RetrogeneDB ID: retro_tsyr_67

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_1559:27755..28069(-)
• Located in intron of: ENSTSYG00000014292

Retrocopy information

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

Parental gene information

• Parental gene symbol: C6orf57
• Ensembl ID: ENSTSYG00000001769
• Aliases: None
• Description: chromosome 6 open reading frame 57 [Source:HGNC Symbol;Acc:20957]

Sequence

>retro_tsyr_67
GCCCCACCGAGGTTCTCTGGGCTGCTCAGCAGTACCTCGGCAGCAGCTTGGAGAGCGGCAACATTACCCCTCCGGTGCCA
TTCATTGAGGAAAGAAAGTGCTTCTCAAGGAGGAAAGTCTGAACCCATCCAACAGTCCCTCAGGAGCCAACATTACCAGA
AGGTGGTTTTGATACACCTAAAGATTCCCACTTGGAGAAAGAACCACTGGGAAAATGTCCAGATGATGTTAATCCAGTTA
CCAAAGAAAAAGGTGGACTCAGGGGTCCCGAACCTACCTGATAAGAAGATTGGGAATGAAAAGGACACTGTATT

Alignment

ORF - retro_tsyr_67 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.58 %
• Parental protein coverage: 97.22 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SPSRLSGLLSRASAAAWTAARSPLLCHSLRKASASQRGKSEPVQQP-PKKPTLPEGRFDAPEDSQLEKEP
          .P.R.SGLLS..SAAAW.AA..PL.CHSLRK.SASQ.GKSEP.QQ..P..PTLPEG.FD.P.DS.LEKEP
Retrocopy APPRFSGLLSSTSAAAWRAATLPLRCHSLRKESASQGGKSEPIQQS<PQEPTLPEGGFDTPKDSHLEKEP

Parental  LEKFPDDVNPVTKEKGGPRGPEPTRYGDWERKGRCI
          L.K.PDDVNPVTKEKGG.RGPEPT...DWE.KG.CI
Retrocopy LGKCPDDVNPVTKEKGGLRGPEPT**EDWE*KGHCI

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_67 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 8 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000002602	2 retrocopies	retro_cfam_268, retro_cfam_657,
Choloepus hoffmanni	ENSCHOG00000011410	6 retrocopies	retro_chof_176, retro_chof_1854, retro_chof_252, retro_chof_465, retro_chof_694, retro_chof_966,
Erinaceus europaeus	ENSEEUG00000011260	1 retrocopy	retro_eeur_539,
Echinops telfairi	ENSETEG00000011154	1 retrocopy	retro_etel_1362,
Felis catus	ENSFCAG00000026799	1 retrocopy	retro_fcat_986,
Rattus norvegicus	ENSRNOG00000028087	1 retrocopy	retro_rnor_1514,
Tupaia belangeri	ENSTBEG00000004344	2 retrocopies	retro_tbel_3788, retro_tbel_4408,
Tarsius syrichta	ENSTSYG00000001769	1 retrocopy	retro_tsyr_67 ,