RetrogeneDB ID: retro_tsyr_150

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_3910:132210..132808(-)
• Located in intron of: ENSTSYG00000007396

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000002858
• Aliases: None
• Description: None

Sequence

>retro_tsyr_150
TCCCTCTTCCTGGTTGCCTTTTGCTTCGGAATAGCTTCAGCTGCTCCCACACTGGATGACAGTTAAGTTGCACAGTGGAA
CCAGTGGAAGGCAAAATACAGGAAATTATATGCAATGAATGAAGAAGGATGGCAGAGAGCAGTGTGGGAGAAGAATATGA
AACTGATCATACAGCACAATCAGGAATACAGGGAAGGGAAACATGGCTTCCCGTTGGCCATGAACACCTTTGAGGACATG
ACCAGTAAAGAATACAACCAGAGGATGAATGATTTTCAATACCAGAAGCACAAGAAGGGGAAAGTGTTCCAGGAACCTCC
CTTTTCTTATGTCCACCCATCTATGGATTGGAGAAAGGAGGGCTACGTGACTCCTGTGAAGGATCAGTATGAACGTGATT
CAGGTTGGGCTTTTGTGCAACTGGTGCTCTTGAAGGACAAACTTCTGAAAAACTGGCAAACTTGTTGTACTGAGTGAGCA
AAACCTGGTGGACTGTTCTCAGACTCAAGGAAATGCGGGTTGTAAAGGTGGCAGGATGGATTATGCCTTCCAGTTTGTAA
AGAAGAATGGAGGCCTGGACTCTGCGACATCCTATCCT

Alignment

ORF - retro_tsyr_150 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.42 %
• Parental protein coverage: 60.06 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SLVLAVFCLGIASAAPTLGHSLAARWNQWKAEHEKLYEMNEEGWPRTMWKKNMKMIEEHSEEYKEGKRGF
          SL.L..FC.GIASAAPTL..S..A.WNQWKA...KLY.MNEEGW.R..W.KNMK.I..H..EY.EGK.GF
Retrocopy SLFLVAFCFGIASAAPTLDDS*VAQWNQWKAKYRKLYAMNEEGWQRAVWEKNMKLIIQHNQEYREGKHGF

Parental  TVAMNALGDIXXXXXXXXXXXXXXXXXRKGKAFQAPPLSDFPPSMDWRKKGFVTPVKFQGPCGSCWA-FS
          ..AMN...D...................KGK.FQ.PP.S...PSMDWRK.G.VTPVK.Q....S.WA.F.
Retrocopy PLAMNTFEDMTSKEYNQRMNDFQYQKHKKGKVFQEPPFSYVHPSMDWRKEGYVTPVKDQYERDSGWA<FC

Parental  ATGALEGQMVWK-TGQLVALSEQNLVDCSGPQGNLGCDGGWMESAFQYVLENGGLDAEEFYP
          ATGALEGQ...K.TG.LV.LSEQNLVDCS..QGN.GC.GG.M..AFQ.V..NGGLD....YP
Retrocopy ATGALEGQTSEK<TGKLVVLSEQNLVDCSQTQGNAGCKGGRMDYAFQFVKKNGGLDSATSYP

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_150 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 10 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000019810	1 retrocopy	retro_dord_197,
Macropus eugenii	ENSMEUG00000002168	2 retrocopies	retro_meug_1349, retro_meug_1567,
Macropus eugenii	ENSMEUG00000014293	1 retrocopy	retro_meug_1873,
Macropus eugenii	ENSMEUG00000016209	2 retrocopies	retro_meug_159, retro_meug_1727,
Myotis lucifugus	ENSMLUG00000003975	1 retrocopy	retro_mluc_2231,
Myotis lucifugus	ENSMLUG00000025440	1 retrocopy	retro_mluc_2399,
Macaca mulatta	ENSMMUG00000013861	1 retrocopy	retro_mmul_1669,
Monodelphis domestica	ENSMODG00000002844	1 retrocopy	retro_mdom_1101,
Petromyzon marinus	ENSPMAG00000003453	1 retrocopy	retro_pmar_7,
Tarsius syrichta	ENSTSYG00000002858	2 retrocopies	retro_tsyr_150 , retro_tsyr_603,