RetrogeneDB ID: retro_ogar_3183

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873738.1:115532..116770(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: G3BP1
• Ensembl ID: ENSOGAG00000001726
• Aliases: None
• Description: GTPase activating protein (SH3 domain) binding protein 1 [Source:HGNC Symbol;Acc:30292]

Sequence

>retro_ogar_3183
ATGGTGATGGAGAAGCCTAGTCCCCTGCTGGTTGGGTGGGAGATTGTGAGGCAGTATTATACACTGCTGAACCAGGCCCC
AGACATGCTACATAGATTTTATGGAAAGAACTTGTCCTATGTCCATGAGGGATTGGATTCAAATGAAAACCCAGCACATG
CAGTCTGTGGGCAGAAAGAAATCCATAGGAAAGTGATGTCACAAAAACTTACCAACTGCCACACCAAGATTTGACGTATT
AATGTTCATGCCACTTTGAATGATGATGTGGTGGTCCAAGTGATGGGGCTGCTCTCTAATAACAACCAGGCTTTGAGGAG
ATTCATGCAGACATTTGTCCTTGCTCTTGAGGGCTCTGTTGCAAATAAGTACTATATTCACAATGATATCCTTAGATACC
AAGATGAGGTCAGTCATGGCTTTGTCATTGAGCCTCAGGAGGAATCTGAGGAAGAAGTAGAGGAACCTGAAGAAAGACAG
CAGACACCTGAGGTGGTTCCTGATGATTCTGGAACTTTCTATGATTAGACTATTGTCAGTGATGACATGGAAGAACATTT
AGAGGAGCGAGTTGTTGAACCAGAGTCTGATCCTGAACCAGAACCAGAGCAAGAACCTGAATCTGAGATCCAAGAGGAAA
AGTCTGAGCCAGTGTTAGAAGAAACTGCTCCTGAGGATACTCAGAAGAGTTCTTCCCCAGCACCTGCAGACACAGCTCAG
ACAGTCCAGGAAGACTTGAGGATCTTTTCTTGGGCATCTGTAACCATTAAGAACCTTCTACTCAGTGGAGCTGTTCCAGT
TTTTAGAATACCACCTCATGTTGTTAAAGTACCAGCTTCACAGCCTCATCCAGAGTCTAAGCTGAAACTCAGATTCCACC
ACAGAGATCTCAAAGAGATTAAAGAGTGCGAGAACAACAGATAAATATTCCTCTCCAGAGGGGCCCCAGACCAATTCATG
AGGCTGGTGAACAAGGTGATATTGAACCCCGAAGAATTGTTAGACACCCGGACAGTCACCAACTACTAACTGGCAATCTG
CCTCATGGGGTGGACAAATCAGAGCTTAAATATTTCTTTCAAAATTATGAGAATGTGGTGGAACTGTGCATCAAGAGTGG
TGGGAAATCACCCAATTTTGGTTTCGTTGTGTTTGATGATTCTAAGCCTGTTCAAAAGGTCCTTAGCAACAGGCCCATCA
TGTTCAGTGGTGAGGTCCACCTGAATGTGGAAGAGAGA

Alignment

ORF - retro_ogar_3183 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.53 %
• Parental protein coverage: 88.75 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MVMEKPSPLLVGREFVRQYYTLLNQAPDMLHRFYGKNSSYVHGGLDSNGKPADAVYGQKEIHRKVMSQNF
          MVMEKPSPLLVG.E.VRQYYTLLNQAPDMLHRFYGKN.SYVH.GLDSN..PA.AV.GQKEIHRKVMSQ..
Retrocopy MVMEKPSPLLVGWEIVRQYYTLLNQAPDMLHRFYGKNLSYVHEGLDSNENPAHAVCGQKEIHRKVMSQKL

Parental  TNCHTKIRHVDAHATLNDGVVVQVMGLLSNNNQALRRFMQTFVLAPEGSVANKFYVHNDIFRYQDEVFGG
          TNCHTKI.....HATLND.VVVQVMGLLSNNNQALRRFMQTFVLA.EGSVANK.Y.HNDI.RYQDEV..G
Retrocopy TNCHTKI*RINVHATLNDDVVVQVMGLLSNNNQALRRFMQTFVLALEGSVANKYYIHNDILRYQDEVSHG

Parental  FVTEPQEESEEEVEEPEERQQTPEVVPDDSGTFYDQTVVRFSCESNDMEEHLEEPVVEPEPDPEPEPEQE
          FV.EPQEESEEEVEEPEERQQTPEVVPDDSGTFYD.T.V....E....EE.....VVEPE.DPEPEPEQE
Retrocopy FVIEPQEESEEEVEEPEERQQTPEVVPDDSGTFYD*TIVSDDMEEH-LEER----VVEPESDPEPEPEQE

Parental  PVSEIQEEKSEPVLEETAPEDTQKSSSPAPADISQTVQEDLRTFSWASVTSKNLPPSGAVPVTGIPPHVV
          P.SEIQEEKSEPVLEETAPEDTQKSSSPAPAD..QTVQEDLR.FSWASVT.KNL..SGAVPV..IPPHVV
Retrocopy PESEIQEEKSEPVLEETAPEDTQKSSSPAPADTAQTVQEDLRIFSWASVTIKNLLLSGAVPVFRIPPHVV

Parental  KVPASQPRPESK-PETQIPPQRPQRDQRVREQRINIPPQRGPRPIREAGEQGDVEPRRIVRHPDSHQLFI
          KVPASQP.PESK..ETQIPPQR.QRD.RVREQ.INIP.QRGPRPI.EAGEQGD.EPRRIVRHPDSHQL..
Retrocopy KVPASQPHPESK<AETQIPPQRSQRD*RVREQQINIPLQRGPRPIHEAGEQGDIEPRRIVRHPDSHQLLT

Parental  GNLPHEVDKSELKDFFQNYGNVVELRINSGGKLPNFGFVVFDDSEPVQKVLSNRPIMFRGEVRLNVEEK
          GNLPH.VDKSELK.FFQNY.NVVEL.I.SGGK.PNFGFVVFDDS.PVQKVLSNRPIMF.GEV.LNVEE.
Retrocopy GNLPHGVDKSELKYFFQNYENVVELCIKSGGKSPNFGFVVFDDSKPVQKVLSNRPIMFSGEVHLNVEER

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_3183 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 15 parental genes, and 23 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000006626	2 retrocopies	retro_cpor_1119, retro_cpor_464,
Dasypus novemcinctus	ENSDNOG00000018758	3 retrocopies	retro_dnov_1492, retro_dnov_1632, retro_dnov_526,
Homo sapiens	ENSG00000145907	1 retrocopy	retro_hsap_2322,
Microcebus murinus	ENSMICG00000012235	2 retrocopies	retro_mmur_1247, retro_mmur_1469,
Mustela putorius furo	ENSMPUG00000013661	1 retrocopy	retro_mputfur_625,
Mus musculus	ENSMUSG00000018583	3 retrocopies	retro_mmus_1389, retro_mmus_3229, retro_mmus_3688,
Nomascus leucogenys	ENSNLEG00000016470	1 retrocopy	retro_nleu_1814,
Oryctolagus cuniculus	ENSOCUG00000022143	1 retrocopy	retro_ocun_1352,
Otolemur garnettii	ENSOGAG00000000157	1 retrocopy	retro_ogar_810,
Otolemur garnettii	ENSOGAG00000001726	2 retrocopies	retro_ogar_3156, retro_ogar_3183 ,
Pongo abelii	ENSPPYG00000015968	1 retrocopy	retro_pabe_2104,
Pan troglodytes	ENSPTRG00000017438	1 retrocopy	retro_ptro_1696,
Pteropus vampyrus	ENSPVAG00000017250	2 retrocopies	retro_pvam_1188, retro_pvam_188,
Rattus norvegicus	ENSRNOG00000013186	1 retrocopy	retro_rnor_1282,
Tarsius syrichta	ENSTSYG00000004570	1 retrocopy	retro_tsyr_1391,