RetrogeneDB ID: retro_tsyr_189

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_4928:717..1755(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SLC39A11
• Ensembl ID: ENSTSYG00000001892
• Aliases: None
• Description: solute carrier family 39, member 11 [Source:HGNC Symbol;Acc:14463]

Sequence

>retro_tsyr_189
ATGCTCCAAGGCCACAGCTCCATGTTCCAGCCCTTGCTGGGGACCTTCTTCACCTGGGGGATGACAGCTGCGGGGCAGCA
CTTGTGTTCATATTCTCTAGTGGACAGAGGCGGATCTTAGATGGAAGCCTTGGCTTTGCTGCAGGGGTTATGTTGGCAGC
TTCCTACTGGTCTCTCCTGGCCCCAGAGGTTGAGATGGCCGTGTCCGCCGGTGGCTTAGGTGCCTTTGCCTTCTTCCCAG
TAACTGTTGGCTTCACCCTCAGAGCTGTTTTTGTCTACTTGGCTGACCTCCTGATGCCTCACCTGGGTGCGGTACAAGAC
CCGCCCACCCCCCCTGAAATGGCCCTGGCACTGAATTTCGACCCTGCATTGATGAAGAAGTCTGATCCAGAGCGTCCCAT
GCTGCTCTTCTCTGAGAGTGAACTTTCCATCCGGATAGATAGAATGGGGCTTCTTTCAGACAAGAGTGAGAATGGTGAGG
CCTATCAGAGGAAGAAGGCGTCGGCCACTGGTCTTCCAAAGGGTCCTGCTCCCCCCATGCCTTCTCGAGGGAACCCGGCA
CAGCACGGCAGCAGCAGCTGGAGAAGGATTGTGCTGCTCATCTTGGCCATCACTGTACACAGTGTTCCAGAGGGTCTGGC
TGTTGGAGTTGGATTCAGGGCTGTGGAGAAGGCGGGTGTCAGCCACCTTTGAGAATGCCAGGAATCTGGCCATCAGAATT
GGGATCCGGAATTTCCCTGAGGGCCTGGCTGACAGCCTCCCCTTGTGAGGAGGGGCCGGCTTCTCCACCTGGAGAGCCTT
CTGGTACGGGCAGCTAAGCGGCATGGTGGAGCCCCTGGCTGGGGTCTTTGGTGCCTTTGCTGTGGTGCTGGCTGAGCTCA
TCTTGCCCTGTGCTCTGGCCTTTGCTGCTGGCTTCATGGTCTACGTGGTCGTGGATGACATCATCCCCAAAGCCCAGATC
AGTGGTAATGGGAAACTGGCGTCCTGGGCCTCCATCCTGGGATTTGCAGTGATGATGTCACTGGACATTGGCCTGGGC

Alignment

ORF - retro_tsyr_189 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.92 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MLQGHSSVFQALLGTFFTWGMTAAG-AALVFIFSSGQRRILDGSLGFAAGVMLAASYWSLLAPAVEMAMS
          MLQGHSS.FQ.LLGTFFTWGMTAAG.AALVFIFSSGQRRILDGSLGFAAGVMLAASYWSLLAP.VEMA.S
Retrocopy MLQGHSSMFQPLLGTFFTWGMTAAG<AALVFIFSSGQRRILDGSLGFAAGVMLAASYWSLLAPEVEMAVS

Parental  SGGFGAFAFFPVAVGFTLGAAFVYLADLLMSHLGAAED----PQMALALSFDPALMKKSDPEGPTLLFSE
          .GG.GAFAFFPV.VGFTL.A.FVYLADLLM.HLGA..D....P.MALAL.FDPALMKKSDPE.P.LLFSE
Retrocopy AGGLGAFAFFPVTVGFTLRAVFVYLADLLMPHLGAVQDPPTPPEMALALNFDPALMKKSDPERPMLLFSE

Parental  SELSIRIGRAGLLSDKSENGEAYQRKKAAPTGLPEGLAPPVPSRGNPVQPGSSRWRRIVLLILAITVHNV
          SELSIRI.R.GLLSDKSENGEAYQRKKA..TGLP.G.APP.PSRGNP.Q.GSS.WRRIVLLILAITVH.V
Retrocopy SELSIRIDRMGLLSDKSENGEAYQRKKASATGLPKGPAPPMPSRGNPAQHGSSSWRRIVLLILAITVHSV

Parental  PEGLAVGVGFGAVE-RTASATFESARNLAIGIGIQNFPEGLAVSLPL-RGAGFSTWRAFWYGQLSGMVEP
          PEGLAVGVGF.AVE.R..SATFE.ARNLAI.IGI.NFPEGLA.SLPL..GAGFSTWRAFWYGQLSGMVEP
Retrocopy PEGLAVGVGFRAVE>RRVSATFENARNLAIRIGIRNFPEGLADSLPL*GGAGFSTWRAFWYGQLSGMVEP

Parental  LAGVFGAFAVVLAEPILPYALAFAAGAMVYVVMDDIIPEAQISGNGKLASWASILGFVVMMSLDVGLG
          LAGVFGAFAVVLAE.ILP.ALAFAAG.MVYVV.DDIIP.AQISGNGKLASWASILGF.VMMSLD.GLG
Retrocopy LAGVFGAFAVVLAELILPCALAFAAGFMVYVVVDDIIPKAQISGNGKLASWASILGFAVMMSLDIGLG

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_189 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000001892	1 retrocopy	retro_tsyr_189 ,