RetrogeneDB ID: retro_ogar_2140

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873595.1:7205699..7206039(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAC3
• Ensembl ID: ENSOGAG00000012467
• Aliases: None
• Description: ras-related C3 botulinum toxin substrate 3 (rho family, small GTP binding protein Rac3) [Source:HGNC Symbol;Acc:9803]

Sequence

>retro_ogar_2140
GGAGCTGTAGGTGACTTGCTGCCAGTTGGTTACACAACCAATGCATTTTCTGGAAAATGAATCCCTACTGCCTGTGACAA
TTATCCTGCCAATGTTATGGCAAGATGAAAAAGTGCGAATCTGGGTTTATGGAATATAGCTAGACAAGAAGATTATGGCA
GATTGCACCCCCAATGCTATCTACAAGCCGATGCAGTCTTCATTTGCTTTTCCTTTGAGTACTGCATCATCTGAAAATGT
CAGTGGAAAGAGGTATCCTGAAGTGTGACATCATTGTCCCAATGACACTTCCATCCTCCTTGTGGGAACTAAATTTTATA
TCAGGGATGGTAAAGACACA

Alignment

ORF - retro_ogar_2140 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.21 %
• Parental protein coverage: 59.38 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLIC
          GAVG...L...YTTNAF.G..IPT..DNY.ANVM...K..NLGLW..A.QEDY.RL.P..Y.Q.D...IC
Retrocopy GAVGDL-LPVGYTTNAFSGK*IPTACDNYPANVMAR*KSANLGLWNIARQEDYGRLHPQCYLQADAVFIC

Parental  -FSLVSPASFENVRAKWYPEVRHHCPH-TPILLVGTKLDLRDDKDT
          .F.L.S.AS.ENV..K.YPEV.HHCP..T.ILLVGTK...RD.KDT
Retrocopy >FPL-STASSENVSGKRYPEV*HHCPNDTSILLVGTKFYIRDGKDT

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_2140 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 13 parental genes, and 19 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000017364	1 retrocopy	retro_amel_1104,
Callithrix jacchus	ENSCJAG00000018194	1 retrocopy	retro_cjac_2687,
Cavia porcellus	ENSCPOG00000013861	1 retrocopy	retro_cpor_18,
Echinops telfairi	ENSETEG00000012902	3 retrocopies	retro_etel_1565, retro_etel_1645, retro_etel_42,
Macropus eugenii	ENSMEUG00000006196	1 retrocopy	retro_meug_201,
Otolemur garnettii	ENSOGAG00000004138	1 retrocopy	retro_ogar_2977,
Otolemur garnettii	ENSOGAG00000012467	1 retrocopy	retro_ogar_2140 ,
Otolemur garnettii	ENSOGAG00000014261	1 retrocopy	retro_ogar_131,
Otolemur garnettii	ENSOGAG00000033272	1 retrocopy	retro_ogar_742,
Procavia capensis	ENSPCAG00000009949	1 retrocopy	retro_pcap_16,
Pongo abelii	ENSPPYG00000008763	2 retrocopies	retro_pabe_1047, retro_pabe_2546,
Tupaia belangeri	ENSTBEG00000007272	4 retrocopies	retro_tbel_1796, retro_tbel_2564, retro_tbel_4296, retro_tbel_9,
Takifugu rubripes	ENSTRUG00000016201	1 retrocopy	retro_trub_15,