RetrogeneDB ID: retro_tsyr_1632

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_52142:5441..5840(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000000388
• Aliases: None
• Description: None

Sequence

>retro_tsyr_1632
ATGAGTAATGTAGTGGAGAACAACTTTGAGGGCAGAGAGTCTCGCTCTCAGTCAAAATCTCCAAAGGGAACTCCTGCTCA
TGTAAAATCAGAGAACAGGCCAGAATCTTGTAGTCCATCAAGAGTTTCCAAACACTCTGAATCCCATCCTCAATCAAGAT
CAAAATCTAGGTTGAGGTCAAGGAGGCATTCTCATGGACATTACACTCGGTCCAGATCCCACTCTCTCTCTCATGTAAGA
TGATCTCAAAGTAGATCATACACACCAGAATACCAACGATGGAAGAGCCAAAGTTATTTTCCAATATGGAACTGGAGAAG
ATATACAGGCAGCAGGGCAAATCCAGATCCCAACACTTGTCTTGAAGTGTTTGGCCTCAGTTTGTACATAATGGAGAGA

Alignment

ORF - retro_tsyr_1632 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.94 %
• Parental protein coverage: 61.86 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSDVEENNFEGRESRSQSKSPTGTPARVKSESRSGSRSPSRVSKHSESHSRSRSKSRSRSRRHSHRRYTR
          MS.V.ENNFEGRESRSQSKSP.GTPA.VKSE.R..S.SPSRVSKHSESH..SRSKSR.RSRRHSH..YTR
Retrocopy MSNVVENNFEGRESRSQSKSPKGTPAHVKSENRPESCSPSRVSKHSESHPQSRSKSRLRSRRHSHGHYTR

Parental  SRSHSHSHRRRSRSRSYTPEYRRRRSRSHSPMSNRRRHTGXXANPDPNTCLGVFGLSLYTTER
          SRSHS.SH.R.S.SRSYTPEY.R..S.S..P..N.RR.TG..ANPDPNTCL.VFGLSLY..ER
Retrocopy SRSHSLSHVR*SQSRSYTPEYQRWKSQSYFPIWNWRRYTGSRANPDPNTCLEVFGLSLYIMER

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_1632 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 15 parental genes, and 34 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000001697	2 retrocopies	retro_btau_1245, retro_btau_850,
Canis familiaris	ENSCAFG00000013345	2 retrocopies	retro_cfam_1971, retro_cfam_966,
Cavia porcellus	ENSCPOG00000006313	1 retrocopy	retro_cpor_162,
Microcebus murinus	ENSMICG00000010611	3 retrocopies	retro_mmur_1102, retro_mmur_1135, retro_mmur_1410,
Myotis lucifugus	ENSMLUG00000005781	2 retrocopies	retro_mluc_2565, retro_mluc_2567,
Mustela putorius furo	ENSMPUG00000003157	1 retrocopy	retro_mputfur_673,
Mus musculus	ENSMUSG00000022858	6 retrocopies	retro_mmus_1187, retro_mmus_2253, retro_mmus_2313, retro_mmus_3139, retro_mmus_3617, retro_mmus_756,
Ochotona princeps	ENSOPRG00000007990	2 retrocopies	retro_opri_24, retro_opri_930,
Rattus norvegicus	ENSRNOG00000001783	4 retrocopies	retro_rnor_1130, retro_rnor_1915, retro_rnor_2156, retro_rnor_2807,
Sarcophilus harrisii	ENSSHAG00000002437	2 retrocopies	retro_shar_684, retro_shar_826,
Ictidomys tridecemlineatus	ENSSTOG00000006720	2 retrocopies	retro_itri_1807, retro_itri_776,
Tupaia belangeri	ENSTBEG00000015927	1 retrocopy	retro_tbel_435,
Tarsius syrichta	ENSTSYG00000000388	1 retrocopy	retro_tsyr_1632 ,
Tarsius syrichta	ENSTSYG00000008670	4 retrocopies	retro_tsyr_1733, retro_tsyr_197, retro_tsyr_2002, retro_tsyr_679,
Tarsius syrichta	ENSTSYG00000009555	1 retrocopy	retro_tsyr_15,