RetrogeneDB ID: retro_ogar_2793

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873665.1:187422..187911(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSOGAG00000030061
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSOGAG00000033084
• Aliases: None
• Description: None

Sequence

>retro_ogar_2793
GCAGCAAGGGATAAATCTTCAGACAAAAAAGTGCAACCGAAAGGGAAAAGAGGAGCAAAGGGAAAGCAGGGCGAAGTGGC
CAACCAAGAAACTAAAGAAGGTTCACCAGCAGAAAACGGAGAAACTAACGCTGAGGAGAATCCAGCAGCTGACGAAGCAC
GAGAGAAAGAAGCCGAGTCTGGTTAATGTCATGTACCATGTCTATCAGTGGTCCGTCTCCCTTCTTGTACAACCCAGAGG
AATATTTTTATCAACTATTTTGTAAATTCAAGTTTTTTACTAGCTGTAAAGACATTTTTAAGAGGGAGGGAATCCCACCT
CCTCCCATTTTTTAAGTGTAAATGCTTTTTTTTAAGAAGTGAAATCATTTGCTGGTTGTCTATTTTTTGGTACAACCAGA
AAATAGTGTGGGATGTTGAATTAATGGGAGGCTTTGACTGTCTTGGGTGTGAGCTTAACATTCCATAGATGGGGGTTAGT
TTTTATATC

Alignment

ORF - retro_ogar_2793 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.23 %
• Parental protein coverage: 99.38 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AAKD-SLQTERCDQKGKGEQRESRPKWLTKK-RTIYLQKTEKLKLRRAQPLMKPERKKPSLIHITSHGHQ
          AA.D..LQT..C..KGK.EQRESR.KW.TKK......QKTEKL.LRR.Q.L.K.ERKKPSL.....H..Q
Retrocopy AARD>NLQTKKCNRKGKEEQRESRAKWPTKKLKKVHQQKTEKLTLRRIQQLTKHERKKPSLVNVMYHVYQ

Parental  GSLS-PVCTIQRKIFINYFVTAT----LKTLLRRRESHLMPFFKCKAFYKKRSETIRWLFMFWYSQKIVW
          .S.S.P.CT.QR.IFINYFV........KT.LR.RESHL.PFFKCK.....RSE.I.WL..FWY.QKIVW
Retrocopy WSVS<PSCTTQRNIFINYFVNSSFLLAVKTFLRGRESHLLPFFKCKCXXX-RSEIICWLSIFWYNQKIVW

Parental  DVELCEALSWVGTQLNIIQMNILFLL
          DVEL.......G..LNI..M...F..
Retrocopy DVELMGGFDCLGCELNIP*MGVSFYI

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_2793 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 6 parental genes, and 47 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000005727	4 retrocopies	retro_cjac_1105, retro_cjac_1412, retro_cjac_2018, retro_cjac_4230,
Gorilla gorilla	ENSGGOG00000013672	6 retrocopies	retro_ggor_107, retro_ggor_145, retro_ggor_16, retro_ggor_2248, retro_ggor_48, retro_ggor_49,
Otolemur garnettii	ENSOGAG00000033084	3 retrocopies	retro_ogar_1799, retro_ogar_2793 , retro_ogar_3104,
Tarsius syrichta	ENSTSYG00000005812	15 retrocopies	retro_tsyr_1029, retro_tsyr_1109, retro_tsyr_1203, retro_tsyr_1209, retro_tsyr_1243, retro_tsyr_1318, retro_tsyr_1904, retro_tsyr_1956, retro_tsyr_310, retro_tsyr_399, retro_tsyr_652, retro_tsyr_664, retro_tsyr_680, retro_tsyr_728, retro_tsyr_913,
Tursiops truncatus	ENSTTRG00000015372	12 retrocopies	retro_ttru_1034, retro_ttru_129, retro_ttru_1511, retro_ttru_1682, retro_ttru_1714, retro_ttru_200, retro_ttru_337, retro_ttru_373, retro_ttru_558, retro_ttru_61, retro_ttru_680, retro_ttru_980,
Vicugna pacos	ENSVPAG00000000013	7 retrocopies	retro_vpac_146, retro_vpac_216, retro_vpac_248, retro_vpac_371, retro_vpac_499, retro_vpac_557, retro_vpac_66,