RetrogeneDB ID: retro_tsyr_2104

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_91403:5415..7233(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000009415
• Aliases: None
• Description: None

Sequence

>retro_tsyr_2104
AAGGAGCAATCAGCCTTTGCTCCCATTGAACATGTACTCAGCGGCTGGACGGCAAGAACTCTGCTGGAGCAGAAAGTTTT
TAACCTCCTCCATAAAAATAAGCAGCCAGTGACAGACCATTTTCTGACTCCAATGGAAAAGGCCTCTCTCAAAGCCATGA
GTCTAGAAGAGGCAAAGATGCACCAAGCAGAGCTTCAGAGGGCCCGGGCTTTGCAGTCCTACTACGAGGCCAGGGCTCAA
AGAGAAAAGAAAATCAAAAGCAAAAAGTATCACAAAATTGTGAAGAAAGAAAAGGCCAAGAAAGCCCTAAAAGCTTTTGA
GCAGCTGGGGAAGGTCAACCCAACTGTGGCATTGGAAAAACTTGAAAAGGCCAGAATAATGGAGCGAATGAGCCTGAAGC
ACCAGAACAGTGGGAAATGGGCCAAGTCAAAGGTAATTATGGCCAAATATGACCTGGAGGCTCACCAGGCTATGCAGGAA
CAATTGTCTAAGAACAAAGAATTGATGCAGAAACTCCAGATAGCTTTGGAGAGTGAGGAAGAAGAGAGAGGCCCAGAAGA
AGTGGAGGAACTCCTTATCCCTGGTGTGGTGAATAAAGTTCAGATGAATGCAGATGGACCAAATCCCTGGATGCTCAGTA
GTTGCACCCAGGATTCAAGGGAGGCCGAGACCCATGAGGACCTTGAGGAACTGCCAGAGCCTGTGGCCCACGAGGTTTCT
GAAAGTGAGGTAGATGAAGGACCAGTGGCAGAGGAGGAAATTTTGTTGAAAGAATTTGAGGAATGGCGATCCCTTAGAAG
AAGGTCTGAGCTCAGCCAAGATGCTGAACTAGTGGGCAGTCAAGAAACAAAGGAGTCTAGCAGCCAGGAGAAGCTCTCCG
AATTGAGGGCACCGTCTCAGAGATTTAAGGAAAACCATCAATCCTGGAAGCCAAAAGCAAGTCCAACAGGGACTGTTCCT
CAGGCTCACAGAGAGGAACCTTCCCTGGAAGAAGAGGAACCCCTGTTGCTGCAGAGACCAAAGAGAGTACAGACCCTGGA
AGAGCTAGAAGAGCTAGAGAAAGAAGAATGTTCTCAAAGTCAGGAGTTTTTCAGACCTGGGTTAGAAGGGCAGCAGTTGG
AGAGGAACCCAAATAATCTGTCTAATGCCCCTAAGGAGAAGAAAAAGAAGGAGCAAATGCTTGACCTGCAGAACCTCCTA
ACCACAAAATCCCCTTCTGTGAGGTCTCTGGCAGTTCCCACAACTCTAAAGGAGGTGGACGATGAAGAGGAGAGAGACCA
AAAGCAGATGATAAAGGAAGCTTTTGCTGGAGATGATGTCATCAAAGACTTTTTGAAAGAGAAGAGGGACACTATAGAGG
CAAGTAAATCAAAAGACATGGACCTGACGCTACCTGGCTGGGGCAAATGGGGTGGTATGGGCCTGAAGCCCAGTGCCAAG
AAAAGACGACATTTTCTCATTAAAGCCCCAGGTCCTCCAAGAAAAGACAAGAATTTTCCAAATGTGATTATCAATGAGAA
GCGTAACATCCACGCAGCGGCCCATCAGGTACAGGTGCTTCCATATCCATTCACCCATCATTCACAATTTGAAAGGACCG
TCCAGACCCCTATAGGATCTACGTGGAACACCCAGAGGGCCTTCCAAAAGCTGACTACGCCCAAGGTTGTCACCAAGCCA
GGCCATATCATTAAGCCCATAAAAGCAGAGGATGTGGGCTACTGGTCTTCCTCAAGGTCAGACCTCTCTGTCATGCAGAG
GTATCCAAAACAACTCTCCATGAGTCACAAAAAACAACTGAAGAAGAACTCTGTGGAT

Alignment

ORF - retro_tsyr_2104 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.3 %
• Parental protein coverage: 78.91 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KEQSAFAPIEHVLSGWTARTPLEQEVFNLLHKNKQPVTDPLLTPMEKASLKAMSLEEAKMRRAELQRARA
          KEQSAFAPIEHVLSGWTART.LEQ.VFNLLHKNKQPVTD..LTPMEKASLKAMSLEEAKM..AELQRARA
Retrocopy KEQSAFAPIEHVLSGWTARTLLEQKVFNLLHKNKQPVTDHFLTPMEKASLKAMSLEEAKMHQAELQRARA

Parental  LQSYYEARARREKKIKSKRYHKIVKKEKAKRALKAFEQLRKVNPAAALEELKKIEKARMMERMSLKHQNS
          LQSYYEARA....................K.ALKAFEQL.KVNP..ALE...K.EKAR.MERMSLKHQNS
Retrocopy LQSYYEARAXXXXXXXXXXXXXXXXXXXXKKALKAFEQLGKVNPTVALE---KLEKARIMERMSLKHQNS

Parental  GKWAKSKAIMAKYDLEARQAMQEQLAKNKELTQKLQVASESEEEERGAEETEELLVPDVVNEVQMNPDGP
          GKWAKSK.IMAKYDLEA.QAMQEQL.KNKEL.QKLQ.A.ESEEEERG.EE.EELL.P.VVN.VQMN.DGP
Retrocopy GKWAKSKVIMAKYDLEAHQAMQEQLSKNKELMQKLQIALESEEEERGPEEVEELLIPGVVNKVQMNADGP

Parental  NPWMLRSCTRDIKEAEAHEDPEELPDPVAHEVSESEGDERPVAEEEILLKEVEERRSLRRRSELSQDAEP
          NPWML.SCT.D..EAE.HED.EELP.PVAHEVSESE.DE.PVAEEEILLKE.EE.RSLRRRSELSQDAE.
Retrocopy NPWMLSSCTQDSREAETHEDLEELPEPVAHEVSESEVDEGPVAEEEILLKEFEEWRSLRRRSELSQDAEL

Parental  VGSQETKDSSSQEVLSELRALSQKFKKNHQSRKPKASSVSTGHQVQREEPALEEEEPLLLQRSKRVQTVE
          VGSQETK.SSSQE.LSELRA.SQ.FK.NHQS.KPKAS...T..Q..REEP.LEEEEPLLLQR.KRVQT..
Retrocopy VGSQETKESSSQEKLSELRAPSQRFKENHQSWKPKASPTGTVPQAHREEPSLEEEEPLLLQRPKRVQTLX

Parental  ELEELEKEECSQNQEFLRPGLKGQQLERNPNNLPNAPKEKKKKEQMIDLQNLLSTKSPSVKSLAVPTTLE
          ......KEECSQ.QEF.RPGL.GQQLERNPNNL.NAPKEKKKKEQM.DLQNLL.TKSPSV.SLAVPTTL.
Retrocopy XXXXXXKEECSQSQEFFRPGLEGQQLERNPNNLSNAPKEKKKKEQMLDLQNLLTTKSPSVRSLAVPTTLK

Parental  EMDDEEERDQKQMIKEAFAGDDVIRDFLKEKRESMEASKPKDVDLTLPGWGEWGGMGLKPSTKKRRRFLI
          E.DDEEERDQKQMIKEAFAGDDVI.DFLKEKR...EASK.KD.DLTLPGWG.WGGMGLKPS.KKRR.FLI
Retrocopy EVDDEEERDQKQMIKEAFAGDDVIKDFLKEKRDTIEASKSKDMDLTLPGWGKWGGMGLKPSAKKRRHFLI

Parental  KAPEGPPRKDKNLPNVIINEKRNIHAAAHQVQVLPYPFTHHSQFERTIQTPIGSTWNTQRAFQKLTTPKV
          KAP.GPPRKDKN.PNVIINEKRNIHAAAHQVQVLPYPFTHHSQFERT.QTPIGSTWNTQRAFQKLTTPKV
Retrocopy KAP-GPPRKDKNFPNVIINEKRNIHAAAHQVQVLPYPFTHHSQFERTVQTPIGSTWNTQRAFQKLTTPKV

Parental  VTKPGHIIKPIKPEDVGYRSSSRSDLSVMQRNPKRLSASHKKQLKKNSVD
          VTKPGHIIKPIK.EDVGY.SSSRSDLSVMQR.PK.LS.SHKKQLKKNSVD
Retrocopy VTKPGHIIKPIKAEDVGYWSSSRSDLSVMQRYPKQLSMSHKKQLKKNSVD

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_2104 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 14 parental genes, and 17 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000013671	2 retrocopies	retro_btau_133, retro_btau_1706,
Cavia porcellus	ENSCPOG00000014231	2 retrocopies	retro_cpor_1272, retro_cpor_242,
Dasypus novemcinctus	ENSDNOG00000002180	1 retrocopy	retro_dnov_1479,
Homo sapiens	ENSG00000156697	1 retrocopy	retro_hsap_29,
Gorilla gorilla	ENSGGOG00000014930	1 retrocopy	retro_ggor_163,
Loxodonta africana	ENSLAFG00000016653	1 retrocopy	retro_lafr_110,
Myotis lucifugus	ENSMLUG00000001984	2 retrocopies	retro_mluc_1643, retro_mluc_308,
Macaca mulatta	ENSMMUG00000020700	1 retrocopy	retro_mmul_35,
Mus musculus	ENSMUSG00000063785	1 retrocopy	retro_mmus_261,
Nomascus leucogenys	ENSNLEG00000015258	1 retrocopy	retro_nleu_2091,
Procavia capensis	ENSPCAG00000006070	1 retrocopy	retro_pcap_127,
Pan troglodytes	ENSPTRG00000022262	1 retrocopy	retro_ptro_824,
Tarsius syrichta	ENSTSYG00000009415	1 retrocopy	retro_tsyr_2104 ,
Tursiops truncatus	ENSTTRG00000003794	1 retrocopy	retro_ttru_1687,