RetrogeneDB ID: retro_tsyr_1917

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_66597:7014..7777(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENO3
• Ensembl ID: ENSTSYG00000007066
• Aliases: None
• Description: enolase 3 (beta, muscle) [Source:HGNC Symbol;Acc:3354]

Sequence

>retro_tsyr_1917
AAAGCCATACGCATTGGTGCTGAGGTCTATCACCACCTCAAGGGGGTCATCAAGGCCAAGTATAGGAAAGATACCACCAT
TGTAGGTTAAGAGGTTGGCTTTGCACCCAATGTCCTGGAGAACAATGAAACCCTGGAGCTGCTGAATAAGCCCATCCAGG
TGGTGGGTTACGCAGACAAGGTAGTAACTGTCATGGATGTGGCAGCCTCTGAATTCTATCACAACAGGAAATACAATCTT
GACTTCAAGTCACCTGATGATCCTGCCAGGCACATCACTGAGGAGGAGCTTGGAGAACTTACAAAAGCTTTATCAAGAAC
TATCCTGTGTTCTCCATCAAGGACCCCTTTGACCAGGGTGACTGGGCCACTTGGGCCTCATTTCTCTCAGGGGTAGACAT
CCAGATTGTGGGTTATGACCTCACAGTCACCAGCCCCAAGAGGATCGCCCAAGCTATTGAGAAAAAGGCCTTCAACTGCC
TGCTGCTGAAAGTTTACCAGATCGGCTTGGTGACTGAGTCCATCCAGGCCTGCAAACTGACTCAGTCTAATGGAGTAGAG
TGATGGTGAGCCACCGCTCTGGGGAGACTGAGGACACATTCATCACTGACCTCGTGGTGAGACTCTGCACAGGACAGATC
TAGATTGGTGCCCCCTGCCACTCAGTTTGTCTGGTCAAGTACAATTAACTCATGAGGATTAAGGAGGTTCTTGGGGGCAA
GGCTGTCTTTGCTGCATGCAAGTTCCATAATCCAAAGGCCAAG

Alignment

ORF - retro_tsyr_1917 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.38 %
• Parental protein coverage: 59.16 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  EAMRIGAEVYHHLKGVIKAKYGKDATNVGDEGGFAPNILENNEALELLKTAIQAAGYPDKVVIGMDVAAS
          .A.RIGAEVYHHLKGVIKAKY.KD.T.VG.E.GFAPN.LENNE.LELL...IQ..GY.DKVV..MDVAAS
Retrocopy KAIRIGAEVYHHLKGVIKAKYRKDTTIVG*EVGFAPNVLENNETLELLNKPIQVVGYADKVVTVMDVAAS

Parental  EFYRNGKYDLDFKSPDDPARHITGEKLGEL-YKSFIKNYPVVSIEDPFDQDDWATWTSFLSGVDIQIVGD
          EFY.N.KY.LDFKSPDDPARHIT.E.LGEL.YKSFIKNYPV.SI.DPFDQ.DWATW.SFLSGVDIQIVG.
Retrocopy EFYHNRKYNLDFKSPDDPARHITEEELGEL<YKSFIKNYPVFSIKDPFDQGDWATWASFLSGVDIQIVGY

Parental  DLTVTNPKRIAQAVEKKACKCLLLKVNQIGSVTESIQACKLAQSNG-WGVMVSHRSGETEDTFIADLVVG
          DLTVT.PKRIAQA.EKKA..CLLLKV.QIG.VTESIQACKL.QSNG...VMVSHRSGETEDTFI.DLVV.
Retrocopy DLTVTSPKRIAQAIEKKAFNCLLLKVYQIGLVTESIQACKLTQSNG<SRVMVSHRSGETEDTFITDLVVR

Parental  LCTGQIKTGAPCRSERLAKYNQLMRIEEALGDKAVFAGRKFRNPKAK
          LCTGQI..GAPC.S..L.KYN.LMRI.E.LG.KAVFA..KF.NPKAK
Retrocopy LCTGQI*IGAPCHSVCLVKYN*LMRIKEVLGGKAVFAACKFHNPKAK

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_1917 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 7 parental genes, and 43 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000011679	2 retrocopies	retro_cjac_115, retro_cjac_177,
Dasypus novemcinctus	ENSDNOG00000011654	2 retrocopies	retro_dnov_1712, retro_dnov_75,
Macropus eugenii	ENSMEUG00000007915	25 retrocopies	retro_meug_1019, retro_meug_1341, retro_meug_1483, retro_meug_1540, retro_meug_1566, retro_meug_1605, retro_meug_170, retro_meug_1701, retro_meug_1743, retro_meug_1869, retro_meug_1905, retro_meug_1929, retro_meug_2026, retro_meug_2190, retro_meug_235, retro_meug_269, retro_meug_578, retro_meug_607, retro_meug_637, retro_meug_803, retro_meug_820, retro_meug_906, retro_meug_965, retro_meug_973, retro_meug_976,
Rattus norvegicus	ENSRNOG00000004078	1 retrocopy	retro_rnor_2228,
Tupaia belangeri	ENSTBEG00000002346	5 retrocopies	retro_tbel_1514, retro_tbel_3080, retro_tbel_3130, retro_tbel_4230, retro_tbel_4383,
Tarsius syrichta	ENSTSYG00000002509	1 retrocopy	retro_tsyr_2011,
Tarsius syrichta	ENSTSYG00000007066	7 retrocopies	retro_tsyr_1019, retro_tsyr_1157, retro_tsyr_1626, retro_tsyr_1917 , retro_tsyr_2043, retro_tsyr_52, retro_tsyr_534,