RetrogeneDB ID: retro_ogar_3346

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873786.1:1092771..1093527(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000013303
• Aliases: None
• Description: None

Sequence

>retro_ogar_3346
ATGAAGAACAAAATTGCTGCTGTTGTATTCTTTTTCACAAGGCTAGTTTGAAAACATGATGAGTTGAAAAAAGAGGAAGT
TGAGAGGTTTGCTGAGAAATTAACTCTAATACTTCAAGAAAAATACAAAAATCACTGATATCTGAAAAAACCATCGAAAG
GACAGGCTTACAGATGCATTCATGTCAATAAGTTTCAGAGAGTTGATCCTGATGTCCTGAAAGCTTGTGAGAACAGGTGC
ATCATCTTGTATAGTGACCTGGGCTTGCCAAAGGAGCTTACTGTCTGAGTAGACCAATGTGAGGTGTGCTGTTGGTATGG
AGAGAAAAACAACGCATTAATTGTTGCCAGCTTTGAAAATGAGGATGAGAACAAGGATGAGATCTCTAAGAAAGTTATGA
GGGCCTTTGATAAAGTTATCTCTGATTATCATTCAGAATCTTCTTCCTCAGATGAAGAAACAAGTAAGAAAGTGGAAGTG
AAACCCAATTTGGTGACTGTAACACCAAGCACAGTGTCCCAGATTTTGGAACTGATATTCCTACCTCTTCCAATATGGCA
TCCATTGTCCAGAAAAAAGCCAGGAATGTATCGAGGGAATGGATATCAGAACCACTACCCTCCTCCTGTTCCATTTGGTT
ATCCAAATCAGGGAAGGAAGAATAAACCACACTGTCCTATTCCAGTGACATGGGTACCCTCTCCTGGAATACATTGTGAC
TGGAATCACTGGATTAATCATCACATGTTAGTACCT

Alignment

ORF - retro_ogar_3346 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.52 %
• Parental protein coverage: 99.6 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKNEIAAVVFFFTRLVRKHDKLKKEAVERFAEKLTLILQEKYKNHWYPEKPSKGQAYRCIRVNKFQRVDP
          MKN.IAAVVFFFTRLV.KHD.LKKE.VERFAEKLTLILQEKYKNH.Y..KPSKGQAYRCI.VNKFQRVDP
Retrocopy MKNKIAAVVFFFTRLV*KHDELKKEEVERFAEKLTLILQEKYKNH*YLKKPSKGQAYRCIHVNKFQRVDP

Parental  DVLKACENSCI-LYSDLGLPKELTLWVDPCEVCCRYGEKNNAFIVASFENEDENKDEISKKVTRALDKVT
          DVLKACEN.CI.LYSDLGLPKELT..VD.CEVCC.YGEKNNA.IVASFENEDENKDEISKKV.RA.DKV.
Retrocopy DVLKACENRCIILYSDLGLPKELTV*VDQCEVCCWYGEKNNALIVASFENEDENKDEISKKVMRAFDKVI

Parental  SDYHSGSSSSDEETSKEVEVKPNSVTATPSPVYQISELIFPPLQVWHPLPRKKPGMYRGNGHQNHYPPPV
          SDYHS.SSSSDEETSK.VEVKPN.VT.TPS.V.QI.ELIF.PL..WHPL.RKKPGMYRGNG.QNHYPPPV
Retrocopy SDYHSESSSSDEETSKKVEVKPNLVTVTPSTVSQILELIFLPLPIWHPLSRKKPGMYRGNGYQNHYPPPV

Parental  PFGYPNPGRKHKPYRPIPVTWVPPPGMHCDRNHWINPHMLAP
          PFGYPN.GRK.KP..PIPVTWVP.PG.HCD.NHWIN.HML.P
Retrocopy PFGYPNQGRKNKPHCPIPVTWVPSPGIHCDWNHWINHHMLVP

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_3346 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 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000003406	1 retrocopy	retro_cjac_4118,
Dasypus novemcinctus	ENSDNOG00000012987	2 retrocopies	retro_dnov_1703, retro_dnov_2682,
Macaca mulatta	ENSMMUG00000002116	1 retrocopy	retro_mmul_2534,
Mustela putorius furo	ENSMPUG00000010746	1 retrocopy	retro_mputfur_849,
Mus musculus	ENSMUSG00000022863	1 retrocopy	retro_mmus_225,
Otolemur garnettii	ENSOGAG00000013303	8 retrocopies	retro_ogar_1693, retro_ogar_1755, retro_ogar_2575, retro_ogar_2769, retro_ogar_2795, retro_ogar_3346 , retro_ogar_524, retro_ogar_551,
Ochotona princeps	ENSOPRG00000012837	1 retrocopy	retro_opri_381,
Ictidomys tridecemlineatus	ENSSTOG00000010285	1 retrocopy	retro_itri_617,
Tarsius syrichta	ENSTSYG00000006151	5 retrocopies	retro_tsyr_1172, retro_tsyr_1406, retro_tsyr_1753, retro_tsyr_231, retro_tsyr_495,