RetrogeneDB ID: retro_tsyr_1797

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_59120:3241..3438(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MED11
• Ensembl ID: ENSTSYG00000014148
• Aliases: None
• Description: mediator complex subunit 11 [Source:HGNC Symbol;Acc:32687]

Sequence

>retro_tsyr_1797
ATAGCTCCCTACAGTCTGGCGAACGCGCAACTACGTGCCCTAGACAGCATCGAATGGGAAAACGGCACCATCCTTCAGAA
TGCAGCACCGTGATCCCAGTATTGTCAACGCAAAAAAACCAATGCGTGGCTCCTAGACTGGCAGATGGCAGCCTTACCAC
TTGAGAGCAACACGTGGAGTCGGAGTTGGTGGCTCAG

Alignment

ORF - retro_tsyr_1797 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.73 %
• Parental protein coverage: 91.67 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MATYSLANERLRALEDIEREIGAILQNAXXVILELSKEKSNERLLDRQAAA-FTASVQHVEAELSAQ
          .A.YSLAN..LRAL..IE.E.G.ILQNA..........K.N..LLD.Q.AA..T...QHVE.EL.AQ
Retrocopy IAPYSLANAQLRALDSIEWENGTILQNAAP*SQYCQRKKTNAWLLDWQMAA<LTT*EQHVESELVAQ

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_1797 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Macropus eugenii	ENSMEUG00000004247	2 retrocopies	retro_meug_1797, retro_meug_2072,
Myotis lucifugus	ENSMLUG00000002540	2 retrocopies	retro_mluc_376, retro_mluc_38,
Monodelphis domestica	ENSMODG00000028979	1 retrocopy	retro_mdom_1461,
Tarsius syrichta	ENSTSYG00000014148	1 retrocopy	retro_tsyr_1797 ,