RetrogeneDB ID: retro_tsyr_14

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_6755:56543..57428(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTSYG00000004721
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000004764
• Aliases: None
• Description: None

Sequence

>retro_tsyr_14
GTGGCGACCTACGGACAGACTTGCGTGCGGCCAATGCGTATTCTTCCATCATATGCTGACCTTGGCAAAGCTGCCAGAGA
TATTTTCAACAAAGAAGTTGGTTTGGGGTTGGTGAAACTGGATGTGAAAACAAAGTCATGCAGTGGTGTGGAATTCTCAA
CATCTGGCTCCTCAAATACAGACACTGGTAAAGTTACTGGGACCTTGGAGACCAAATATAAATGGTGTAAGTATGGTCTG
ACTTTCACAGAAAAACGGAATACTGATAACACTCTGGGAACAGAAATCGCGATCGAAGACCAGATTTGTCAAGGTTTGAA
ACTGACATTTGATACTACCTTCTCACCAAATACAGGAAAGAAAAGTGGTAAAATCAGGTCCTCTTACAAGAGGGAATACA
TCAACCTTGGTTGTGATGTTGACTTTGATTTTGCTGGATGTGCATTCCATGGTTCAGCTGTCTTTGGTTATGAGGGCTGG
CTTGCTGGGTACCAGATGACCTTTGACAGTGCCAAATCAAAGCTGACCAGGAATAACTTTGCAGTGGGCTACAGGACTGG
GGACTTCCAGCTGAACACTAATGTCAATGATGGGACAGAATTTGGAGGATTAATTTATCAGAAAGCACGTGAAGATCTTG
ACACTTCAGTAAACCTTGCTTGGACATCGGGTACCAACTGCACTCATTTTGGCACTGCAGCTAAATACCAGTTGGATCTC
ACTGCTTCCATTTCTGCAAAAGTCAACAACTCTAGTTTAATTGGAGTAGGCTACACTCAGACTCTGAGGCCTGGTGTGAA
GCTTACATTGTCTGCTCTGGTAGACGGGAAGAGCATTAATGCTGGTGGTCACAATCATGGGCTTGCCCTGGAGTTGGAGG
CTTAA

Alignment

ORF - retro_tsyr_14 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.96 %
• Parental protein coverage: 80.23 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MCIPPSYADLGKAARDIFNKGFXXXXXXXXXXXXXXXXXEFSTSGSSNTDTGKVTGTLETKYKWCEYGLT
          M.I.PSYADLGKAARDIFNK...................EFSTSGSSNTDTGKVTGTLETKYKWC.YGLT
Retrocopy MRILPSYADLGKAARDIFNKEVGLGLVKLDVKTKSCSGVEFSTSGSSNTDTGKVTGTLETKYKWCKYGLT

Parental  FTEKWNTDNTLGTEIAIEDQICQGLKLTFDTTFSPNTGKKSGKIKSSYKRECINLGCDVDFDFAGPAIHG
          FTEK.NTDNTLGTEIAIEDQICQGLKLTFDTTFSPNTGKKSGKI.SSYKRE.INLGCDVDFDFAG.A.HG
Retrocopy FTEKRNTDNTLGTEIAIEDQICQGLKLTFDTTFSPNTGKKSGKIRSSYKREYINLGCDVDFDFAGCAFHG

Parental  SAVFGYEGWLAGYQMTFDSAKSKLTRNNFAVGYRTGDFQLHTNVNDGTEFGGSIYQKVCEDLDTSVNLAW
          SAVFGYEGWLAGYQMTFDSAKSKLTRNNFAVGYRTGDFQL.TNVNDGTEFGG.IYQK..EDLDTSVNLAW
Retrocopy SAVFGYEGWLAGYQMTFDSAKSKLTRNNFAVGYRTGDFQLNTNVNDGTEFGGLIYQKAREDLDTSVNLAW

Parental  TSGTNCTRFGIAAKYQLDPTASISAKVNNSSLIGVGYTQTLRPGVKLTLSALVDGKSINAGGHKLG
          TSGTNCT.FG.AAKYQLD.TASISAKVNNSSLIGVGYTQTLRPGVKLTLSALVDGKSINAGGH..G
Retrocopy TSGTNCTHFGTAAKYQLDLTASISAKVNNSSLIGVGYTQTLRPGVKLTLSALVDGKSINAGGHNHG

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_14 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 22 parental genes, and 36 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000012975	2 retrocopies	retro_btau_1252, retro_btau_1389,
Canis familiaris	ENSCAFG00000015398	1 retrocopy	retro_cfam_376,
Callithrix jacchus	ENSCJAG00000001145	1 retrocopy	retro_cjac_2385,
Felis catus	ENSFCAG00000026943	3 retrocopies	retro_fcat_1385, retro_fcat_804, retro_fcat_815,
Homo sapiens	ENSG00000165637	1 retrocopy	retro_hsap_2114,
Gorilla gorilla	ENSGGOG00000005861	5 retrocopies	retro_ggor_1677, retro_ggor_1949, retro_ggor_2934, retro_ggor_3036, retro_ggor_425,
Macropus eugenii	ENSMEUG00000012995	1 retrocopy	retro_meug_30,
Microcebus murinus	ENSMICG00000017815	1 retrocopy	retro_mmur_191,
Myotis lucifugus	ENSMLUG00000007500	2 retrocopies	retro_mluc_1710, retro_mluc_2252,
Macaca mulatta	ENSMMUG00000008691	1 retrocopy	retro_mmul_2200,
Mustela putorius furo	ENSMPUG00000003268	1 retrocopy	retro_mputfur_354,
Mus musculus	ENSMUSG00000021771	1 retrocopy	retro_mmus_2667,
Otolemur garnettii	ENSOGAG00000030039	1 retrocopy	retro_ogar_2116,
Rattus norvegicus	ENSRNOG00000013505	1 retrocopy	retro_rnor_2652,
Sorex araneus	ENSSARG00000011194	2 retrocopies	retro_sara_300, retro_sara_59,
Sarcophilus harrisii	ENSSHAG00000012048	1 retrocopy	retro_shar_325,
Tupaia belangeri	ENSTBEG00000001946	4 retrocopies	retro_tbel_1504, retro_tbel_1541, retro_tbel_1885, retro_tbel_4597,
Tarsius syrichta	ENSTSYG00000004764	1 retrocopy	retro_tsyr_14 ,
Tarsius syrichta	ENSTSYG00000007112	1 retrocopy	retro_tsyr_918,
Tarsius syrichta	ENSTSYG00000007346	1 retrocopy	retro_tsyr_161,
Tursiops truncatus	ENSTTRG00000000371	3 retrocopies	retro_ttru_116, retro_ttru_1172, retro_ttru_776,
Vicugna pacos	ENSVPAG00000008068	1 retrocopy	retro_vpac_156,