RetrogeneDB ID: retro_tsyr_2077

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_87183:2706..3273(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPS23
• Ensembl ID: ENSTSYG00000009862
• Aliases: None
• Description: mitochondrial ribosomal protein S23 [Source:HGNC Symbol;Acc:14509]

Sequence

>retro_tsyr_2077
ATGGCAGGCAGCCGGTTGGAGACCGTGGGGAGCATATTTTCGCGGACTCAGGACCTGATTCGGGTTGGGGTGTTGAAGGA
GAAGCCCCTCTGATATGATATATATAATGCTTTTCCCCTGCTGAGGGAGCCGGTCTTCCGAAGGCCCCGCTTGCGGTATG
GCAAAGCCAAATCTCCCATCCAGGACATCTGGTACCACGAGGATCGGATCAGAGCGAAATTTTATTCAGCCTATGGATCT
GGTCAAAAGGCTTTTGATCTGTTCAATCCAAACTTCAAGTCTGTCTGTCAACGGTTTGTGGAGAAGTACATTGAGCTGCA
GAAACTTGGAGAAACAAATGAGGAAAAATTATTTGTGGAAACAGTGAAAGCTTTATTGGCAGAAGGTGTCATTTTAAGAC
GTGTAGGAGAAGCAAAGACTCAGGCAGGTAGTCACGTTTCCTGGAAATCTGAAAACATGAGTGTCACACCCCAAACTGAG
TTGGAAGAAAACCAGCCTAAGAAAGAGGTTCCGCAGGACCAGCATTTGGAGGCATCTGAAGAACAGACAAAAGGTCTCTC
TCCTCCC

Alignment

ORF - retro_tsyr_2077 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.79 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAGSRLETVGSIFSRTRDLIRAGVLKEKPLWYDIYIAFPPLREPVFRRPRLRYGKAKSPIQDIWYHEDRI
          MAGSRLETVGSIFSRT.DLIR.GVLKEKPL.YDIY.AFP.LREPVFRRPRLRYGKAKSPIQDIWYHEDRI
Retrocopy MAGSRLETVGSIFSRTQDLIRVGVLKEKPL*YDIYNAFPLLREPVFRRPRLRYGKAKSPIQDIWYHEDRI

Parental  RAKFYSAYGSGQKAFDLFNPNFKSVCQRFVEKYIELQKLGETDEEKLFVETGKALLAEGVILRRVGEAKT
          RAKFYSAYGSGQKAFDLFNPNFKSVCQRFVEKYIELQKLGET.EEKLFVET.KALLAEGVILRRVGEAK.
Retrocopy RAKFYSAYGSGQKAFDLFNPNFKSVCQRFVEKYIELQKLGETNEEKLFVETVKALLAEGVILRRVGEAK-

Parental  TQAGSHVSWKSENMSVTPQTELEENQPKKEVPQDQHLEASEEQTKGLSPP
          TQAGSHVSWKSENMSVTPQTELEENQPKKEVPQDQHLEASEEQTKGLSPP
Retrocopy TQAGSHVSWKSENMSVTPQTELEENQPKKEVPQDQHLEASEEQTKGLSPP

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_2077 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 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000014008	1 retrocopy	retro_cjac_3047,
Cavia porcellus	ENSCPOG00000008761	1 retrocopy	retro_cpor_1175,
Felis catus	ENSFCAG00000005711	1 retrocopy	retro_fcat_963,
Homo sapiens	ENSG00000181610	1 retrocopy	retro_hsap_3727,
Macaca mulatta	ENSMMUG00000001913	1 retrocopy	retro_mmul_1691,
Mustela putorius furo	ENSMPUG00000015372	1 retrocopy	retro_mputfur_1274,
Nomascus leucogenys	ENSNLEG00000008072	1 retrocopy	retro_nleu_1972,
Pongo abelii	ENSPPYG00000025941	1 retrocopy	retro_pabe_3131,
Pan troglodytes	ENSPTRG00000009440	1 retrocopy	retro_ptro_2523,
Tarsius syrichta	ENSTSYG00000009862	1 retrocopy	retro_tsyr_2077 ,