RetrogeneDB ID: retro_tsyr_778

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_1977:68927..69287(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UXT
• Ensembl ID: ENSTSYG00000012719
• Aliases: None
• Description: ubiquitously-expressed, prefoldin-like chaperone [Source:HGNC Symbol;Acc:12641]

Sequence

>retro_tsyr_778
AGCCCAGAGGAGTCCATCATGGCGACACCCCTAAGCAGTGTGCAGTGGAGGCCATCGGGGAGAAAGTTCAGCGCTACGAG
GCCTTCATCAGTGATGTGCTGCAGCCGGACTGGCGAAAGGTGCTGGACCAGGTATATGAGCAGCTGGCCAAATACCTTCA
ACTGAAAAATGTCGTTGAGCGACTCCAGGAAGCTAAGCACTCGGAGTTATATATGCAGGAAGATTTGGGCTGTCACTTCG
TTGACACAGTGGTCCCAGATCCTTCATGCAGCTACGTGGCCCTGGGATAGCGTTTTTTTCCTGGAGTTGACATTAGCAGA
AGCCCTCAAGTTCATTGATCCTAAGAGCTCTCTCCTCACA

Alignment

ORF - retro_tsyr_778 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.95 %
• Parental protein coverage: 73.37 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  TPQEPIMATP-PKRRAVEATGEKVLRYEAFISDVLQRDLRKVLDHRDQVYEQLAKYLQLKNVIERLQEAK
          .P.E.IMATP.PK..AVEA.GEKV.RYEAFISDVLQ.D.RKVL...DQVYEQLAKYLQLKNV.ERLQEAK
Retrocopy SPEESIMATP<PKQCAVEAIGEKVQRYEAFISDVLQPDWRKVL---DQVYEQLAKYLQLKNVVERLQEAK

Parental  HSELYMQVDLGCNFFVDTVVPDTSRIYVALG-YGFFLELTLAEALKFIDRKSSLLT
          HSELYMQ.DLGC..FVDTVVPD.S..YVALG...FFLELTLAEALKFID.KSSLLT
Retrocopy HSELYMQEDLGCH-FVDTVVPDPSCSYVALG>SVFFLELTLAEALKFIDPKSSLLT

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_778 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
Cavia porcellus	ENSCPOG00000009154	1 retrocopy	retro_cpor_1302,
Dipodomys ordii	ENSDORG00000001025	1 retrocopy	retro_dord_627,
Erinaceus europaeus	ENSEEUG00000006151	1 retrocopy	retro_eeur_543,
Macropus eugenii	ENSMEUG00000003352	1 retrocopy	retro_meug_59,
Mustela putorius furo	ENSMPUG00000013405	1 retrocopy	retro_mputfur_999,
Mus musculus	ENSMUSG00000001134	3 retrocopies	retro_mmus_1424, retro_mmus_1766, retro_mmus_715,
Rattus norvegicus	ENSRNOG00000009893	5 retrocopies	retro_rnor_521, retro_rnor_522, retro_rnor_683, retro_rnor_692, retro_rnor_882,
Tarsius syrichta	ENSTSYG00000012719	2 retrocopies	retro_tsyr_237, retro_tsyr_778 ,