RetrogeneDB ID: retro_tsyr_1710

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_55192:4331..4813(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MRPL32
• Ensembl ID: ENSTSYG00000014296
• Aliases: None
• Description: mitochondrial ribosomal protein L32 [Source:HGNC Symbol;Acc:14035]

Sequence

>retro_tsyr_1710
ATGGCATTGGCCATGCTTGCTGCTTATGGTTCTGCAGTGGCCGGCAGTCCGGAGACTGCTCTAAAACTGTTGGGAGCGAC
TACAGCAGAAGCTTGAGCAGAACTGGCCAGGTTTTCCCAGCTCCCTGTGGGGACCAGCATTAGCAGTCCAGGGTCCAGCC
ATATTTATAGAGCCAGCAAAATGATGCCAGTTGAAGTAAGGAGAATCCCAGCCTTTTGGATATCTTCTGGATGGCAGCTC
CCAAAAACAGATGCAGCATTGAAGTTAACCAATGGAGGAGAAGAAATCCTCAGAAGCTTATTAAAGTTAAGAACAATATA
ACCATTTGTCCTGAGTGTGGTCACCCGAAACAGAAACATTTCCTTTGTGGTTATTGCTGTGAGAAGATGTGCGAGGAGAC
TGCAGAAATCAGATGACAGACACGGAAACAAGAAGGGAGCCCTTTTAAGGCTCCCACTGTAGAGAGTATGGTACTGTACA
CA

Alignment

ORF - retro_tsyr_1710 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.14 %
• Parental protein coverage: 98.17 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MASAML-LIMLPRWSAARGRLRNCWQRLQQKLQQSWPGFPSSPWGPALAVQGPAIFIEPA-NDTSGSKEN
          MA.AML.L.M...W.A.R..L.NCW.RLQQKL.Q.WPGFPSS.WGPALAVQGPAIFIEPA.ND.S.SKEN
Retrocopy MALAML>LLMVLQWPAVRRLL*NCWERLQQKLEQNWPGFPSSLWGPALAVQGPAIFIEPA>NDAS*SKEN

Parental  SSLLDNIFWMAAPKNRRSIEVNQCRRRNPQKLIKVKNNIDICPECGHLKQKHVLCGYCYEKVCKETAEIR
          .SLLD.IFWMAAPKNR.SIEVNQ.RRRNPQKLIKVKNNI.ICPECGH.KQKH.LCGYC.EK.C.ETAEIR
Retrocopy PSLLD-IFWMAAPKNRCSIEVNQWRRRNPQKLIKVKNNITICPECGHPKQKHFLCGYCCEKMCEETAEIR

Parental  RQIGKQEGGPFKAPTVETLVLYT
          .Q..KQEG.PFKAPTVE..VLYT
Retrocopy *QTRKQEGSPFKAPTVESMVLYT

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_1710 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Mustela putorius furo	ENSMPUG00000018146	1 retrocopy	retro_mputfur_60,
Mus musculus	ENSMUSG00000015672	1 retrocopy	retro_mmus_61,
Oryctolagus cuniculus	ENSOCUG00000012098	1 retrocopy	retro_ocun_474,
Otolemur garnettii	ENSOGAG00000016806	2 retrocopies	retro_ogar_1965, retro_ogar_2797,
Rattus norvegicus	ENSRNOG00000015989	1 retrocopy	retro_rnor_460,
Ictidomys tridecemlineatus	ENSSTOG00000013340	1 retrocopy	retro_itri_1122,
Tarsius syrichta	ENSTSYG00000014296	1 retrocopy	retro_tsyr_1710 ,