RetrogeneDB ID: retro_tsyr_1038

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_284907:2515..2761(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: TBCA
• Ensembl ID: ENSTSYG00000000514
• Aliases: None
• Description: tubulin folding cofactor A [Source:HGNC Symbol;Acc:11579]

Sequence

>retro_tsyr_1038
TTGGTCAAAGAAAAAGTGATGTATGAAAAAGAAGCAAAACAACAAGAAGAAAAGATTGAAAAAATGAGAGCTGAAGATGG
TGAAAATTATACCCTTAAAAAGCAGGTAGAGATCCTAAAGGAGTCCCGGATGATGAACCCAGATTGCCAGCGCAGGTTGG
AAGCAGCATACGCCAACCTCCGGCAGGTGTTAGAAAGTGAAAAAGACTTGGAGGAAACTGAAGAATATAAAGAAGCACGT
TTAGTA

Alignment

ORF - retro_tsyr_1038 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.17 %
• Parental protein coverage: 91.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LVKEKVMYEKEAKQQEEKIEKMRAEDGENYAIKKQAEILQESRMMIPDCQRRLEAAYADLQQVLESEKDL
          LVKEKVMY..............RAEDGENY..KKQ.EIL.ESRMM.PDCQRRLEAAYA.L.QVLESEKDL
Retrocopy LVKEKVMYXXXXXXXXXXXXXXRAEDGENYTLKKQVEILKESRMMNPDCQRRLEAAYANLRQVLESEKDL

Parental  EEAEEYKEARLV
          EE.EEYKEARLV
Retrocopy EETEEYKEARLV

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_1038 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 28 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000014223	4 retrocopies	retro_acar_11, retro_acar_130, retro_acar_142, retro_acar_195,
Callithrix jacchus	ENSCJAG00000019848	4 retrocopies	retro_cjac_114, retro_cjac_2160, retro_cjac_2173, retro_cjac_2974,
Cavia porcellus	ENSCPOG00000012187	1 retrocopy	retro_cpor_930,
Echinops telfairi	ENSETEG00000016572	1 retrocopy	retro_etel_93,
Macaca mulatta	ENSMMUG00000011853	1 retrocopy	retro_mmul_229,
Mus musculus	ENSMUSG00000042043	3 retrocopies	retro_mmus_1486, retro_mmus_2839, retro_mmus_2970,
Ochotona princeps	ENSOPRG00000002460	4 retrocopies	retro_opri_550, retro_opri_727, retro_opri_879, retro_opri_91,
Rattus norvegicus	ENSRNOG00000048342	1 retrocopy	retro_rnor_140,
Sorex araneus	ENSSARG00000009943	1 retrocopy	retro_sara_699,
Ictidomys tridecemlineatus	ENSSTOG00000009840	1 retrocopy	retro_itri_246,
Tupaia belangeri	ENSTBEG00000006034	6 retrocopies	retro_tbel_1073, retro_tbel_113, retro_tbel_1286, retro_tbel_2336, retro_tbel_2905, retro_tbel_756,
Tarsius syrichta	ENSTSYG00000000514	1 retrocopy	retro_tsyr_1038 ,