RetrogeneDB ID: retro_ogar_3156

Retrocopy location

• Organism: Bushbaby (Otolemur garnettii)
• Coordinates: GL873731.1:374949..376132(-)
• 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_3156
ATGGTGTTGGAGAAGCTTTGTCTCTTGCTTGTCGGCTGGGAGTTTGTGATACAGTATTATACACTGCTGAAACAGGCCCC
AGACAAGCTATATAGATTTTATGGAAAGAACTCTTCCTATGTCCATGGAGGGTTGGATTCAAATGGAAATCCAGCAGATG
CAGTCTACGGGCAGAAAGAAATCCATGGGAAAGTGATGTCACAAAACTTTACCAACTGCCGCACCAAGATTCGACATGTT
GATGCTCATGTAACTTTGAATGACAGTGTGGTGGTCCAAGTGATAGGGGTTCTCTCTAATAACCATCAGGCTTTGAGGAC
ATTCATGAAGACATTTGTCCTTGCTCCTGAGGGCTCTGTTGCAAGTAAGTTCTATGTTCACAATGATATCTTCAGATACC
AAGATGAGGTCTTTGGTGGCCTTGTCACTGAGCCTCAGGAGGAATCTGAAGAAAAAGTAGAGGAATGTGAAGAAAGACAG
TAGACATCTGAGGTGGTTCCTGATGATTCTGGAACTTTCTACGATCAGACGGTTGTCAGTAATGACATGGAAGAACATTT
AGAGGAGCCAGTTGTCAAACCAGAGCCTGATCCTGAACCAGAACCAGAGCAAGAACCTGTATCTAAAACCCAAGAGGACA
AGTCTGAGCCAGTGTTAGAAGCAACTGCTCCTGAGGATACGCAGAAGAGTTCTTCCCCAGCACCTGCAGGGACAGCTCAG
ACGGTCCAGGAAGACTTGAGGACCTTTTCCTGGGCATCTGTGACCCATAAGAACCTTCCACCCAGTGCAGCTATTCTAGT
TCCTGGAATACCACCTCATGTGGTTAAAGTACCAGCTTCACAGTGTCATCTACAGTCTAAGCCTGAATCTCAGACTCCAC
CACAAGAGACCTCAAAGGGATCAAGGAATGTGAGAACAATGGATAAATATTCCTCCCCAGAGAGGCCAGAGACCAATTCA
TGAGGCTGGTGAGCAAGGAAATGTTGAGCCCAGAAGAACTGTGAGACACCCTGACAGTGAGCAACTCTTCATTGGCAATC
TGCCTCATGAGGTGGACAAATTAGAGCTTAAAGATTTCTTTCAAAATTATGGGAATGTGGTGGAGCTGCTCATCAACCGT
GGTGGGAAATTACCCAATTTTGGTTTTGTTGTGTTTGATGATTCTGAGCCTGTTCAGAAGGTC

Alignment

ORF - retro_ogar_3156 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.75 %
• Parental protein coverage: 84.71 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MVMEKPSPLLVGREFVRQYYTLLNQAPDMLHRFYGKNSSYVHGGLDSNGKPADAVYGQKEIHRKVMSQNF
          MV.EK...LLVG.EFV.QYYTLL.QAPD.L.RFYGKNSSYVHGGLDSNG.PADAVYGQKEIH.KVMSQNF
Retrocopy MVLEKLCLLLVGWEFVIQYYTLLKQAPDKLYRFYGKNSSYVHGGLDSNGNPADAVYGQKEIHGKVMSQNF

Parental  TNCHTKIRHVDAHATLNDGVVVQVMGLLSNNNQALRRFMQTFVLAPEGSVANKFYVHNDIFRYQDEVFGG
          TNC.TKIRHVDAH.TLND.VVVQV.G.LSNN.QALR.FM.TFVLAPEGSVA.KFYVHNDIFRYQDEVFGG
Retrocopy TNCRTKIRHVDAHVTLNDSVVVQVIGVLSNNHQALRTFMKTFVLAPEGSVASKFYVHNDIFRYQDEVFGG

Parental  FVTEPQEESEEEVEEPEERQQTPEVVPDDSGTFYDQTVVRFSCESNDMEEHLEEPVVEPEPDPEPEPEQE
          .VTEPQEESEE.VEE.EERQ.T.EVVPDDSGTFYDQTVV....E....EE....PVV.PEPDPEPEPEQE
Retrocopy LVTEPQEESEEKVEECEERQ*TSEVVPDDSGTFYDQTVVSNDMEEH-LEE----PVVKPEPDPEPEPEQE

Parental  PVSEIQEEKSEPVLEETAPEDTQKSSSPAPADISQTVQEDLRTFSWASVTSKNLPPSGAVPVTGIPPHVV
          PVS..QE.KSEPVLE.TAPEDTQKSSSPAPA...QTVQEDLRTFSWASVT.KNLPPS.A..V.GIPPHVV
Retrocopy PVSKTQEDKSEPVLEATAPEDTQKSSSPAPAGTAQTVQEDLRTFSWASVTHKNLPPSAAILVPGIPPHVV

Parental  KVPASQPRPESKPETQIPPQ-RPQRDQRVREQRINIPPQRGPRPIREAGEQGDVEPRRIVRHPDSHQLFI
          KVPASQ....SKPE.Q.PPQ.RPQRDQ...EQ.INIPPQRG.RPI.EAGEQG.VEPRR.VRHPDS.QLFI
Retrocopy KVPASQCHLQSKPESQTPPQ>RPQRDQGM*EQWINIPPQRGQRPIHEAGEQGNVEPRRTVRHPDSEQLFI

Parental  GNLPHEVDKSELKDFFQNYGNVVELRINSGGKLPNFGFVVFDDSEPVQKV
          GNLPHEVDK.ELKDFFQNYGNVVEL.IN.GGKLPNFGFVVFDDSEPVQKV
Retrocopy GNLPHEVDKLELKDFFQNYGNVVELLINRGGKLPNFGFVVFDDSEPVQKV

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_3156 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.

---

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,