RetrogeneDB ID: retro_tsyr_1771

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_57869:431..1668(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZDHHC6
• Ensembl ID: ENSTSYG00000009673
• Aliases: None
• Description: zinc finger, DHHC-type containing 6 [Source:HGNC Symbol;Acc:19160]

Sequence

>retro_tsyr_1771
ATGGGTACCTTCTGCTCAGTTATCAAGTTTGAAAATCTCCAAGAATTAAAGAGACTGTGTCACTGGGGTCCCATCATAGC
CCTTGGTGTTATAGCAATATGTTCTATAATGGCCATGATTAACTCTGTATTGTGGTATTGGCCCTTACATACAACTGAAG
GAAGTGGGAATTTCATCATGCTGATAAATTGAACTGTCATGATTCTTTATAATTACTTCAATGCCATGTTTGTGAGTCCT
GGCCTTGTCCCCCTGGAGTGGAAACCAGAAAATTCTCAGGATACTATGTATCTCCAGTATTGTAAAGTCTGCCAGGCATA
CAAGGCACCACGTTCACATCACTGCAGAAAGTGTAACAGATGTGTGATGAAGATGGACCATCATTGTCCTTGGATCAACA
ACTGTTGTTACCAAAATCATGCTTCGTTTACACTGTTTCTTCTTTTAGCACCACTGGGTTGTATCCATGCTGCTTTTATT
TTTGTTATGACTATGTACACACAGCTTTATAACCGGCCCTCCTTTGGGTGGAACACAGTAAGGATTGATATGAATGCAGC
CCAGAGAGATTCTCTTCCTGTTTTTCCATTTGGATTAGCTGCATTTGCTGTCACCTTGTTTGCCTTGGGATTAGCTTTAG
GAACAACCATAGCTGTTGGGATGTTGTTTTTTATCCAGATGAAAATAATTCTTAGAAACAAAATTTCTATTGAATCATGG
ATTGAAGAGAAGGCTAAAGATCGAATTCAATATTATCAACTAGATGAAGTCTTTGTTTTTCCTTATGATATGGGAAGTAG
ATGGAGAAACTTTAAACAGATATTTATGTGGTCAGGGGTCCCTGAAGGGGATGGACTAGAGTGGCCAATAAGAGAAGGCT
GTCACCAATACAGCTTAACTATAGAACAGTTAAAACAAAAAGCAGATAAGAGAGTCAGAAGTGTTTGCTATAAAGTAATA
GAAGATTATAGTGGTGACTGCTGTCCTTTGAATAAAGGAATCAAAACGTTCTTCACAAGTCCCTGTACTGAAGAACCTGA
AATATAGTTACAAAAAAGGGGAGTTTATTTTAGCCACAAGAGGTTTACGATACTGGTTGTATGGAGACAAAATTCTTGAT
GATTCCTCTGTAGAAGATATTTCGAGAATAAGAGGATGGTTCCCTAGAAATTGTGTGGAAAAGTGTCCCTGCGATGTTGA
AACAGATCAAGCCCCGGAGGGTAAGAAGAAAAATAGA

Alignment

ORF - retro_tsyr_1771 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.96 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MGTFCSVIKFENLHELKRLCHWGPIIALGVIAICSTMAMIDSVLWYWPLHTTGGSVNFIMLINWTVMILY
          MGTFCSVIKFENL.ELKRLCHWGPIIALGVIAICS.MAMI.SVLWYWPLHTT.GS.NFIMLIN.TVMILY
Retrocopy MGTFCSVIKFENLQELKRLCHWGPIIALGVIAICSIMAMINSVLWYWPLHTTEGSGNFIMLIN*TVMILY

Parental  NYFNAMFVGPGLVPLGWKPENSQDTMYLQYCKVCQAYKAPRSHHCRKCNRCVMKMDHHCPWINNCCGYQN
          NYFNAMFV.PGLVPL.WKPENSQDTMYLQYCKVCQAYKAPRSHHCRKCNRCVMKMDHHCPWINNCC.YQN
Retrocopy NYFNAMFVSPGLVPLEWKPENSQDTMYLQYCKVCQAYKAPRSHHCRKCNRCVMKMDHHCPWINNCC-YQN

Parental  HASFTLFLLLAPLGCIHAAFIFVMTMYTQLYNRLSFGWNTVRIDMNAAQRDPLPIFPFGLAAFAATLFAL
          HASFTLFLLLAPLGCIHAAFIFVMTMYTQLYNR.SFGWNTVRIDMNAAQRD.LP.FPFGLAAFA.TLFAL
Retrocopy HASFTLFLLLAPLGCIHAAFIFVMTMYTQLYNRPSFGWNTVRIDMNAAQRDSLPVFPFGLAAFAVTLFAL

Parental  GLALGTTIAVGMLFFIQMKIILRNKTSIESWIEEKAKDRIQYYQLDEVFVFPYDMGSRWRNFKQVFTWSG
          GLALGTTIAVGMLFFIQMKIILRNK.SIESWIEEKAKDRIQYYQLDEVFVFPYDMGSRWRNFKQ.F.WSG
Retrocopy GLALGTTIAVGMLFFIQMKIILRNKISIESWIEEKAKDRIQYYQLDEVFVFPYDMGSRWRNFKQIFMWSG

Parental  VPEGDGLEWPIREGCHQYSLTIEQLKQKADKRVRSVRYKVIEDYSGACCPLNKGIKTFFTSPCTEEPRIQ
          VPEGDGLEWPIREGCHQYSLTIEQLKQKADKRVRSV.YKVIEDYSG.CCPLNKGIKTFFTSPCTEEP.I.
Retrocopy VPEGDGLEWPIREGCHQYSLTIEQLKQKADKRVRSVCYKVIEDYSGDCCPLNKGIKTFFTSPCTEEPEI*

Parental  LQ-KGEFILATRGLRYWLYGDKILDDSSVEGVSRIRGWFPRNCVEKCPCDVETDQALEGEKKNR
          LQ.KGEFILATRGLRYWLYGDKILDDSSVE..SRIRGWFPRNCVEKCPCDVETDQA.EG.KKNR
Retrocopy LQ>KGEFILATRGLRYWLYGDKILDDSSVEDISRIRGWFPRNCVEKCPCDVETDQAPEGKKKNR

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_1771 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000015401	1 retrocopy	retro_amel_1120,
Canis familiaris	ENSCAFG00000010960	1 retrocopy	retro_cfam_2178,
Choloepus hoffmanni	ENSCHOG00000012828	1 retrocopy	retro_chof_1480,
Felis catus	ENSFCAG00000030784	1 retrocopy	retro_fcat_1193,
Loxodonta africana	ENSLAFG00000008129	1 retrocopy	retro_lafr_304,
Mustela putorius furo	ENSMPUG00000002043	1 retrocopy	retro_mputfur_668,
Mus musculus	ENSMUSG00000024982	1 retrocopy	retro_mmus_1740,
Otolemur garnettii	ENSOGAG00000030535	1 retrocopy	retro_ogar_1652,
Ictidomys tridecemlineatus	ENSSTOG00000013840	1 retrocopy	retro_itri_308,
Tarsius syrichta	ENSTSYG00000009673	2 retrocopies	retro_tsyr_1653, retro_tsyr_1771 ,