RetrogeneDB ID: retro_tsyr_862

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_22235:23866..24154(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPS18A
• Ensembl ID: ENSTSYG00000001390
• Aliases: None
• Description: mitochondrial ribosomal protein S18A [Source:HGNC Symbol;Acc:14515]

Sequence

>retro_tsyr_862
ATGGCAGCCCTCAAGGAGCTTGTGTCTGGCTGTGGGCTGATTCTCTGAGGCCTCCTGGCGGGCCCAGCTGCGACCAACTG
TACTAGGCCTCCAGTTCGTGGGTTCAAGGAAGTGGTGGATATCCAAGAAGGGAAGACAACTATAACTGAAGACCATATCA
CAGGGACTCCCAAGGAGAGTCTAAATTCTCTTAACCCCTCTGGCCAGTGCCCCATCTGCCGCTGGAGCCTGAAGCACAAG
TATAATTTTGAGAATGTTCTGCTGCTCAGTGAGTTCATCCGGTCTCAC

Alignment

ORF - retro_tsyr_862 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.21 %
• Parental protein coverage: 66.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAALKALVSGCELFLRGLLAGPAATSCIRPPVRGFREVVEIQEGKTTIIEGRITGTPKESPNPPNPSGQC
          MAALK.LVSGC.L.L.GLLAGPAAT.C.RPPVRGF.EVV.IQEGKTTI.E..ITGTPKES.N..NPSGQC
Retrocopy MAALKELVSGCGLIL*GLLAGPAATNCTRPPVRGFKEVVDIQEGKTTITEDHITGTPKESLNSLNPSGQC

Parental  PICRWNLKHKYNYEDVLLLSQFIRPH
          PICRW.LKHKYN.E.VLLLS.FIR.H
Retrocopy PICRWSLKHKYNFENVLLLSEFIRSH

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_862 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000017382	1 retrocopy	retro_cjac_1386,
Homo sapiens	ENSG00000096080	1 retrocopy	retro_hsap_2787,
Macropus eugenii	ENSMEUG00000013986	1 retrocopy	retro_meug_1966,
Pongo abelii	ENSPPYG00000017282	1 retrocopy	retro_pabe_2230,
Pan troglodytes	ENSPTRG00000018209	1 retrocopy	retro_ptro_1888,
Tarsius syrichta	ENSTSYG00000001390	1 retrocopy	retro_tsyr_862 ,