RetrogeneDB ID: retro_tsyr_196

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_5052:30401..31476(+)
• Located in intron of: ENSTSYG00000014046

Retrocopy information

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

Parental gene information

• Parental gene symbol: BTBD10
• Ensembl ID: ENSTSYG00000000445
• Aliases: None
• Description: BTB (POZ) domain containing 10 [Source:HGNC Symbol;Acc:21445]

Sequence

>retro_tsyr_196
TCGTCCGCTTTTTCTCACGGCGACAGGAAGTCGAGGGGAAATCGTGGGACTCGAGGTTTGGCTACGCCCTCCCGTGTTGC
TAAAGGAGAAGCTGACCGCACCAAAGTGAGTCTACTTGGTGCTATGGGGGACCTGAGAAATCCAGAGAGAGACGAAGGTC
AAGTGACAGATCACGAGATTCATCTCATGAAAGAACAGAGTCTCAACTCACGCCTTGCATCAGAAATGTTACTCCTCCAA
CACGACAGCACCATGTTGAACGAGGAAAAGATCACAGTTCCTCTCGCCCAAGCAGTCCCCGTCCTCAAAAAGCATCCCCA
GATGGTTCCATTAGCAGTGCTGGGAACAGCAGCAGAAACAGCAGTCAGTCAAGTTCAGATGGTAGTTGTAAGACATCTGG
GGAGATGGTGTTGTATATGAAAATGCAAAGGAAGGCACTCGGAATGTAAGAACGTCAGGACGAGTGACACAGATAGAGGA
CAACACTAGATTTGTTATAGACCCATCCATTTTTACTGCACAGCCAAATACGATGTTGGGCAGGATGTTTGGATCTGGCG
GAGAACACAACTTTACACGTCCCAATGAGAAGGGAGAATAGGAGGTGGCAGAGGGAATTGGTTCCACTGTGTTTCGAGCT
ATTCTGGATTACTACAAAACGGGAATAATTCGTTGTCCTGATGGCACATCAATTCCTGAACTGAGAGAAGCATGTGACTA
TCTTTGTATCTTTTTCGAATATAGTACTATTAAATGTAGAGATCTCAGTGCCCTAATGCATGAGTTATCAAATGATGGTG
CTCGTAGACAATTTGAATTTTATCTGGAAGAAATGATCCTTCCTCTCCTGGTAGCTAGTGCCCAGAGTGGAGAACGAGAA
TGCCACATAGTGGTGCTTACAGATGATGATGTGGTTGATTGGGATGAAGAGTATCCATCACAGATGGGAGAAGAATATTC
ACAGATTATTTATAGCACAAAATCATATAGATTTTTCAAGTACATTGAAAACAGAGATGTGGTCAAATCAGTTTTGAAGG
AGAGGGGTCGTAAGAAGATTAGATTGGGAATAGAA

Alignment

ORF - retro_tsyr_196 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.88 %
• Parental protein coverage: 76.48 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  SSDPENWDRKLHSRPRKLYKHSSTPSRVAKGEVDHTKMSLHGASG-GHERSRDRRRSSDRSRDSSHERTE
          SS.....DRK..SR.........TPSRVAKGE.D.TK.SL.GA.G.G.E.SR.RRRSSDRSRDSSHERTE
Retrocopy SSAFSHGDRK--SRGNRGTRGLATPSRVAKGEADRTKVSLLGAMG<GPEKSRERRRSSDRSRDSSHERTE

Parental  SQLTPCIRNVTSPTRQHHVEREKDHSSSRPSSPRPQKASPNGSISSAGNSSRNSSQSSSDGSCKTSGEMV
          SQLTPCIRNVT.PTRQHHVER.KDHSSSRPSSPRPQKASP.GSISSAGNSSRNSSQSSSDGSCKTSGEMV
Retrocopy SQLTPCIRNVTPPTRQHHVERGKDHSSSRPSSPRPQKASPDGSISSAGNSSRNSSQSSSDGSCKTSGEMV

Parental  F-VYENAKEGARNVRTSERVTLIVDNTRFVVDPSIFTAQPNTMLGRMFGSGREHNFTRPNEKGEYEVAEG
          ..VYENAKEG.RNVRTS.RVT.I.DNTRFV.DPSIFTAQPNTMLGRMFGSG.EHNFTRPNEKGE.EVAEG
Retrocopy L<VYENAKEGTRNVRTSGRVTQIEDNTRFVIDPSIFTAQPNTMLGRMFGSGGEHNFTRPNEKGE*EVAEG

Parental  IGSTVFRAILDYYKTGIIRCPDGISIPELREACDYLCISFEYSTIKCRDLSALMHELSNDGARRQFEFYL
          IGSTVFRAILDYYKTGIIRCPDG.SIPELREACDYLCI.FEYSTIKCRDLSALMHELSNDGARRQFEFYL
Retrocopy IGSTVFRAILDYYKTGIIRCPDGTSIPELREACDYLCIFFEYSTIKCRDLSALMHELSNDGARRQFEFYL

Parental  EEMILPLMVASAQSGERECHIVVLTDDDVVDWDEEYPPQMGEEYSQIIYSTKLYRFFKYIENRDVAKSVL
          EEMILPL.VASAQSGERECHIVVLTDDDVVDWDEEYP.QMGEEYSQIIYSTK.YRFFKYIENRDV.KSVL
Retrocopy EEMILPLLVASAQSGERECHIVVLTDDDVVDWDEEYPSQMGEEYSQIIYSTKSYRFFKYIENRDVVKSVL

Parental  KERGLKKIRLGIE
          KERG.KKIRLGIE
Retrocopy KERGRKKIRLGIE

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_196 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 12 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Cavia porcellus	ENSCPOG00000024984	1 retrocopy	retro_cpor_137,
Monodelphis domestica	ENSMODG00000008728	1 retrocopy	retro_mdom_1020,
Mus musculus	ENSMUSG00000038187	1 retrocopy	retro_mmus_3560,
Nomascus leucogenys	ENSNLEG00000017691	1 retrocopy	retro_nleu_232,
Otolemur garnettii	ENSOGAG00000000739	1 retrocopy	retro_ogar_3201,
Pan troglodytes	ENSPTRG00000003377	1 retrocopy	retro_ptro_753,
Rattus norvegicus	ENSRNOG00000014341	2 retrocopies	retro_rnor_2220, retro_rnor_2872,
Sorex araneus	ENSSARG00000000266	1 retrocopy	retro_sara_405,
Sus scrofa	ENSSSCG00000013395	2 retrocopies	retro_sscr_639, retro_sscr_640,
Tarsius syrichta	ENSTSYG00000000445	2 retrocopies	retro_tsyr_196 , retro_tsyr_367,
Tarsius syrichta	ENSTSYG00000012406	1 retrocopy	retro_tsyr_2108,
Tursiops truncatus	ENSTTRG00000013943	1 retrocopy	retro_ttru_897,