RetrogeneDB ID: retro_ogar_1217

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873539.1:19294328..19294897(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SETD8
• Ensembl ID: ENSOGAG00000031093
• Aliases: None
• Description: SET domain containing (lysine methyltransferase) 8 [Source:HGNC Symbol;Acc:29489]

Sequence

>retro_ogar_1217
ATCAAGGGCAAGCAGGCCCCTCAGAAAAAGCTCAAGGAAAAACAACAGAATTGCAGACTCATGGATTTCTACCCTGTCCG
AAGAAGCTCCAGGAAGAGCACAGCTGAGTTGCAGTCGGAAGAATGGAAAAGAATAGATGAATTGATGGAGAGTGGGAAGG
AAGAAGGCATGAAGATTGACTTCATTTATGGCAAAGGCAGGGGCCTGATAGCCACAAAGCAATTCTCCCAGAGCGACTTT
GTGGTAGAAAACTATGGGGACCTCATCAAGATCACCAGTGCCAAGAAGCAGGACGCTCTGTGTGCGCAAGACCCCTCCAC
AGGCTGCTACATGTACTATTTCCAGTATTTGAGCAAAACCTGTGTGGATGCACCTAGAGAGACAAACTGCCTGGGAAGGC
AGATCAATCACAGCAAAAGTGAGAACTGCCAAACCAAACTGTACAAAATTCACGTTGTACCTCACCTCATCCTCATCCCT
TCCGGAGACATATAGGCCAGGGAAGAGCTCTTGTGTGACCATGGGGACTGCAACCAGGCTTCCATTGAACCTACCCATGG
CTGAAGCAT

Alignment

ORF - retro_ogar_1217 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.17 %
• Parental protein coverage: 59.44 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  IKGKPTPRKKTQGKTQQNRKLTDFYPVRRSSRKSKAELQSEERKRIDELIESGKEEGMKIDLIDGKGRGV
          IKGK..P.KK...K.QQN..L.DFYPVRRSSRKS.AELQSEE.KRIDEL.ESGKEEGMKID.I.GKGRG.
Retrocopy IKGKQAPQKKLKEK-QQNCRLMDFYPVRRSSRKSTAELQSEEWKRIDELMESGKEEGMKIDFIYGKGRGL

Parental  IATKQFSRGDFVVEYHGDLIEITDAKKREALYAQDPSTGCYMYYFQYLSKTYCVDATRETNRLGRLINHS
          IATKQFS..DFVVE..GDLI.IT.AKK..AL.AQDPSTGCYMYYFQYLSKT.CVDA.RETN.LGR.INHS
Retrocopy IATKQFSQSDFVVENYGDLIKITSAKKQDALCAQDPSTGCYMYYFQYLSKT-CVDAPRETNCLGRQINHS

Parental  KCGNCQTKLHDIDGVPHLILIASRDIEAGEELLYDYGDRSKASIE-AYPWLKH
          K..NCQTKL..I..VPHLILI.S.DI.A.EELL.D.GD...ASIE..YPWLKH
Retrocopy KSENCQTKLYKIHVVPHLILIPSGDI*AREELLCDHGDCNQASIE<TYPWLKH

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_1217 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 9 parental genes, and 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000183955	2 retrocopies	retro_hsap_2294, retro_hsap_4320,
Macaca mulatta	ENSMMUG00000013514	1 retrocopy	retro_mmul_1579,
Mus musculus	ENSMUSG00000049327	2 retrocopies	retro_mmus_1459, retro_mmus_3478,
Otolemur garnettii	ENSOGAG00000031093	1 retrocopy	retro_ogar_1217 ,
Pongo abelii	ENSPPYG00000005085	2 retrocopies	retro_pabe_1347, retro_pabe_1381,
Pan troglodytes	ENSPTRG00000005598	1 retrocopy	retro_ptro_1622,
Rattus norvegicus	ENSRNOG00000001062	4 retrocopies	retro_rnor_1551, retro_rnor_2837, retro_rnor_38, retro_rnor_679,
Sarcophilus harrisii	ENSSHAG00000015376	2 retrocopies	retro_shar_110, retro_shar_115,
Tursiops truncatus	ENSTTRG00000015884	1 retrocopy	retro_ttru_1301,