RetrogeneDB ID: retro_tsyr_1653

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_531895:121..1005(-)
• 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_1653
AACAGATGTGTGATGAAGATGGTCCATCATTGTCCTTGGATCAACAACTGTTGTTACCAAAATCATGCTTCGTTTACACT
GTTTCTTCTTTTAGCACCCACTGGGTTGTATCCATGCTGCTTTTATTTTTGTTATGACTATGTACACACAGCTTTATAAC
CAGCCCTCCTTTGGGTGGAACACAGTAAGGATTGATATGAATGCAGCCCAGAGAGATTCTCTTCCTGTTTTTCCATTTGG
ATTAGCTGCATTTGCTGTCACCTTGTTTGCCTTGGGATTAGCTTTAGGAACAACCATAGCTGTTGGGATGTTGTTTTTTA
TCCAGATGAAAATAATTCTTAGAAACAAAATTTCTATTGAATCATGGATTGAAGAGAAGGCTAAAGATCGAATTCAATAT
TATCAACTAGATGAAGTCTTTGTTTTTCCTTATGATATGGGAAGTAGATGGAGAAACTTTAAACAGATATTTATGTGGTC
AGGGGTCCCTGAAGGGGATGGACTAGAGTGGCCAATAAGAGAAGGCTGTCACCAATACAGCTTAACTATAGAACAGTTAA
AACAAAAAGCAGATAAGAGAGTCAGAAGTGTTTGCTATAAAGTAATAGAAGATTATAGTGGTGACTGCTGTCCTTTGAAT
AAAGGAATCAAAACGTTCTTCACAAGTCCCTGTACTGAAGAACCTGAAATATAGTTACAAAAAAGGGGAGTTTATTTTAG
CCACAAGAGGTTTACGATACTGGTTGTATGGAGACAAAATTCTTGATGATTCCTCTGTAGAAGATATTTCGAGAATAAGA
GGATGGTTCCCTAGAAATTGTGTGGAAAAGTGTCCCTGCGATGTTGAAACAGATCAAGCCCCGGAGGGTAAGAAGAAAAA
TAGA

Alignment

ORF - retro_tsyr_1653 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.27 %
• Parental protein coverage: 71.43 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NRCVMKMDHHCPWINNCCGYQNHASFTLFLLLAP-LGCIHAAFIFVMTMYTQLYNRLSFGWNTVRIDMNA
          NRCVMKM.HHCPWINNCC.YQNHASFTLFLLLAP.LGCIHAAFIFVMTMYTQLYN..SFGWNTVRIDMNA
Retrocopy NRCVMKMVHHCPWINNCC-YQNHASFTLFLLLAP>LGCIHAAFIFVMTMYTQLYNQPSFGWNTVRIDMNA

Parental  AQRDPLPIFPFGLAAFAATLFALGLALGTTIAVGMLFFIQMKIILRNKTSIESWIEEKAKDRIQYYQLDE
          AQRD.LP.FPFGLAAFA.TLFALGLALGTTIAVGMLFFIQMKIILRNK.SIESWIEEKAKDRIQYYQLDE
Retrocopy AQRDSLPVFPFGLAAFAVTLFALGLALGTTIAVGMLFFIQMKIILRNKISIESWIEEKAKDRIQYYQLDE

Parental  VFVFPYDMGSRWRNFKQVFTWSGVPEGDGLEWPIREGCHQYSLTIEQLKQKADKRVRSVRYKVIEDYSGA
          VFVFPYDMGSRWRNFKQ.F.WSGVPEGDGLEWPIREGCHQYSLTIEQLKQKADKRVRSV.YKVIEDYSG.
Retrocopy VFVFPYDMGSRWRNFKQIFMWSGVPEGDGLEWPIREGCHQYSLTIEQLKQKADKRVRSVCYKVIEDYSGD

Parental  CCPLNKGIKTFFTSPCTEEPRIQLQ-KGEFILATRGLRYWLYGDKILDDSSVEGVSRIRGWFPRNCVEKC
          CCPLNKGIKTFFTSPCTEEP.I.LQ.KGEFILATRGLRYWLYGDKILDDSSVE..SRIRGWFPRNCVEKC
Retrocopy CCPLNKGIKTFFTSPCTEEPEI*LQ>KGEFILATRGLRYWLYGDKILDDSSVEDISRIRGWFPRNCVEKC

Parental  PCDVETDQALEGEKKNR
          PCDVETDQA.EG.KKNR
Retrocopy PCDVETDQAPEGKKKNR

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_1653 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,