RetrogeneDB ID: retro_tsyr_1879

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_63549:155..880(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HSD17B6
• Ensembl ID: ENSTSYG00000013583
• Aliases: None
• Description: hydroxysteroid (17-beta) dehydrogenase 6 [Source:HGNC Symbol;Acc:23316]

Sequence

>retro_tsyr_1879
ATGTGGCTCTACCTGGTGGCCCTTGTGGGACTGTACTACCTTGTGCACTGGTACCAGGAGAGGCGGGTGGTGAGCCACCT
ACAAGACAAGTACAAGTTCATCGCAGGCTGTGACTCGGGCTTTGGGAAACTGCTGGCCAGACAGCTGGACGCACGAGGCT
TCAGGGTGCTGGCTGTGTGTCTGACGGAGAAGGGGGCTGAGCAGCTGAGGAACCAAACATCAGCCTGGTTAAAGACAGTG
ATCCTGGACGTCACTAAGAGCGTCGCTGCTACCAGAGTGCATCGCTGGGTGAAGGAGCATGTGGAGGACAGAGGACTCTG
GGGCCTAGTCAACAATGAAGGCTTTATTCACCCATTTGCCTGCACTGAGTGGCAGAGAACTGAGGACTTCATTACTGTCT
TCAAAGTGAAGACAGTTGGCTTGATCAAGGTGACCATGAGCATGCTTCTCTTGGTGAAGAGAGCATGGGGGAGGACTGTC
AATGTCTCCAGCATTCTGGGTAGAATTGCTTTCTTTGGAGGAGTCTGTTGTTCCTCCAAGTATGGAGTAGAAGCCTTTTC
AGATGTTCTGAGGCCTGAGCTTCATTTTGGAGTGAAAATTAGCGTGGTTGAACCTGGCTCTTCAGAGCAGGAATGACAGG
CATGCAGCTGTTCTTAGAGAAATTGAGACAAGTCTGGGAAGAAGTGATTATGCATATCAGGGAGGAATATGGAGCGCAGT
GATTC

Alignment

ORF - retro_tsyr_1879 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.31 %
• Parental protein coverage: 76.9 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MWLYLVALVGLFYLVRWYRERQVVSHLQEKYVFITGCDSGFGNLLARQLDARGLRVLAACLTEKGAEQLR
          MWLYLVALVGL.YLV.WY.ER.VVSHLQ.KY.FI.GCDSGFG.LLARQLDARG.RVLA.CLTEKGAEQLR
Retrocopy MWLYLVALVGLYYLVHWYQERRVVSHLQDKYKFIAGCDSGFGKLLARQLDARGFRVLAVCLTEKGAEQLR

Parental  NRTSDRLKTVILDVTKTENIAVATQWVKEHVGDKGLWGLVNNAGCVHPLGYTEWQRPEDSMTVFKVNLIG
          N.TS..LKTVILDVTK.........WVKEHV.D.GLWGLVNN.G..HP...TEWQR.ED..TVFKV...G
Retrocopy NQTSAWLKTVILDVTKSVAATRVHRWVKEHVEDRGLWGLVNNEGFIHPFACTEWQRTEDFITVFKVKTVG

Parental  LMEVTMSMLPMVRRARGRIVNVSSILGRIAFSGGAYSSSKYGVEAFSDVLRRELKHFGVKISIIEPGS-F
          L..VTMSML..V.RA.GR.VNVSSILGRIAF.GG...SSKYGVEAFSDVLR.EL.HFGVKIS..EPGS.F
Retrocopy LIKVTMSMLLLVKRAWGRTVNVSSILGRIAFFGGVCCSSKYGVEAFSDVLRPEL-HFGVKISVVEPGS<F

Parental  RTGITDLKRSLESVQQSWEEAPVHIKEAYGQQYF
          R.G.T.....LE...Q.WEE...HI.E.YG.Q.F
Retrocopy RAGMTGMQLFLEKLRQVWEEVIMHIREEYGAQ*F

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_1879 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Pongo abelii	ENSPPYG00000004673	1 retrocopy	retro_pabe_2429,
Tarsius syrichta	ENSTSYG00000013583	1 retrocopy	retro_tsyr_1879 ,