RetrogeneDB ID: retro_tsyr_1391

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_423995:497..1252(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: G3BP1
• Ensembl ID: ENSTSYG00000004570
• Aliases: None
• Description: GTPase activating protein (SH3 domain) binding protein 1 [Source:HGNC Symbol;Acc:30292]

Sequence

>retro_tsyr_1391
CAACAAACACCTGAGGTGGTACCTGATGATTCTGGAACTTTCTATGATCAGACTGTTGTCAGTAATGACATGGAAGAACA
TTTAAAGGAGCCTGTTGCTGAGCCAGGGCCTGAGCCTGAACCAGAACCAGAGCAGGAACCTGTATCTGAAATCCAAGAGG
AAAAGTCTGAGCCAGTTTTAGAAGAAACTTCTCCTGAGGATGCTCAGAAGAGCTCTTCTCCTGCACCTGCAGACATAGCT
CAGACAGTGCAGGAAGACTTGAGGACGTTTTCTTGGGCATCTGTGACCAGTAAGAACCTTCCACCCAGTGGAGCTCTTCT
GGTTACTGGGATACCACCTCATGTTGTTAAAGTGCCAGCTTCACAGCCCCGTCAAGAGTCTAAGCCTGAATCTCAGATTC
CACCACAGAGACCTCAGAGGGATCAAAGAGTGCAAGAACAACGAATAAATATTCCTCCCCAGAGGGGACCCAGACGAGAA
GGCAATGTTGAACCTAAAGAATTGTGAGACACCTTGACAATCACCAACTCTTCATTGGCGACCTGCCTCAGGAGGTGGGC
ACATCAAAGTTTAAAGATTTCTCTCAATTTTATGGAAATGTGCTGGAGCTACGCATTAACAGTGAGGAGTTACCCAATTT
TGGTTTTGTTGTGTTTGATGATTCTGAGTCTGTTTTGAAGGTCCTAGGCAAGAGGCCCATTATATTCAGAGGAGAGGTCG
GTCTGAAGGTGGAAGAGCAGACAACTTGAGCTGCT

Alignment

ORF - retro_tsyr_1391 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.85 %
• Parental protein coverage: 55.58 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  QQTPEVVPDDSGTFYDQTVVSNDMEEHLEEPVAEPEPEPEPEPEQEPVSEIQEEKSEPVLEETAPEDAQK
          QQTPEVVPDDSGTFYDQTVVSNDMEEHL.EPVAEP.PEPEPEPEQEPVSEIQEEKSEPVLEET.PEDAQK
Retrocopy QQTPEVVPDDSGTFYDQTVVSNDMEEHLKEPVAEPGPEPEPEPEQEPVSEIQEEKSEPVLEETSPEDAQK

Parental  SSSPAPADIAQTVQEDLRTFSWASVTSKNLPPSGAVPVTGIPPHVVKVPASQPRQESKPESQIPPQRPQR
          SSSPAPADIAQTVQEDLRTFSWASVTSKNLPPSGA..VTGIPPHVVKVPASQPRQESKPESQIP...PQR
Retrocopy SSSPAPADIAQTVQEDLRTFSWASVTSKNLPPSGALLVTGIPPHVVKVPASQPRQESKPESQIP---PQR

Parental  DQRVREQRINIPPQRGPRPIRESGEQGDVEPR-RIVRHPDSHQLFIGNLPHEVDKAELKDFFQNYGNVVE
          .QR...QR........P.P.R.....G.VEP..RIVRH.D.HQLFIG.LP.EV.....KDF.Q.YGNV.E
Retrocopy PQR--DQRVQEQRINIP-PQRGPRREGNVEPK<RIVRHLDNHQLFIGDLPQEVGTSKFKDFSQFYGNVLE

Parental  LRINSGGKLPNFGFVVFDDSEPVQKVLSNRPIMFRGEVRLNVEEKKTRAA
          LRINS...LPNFGFVVFDDSE.V.KVL..RPI.FRGEV.L.VEE..T.AA
Retrocopy LRINS-EELPNFGFVVFDDSESVLKVLGKRPIIFRGEVGLKVEEQTT*AA

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tarsius syrichta was not studied using RNA-Seq expression data.

ChIP-Seq

Tarsius syrichta was not studied using ChIP-Seq data.

EST

Tarsius syrichta was not studied using EST data.

TSS

Tarsius syrichta was not studied using FANTOM5 data.

Lab

retro_tsyr_1391 was not experimentally validated.

Homology

Retrocopy orthology:

Tarsius syrichta 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 12 parental genes, and 18 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,
Oryctolagus cuniculus	ENSOCUG00000022143	1 retrocopy	retro_ocun_1352,
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 ,