogar_1396 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.44 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MAMNNVRLLAGVLRKTDAWIGLWGVLRGTFCTHKRCTSWNRYLYFSSTELNISDYKALSHNMFSLRIPSP
          MA.NNVRLLAG.LRKTDAWIGLWGVLRGTFCTHKRCTSWNRYLYFSSTELNISDYKALSH.MFSLRIPSP
Retrocopy MAVNNVRLLAGGLRKTDAWIGLWGVLRGTFCTHKRCTSWNRYLYFSSTELNISDYKALSHDMFSLRIPSP

Parental  EHIFPFFIRPKSNVSSKNSTKKSPQKVEDEEDSDTEKDRDEMSEAEEELEDDSGVVRDYKDLEKAVPSFR
          EHIFPFFIRPKSNVSSK.STKKSPQKVE.EEDSDTEKDRDEMSEAEEELED..GVVRDYKDLEKAVPSFR
Retrocopy EHIFPFFIRPKSNVSSKKSTKKSPQKVEHEEDSDTEKDRDEMSEAEEELEDNPGVVRDYKDLEKAVPSFR

Parental  YDVILKTGLDIGRNKVEDAFYKGELRLNGEKLWKKSRTV-KVGDTLDLLIEGNKEAGTETVMRILLRKAS
          YDVILKTGLDIGRNKVEDAFYKGELRL..EKLWKKSRTV.KVGDTLDLL.EG.KEAGTE.VM.ILL.KAS
Retrocopy YDVILKTGLDIGRNKVEDAFYKGELRLHEEKLWKKSRTV>KVGDTLDLLVEGDKEAGTEMVM*ILLGKAS

Parental  EEKTANEKYRVVLRRWKRLELPKKNMSK
          EEKTANEKY.VVLR.WKRLELPKKN.SK
Retrocopy EEKTANEKY*VVLRCWKRLELPKKNVSK

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_1396 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 11 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000003732	1 retrocopy	retro_cfam_1818,
Homo sapiens	ENSG00000130349	1 retrocopy	retro_hsap_3538,
Gorilla gorilla	ENSGGOG00000006113	1 retrocopy	retro_ggor_2389,
Macropus eugenii	ENSMEUG00000013534	1 retrocopy	retro_meug_2181,
Microcebus murinus	ENSMICG00000004137	1 retrocopy	retro_mmur_1269,
Macaca mulatta	ENSMMUG00000007391	1 retrocopy	retro_mmul_115,
Nomascus leucogenys	ENSNLEG00000013450	2 retrocopies	retro_nleu_1433, retro_nleu_499,
Otolemur garnettii	ENSOGAG00000008839	2 retrocopies	retro_ogar_1396 , retro_ogar_390,
Pongo abelii	ENSPPYG00000016885	1 retrocopy	retro_pabe_2922,
Pan troglodytes	ENSPTRG00000018464	2 retrocopies	retro_ptro_1453, retro_ptro_2405,
Tursiops truncatus	ENSTTRG00000008837	2 retrocopies	retro_ttru_324, retro_ttru_432,