RetrogeneDB ID: retro_tsyr_1805

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_5955:33928..34267(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RPL26L1
• Ensembl ID: ENSTSYG00000001655
• Aliases: None
• Description: ribosomal protein L26-like 1 [Source:HGNC Symbol;Acc:17050]

Sequence

>retro_tsyr_1805
CCCCTCTCTCCAAAGAGCTGAGACAAGTACAATGTTCGATCCATACCCATCCAAATGGATGACAAAGTTCAGGTTGTATG
GAAATACTATAAAGGTCAGCAAACTGGCAAAGGAGTCCAGATTTACAGGAAGAAATATGTTATCTACACTGAATGGGTGC
AGTGGAAAAAGACTAATGGCACAACTGTCCATGTGGGCATTCACCCCAGCAAAGTAGTTATCACTAGGCTAAAACTGAAC
AAAGACCGTAAAAAGATCTTTGAACGGAAAGCCAAATCTAGCCAAGCAGGAAAGGAAAGGAGCAAATACAAGGAAGAAAC
CACCGAGAAGATGCAGGAA

Alignment

ORF - retro_tsyr_1805 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.91 %
• Parental protein coverage: 94.96 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PLCKELRQMYNVRSMTFGKEEEVQVVRGHYKGQQIGKVVQVYRKKYVIYIERVQREKANGTTVHVGIHPS
          PL.......YNVRS........VQVV...YKGQQ.GK.VQ.YRKKYVIY.E.VQ..K.NGTTVHVGIHPS
Retrocopy PLSPKS*DKYNVRSIPIQMDDKVQVVWKYYKGQQTGKGVQIYRKKYVIYTEWVQWKKTNGTTVHVGIHPS

Parental  KVVITRLKLDKDRKKILERKAKSRQVGKEKGKYKEELIEKMQE
          KVVITRLKL.KDRKKI.ERKAKS.Q.GKE..KYKEE..EKMQE
Retrocopy KVVITRLKLNKDRKKIFERKAKSSQAGKERSKYKEETTEKMQE

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_1805 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 64 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000011270	7 retrocopies	retro_amel_1106, retro_amel_1477, retro_amel_172, retro_amel_272, retro_amel_560, retro_amel_788, retro_amel_887,
Dasypus novemcinctus	ENSDNOG00000002289	35 retrocopies	retro_dnov_1106, retro_dnov_1147, retro_dnov_1171, retro_dnov_1258, retro_dnov_1304, retro_dnov_1319, retro_dnov_1344, retro_dnov_1381, retro_dnov_1501, retro_dnov_1676, retro_dnov_1819, retro_dnov_1959, retro_dnov_2039, retro_dnov_2041, retro_dnov_2061, retro_dnov_2078, retro_dnov_2103, retro_dnov_2116, retro_dnov_2121, retro_dnov_2287, retro_dnov_2297, retro_dnov_2438, retro_dnov_2545, retro_dnov_2580, retro_dnov_2632, retro_dnov_300, retro_dnov_306, retro_dnov_467, retro_dnov_646, retro_dnov_666, retro_dnov_681, retro_dnov_760, retro_dnov_850, retro_dnov_970, retro_dnov_985,
Latimeria chalumnae	ENSLACG00000007599	2 retrocopies	retro_lcha_5, retro_lcha_8,
Myotis lucifugus	ENSMLUG00000009799	1 retrocopy	retro_mluc_1556,
Tarsius syrichta	ENSTSYG00000001483	17 retrocopies	retro_tsyr_1273, retro_tsyr_1274, retro_tsyr_1499, retro_tsyr_153, retro_tsyr_1705, retro_tsyr_1858, retro_tsyr_1869, retro_tsyr_2152, retro_tsyr_262, retro_tsyr_327, retro_tsyr_346, retro_tsyr_600, retro_tsyr_636, retro_tsyr_684, retro_tsyr_808, retro_tsyr_865, retro_tsyr_905,
Tarsius syrichta	ENSTSYG00000001655	2 retrocopies	retro_tsyr_1805 , retro_tsyr_759,