RetrogeneDB ID: retro_tsyr_342

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_100768:3301..4698(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM91A1
• Ensembl ID: ENSTSYG00000004376
• Aliases: None
• Description: family with sequence similarity 91, member A1 [Source:HGNC Symbol;Acc:26306]

Sequence

>retro_tsyr_342
ACCCACAGAGAGCACGAAAAGCCGGTTGTCCCGTCGAGTGTCCGCAATCAGCTACGCGACAGAAACAATGTGTTAAACAT
GTCGAGAAAGATGAACGCAAATACTGAGGAGCTCCTGAAACGCAGCCGCGACCACCTCCGGCTGCAGCCCTGCCACCTGT
CGGACATCATGGGGAAGGGCCTGAGGGTGGCGCCCCTCTCCTACTACACCGGGATCATGGAGGACGCTACGGACAGTGAG
AAAAGATATGATTCATTGCCCAGTTTTACGGCTGCTGGCTGTCTAAGGCTTCTTGGCATAGGAAGAAACCAGTATATTGA
TCTTATGAATCAGTGTAGGTCATCAAAAAAGTTTTTCAGAAGGAAAACAGCCCGTGATCTTCTGCCCGTGGAAATTGCCA
TCAAGGCCTGGTGGGTGGTGCAGGCTGGCTACATCACCGAAGATGACATCAAGAAATGCACTTTACCTGAGAAATGTGCT
ATTGATGTGATCATCGATTCAGGCCCTCAACTCTCTGGATCACCAGATTACCATGTAGTACATATTTTATATGACAAAGG
ATTTATTTATCTGGATGTACCAATATCTGATGACAACTGTACAGCAGTTCCCTCTCTTGAAGGCTTTGTAAAGGATCGAG
TACAAGGTGATTATTTTGAAACTCTGCTCTATAAGATATTTGTTTCAATAGATGAGCACACTAATGTTGCAGAGCTTGCA
AATGTCCTTAAGATACACTTATCCCTGGTTAAGAATGCTGTTTCAATGTATTGCCACTTGGGCTTTGCCCATAGGAAGGG
ACAAGTCATCAATCTGGATCGACTTCATTCATCGTGGAAGAATGTACCATCCGTGAACAGATTAAAGAGCACTTTAGATC
TGCAGAAGATGCTCTTATCCTGGGACAGCGGGGAACGACGGAGACCCATTCAAGAAGCTTCATCGGCTACCAACACTGAT
ACGAACAGCCAAGAAGATCCAGCTGACACAGCCAATGTGGTAGTGTGAGCCTGTCCACAGAATACACAAAGCGAATTGCA
TTCCTGTTTGACTCAACTCTTATGGCCTTCTTAATGATGGGAAACCTTTCACCAAACTTGAAAATTTGTGCCATCACAAT
GTTTGAAGGAGGCAAGCTCTCAGATGAGTTTCTGGAAAGCTTTCTCATAGAACTGGAAAAGGTTCAGAGCACTGGTGAAG
GAGAAACTCTGAGATACTTTGATCATCCGCTTACTTTGAGAAACACCATTCTGTTTCTGCGTCATAATAAAGACCTAGTT
GCACAAACTGCACAGCCAGACCAACCCAATTATGATTTTCCTCTGGATCTCTTGTGCTGTGAGAGCCTTCTTGTCCTGAA
CCCCACAACTTGCAGGAGAGTTCTGAACAAAAACTAC

Alignment

ORF - retro_tsyr_342 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.93 %
• Parental protein coverage: 57.74 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  SQREYEKQVVLYSIRNQLRYRNNL-VKHVKKDERKYY-EELLKYSRDHLLLYPYHLSDIMVKGLRVTPFS
          ..RE.EK.VV..S.RNQLR.RNN..VKHV.K.....Y.EELLK.SRDHL.L.P.HLSDIM.KGLRV.P.S
Retrocopy THREHEKPVVPSSVRNQLRDRNNV<VKHVEK-DERKY>EELLKRSRDHLRLQPCHLSDIMGKGLRVAPLS

Parental  YYTGIMEDIMNSEKSYDSLPNFTAADCLRLLGIGRNQYIDLMNQCRSSKKFFRRKTARDLLPVKPVEIAI
          YYTGIMED...SEK.YDSLP.FTAA.CLRLLGIGRNQYIDLMNQCRSSKKFFRRKTARDLL...PVEIAI
Retrocopy YYTGIMEDATDSEKRYDSLPSFTAAGCLRLLGIGRNQYIDLMNQCRSSKKFFRRKTARDLL---PVEIAI

Parental  EAWWVVQAGYITEDDIKICTLPEKCAIDKIIDSGPQLSGSLDYHVVHSLYNKGFIYLDVPISDDSCIAVP
          .AWWVVQAGYITEDDIK.CTLPEKCAID.IIDSGPQLSGS.DYHVVH.LY.KGFIYLDVPISDD.C.AVP
Retrocopy KAWWVVQAGYITEDDIKKCTLPEKCAIDVIIDSGPQLSGSPDYHVVHILYDKGFIYLDVPISDDNCTAVP

Parental  PLEGFVMNRVQGDYFETLLYKIFVSIDEHTNVAELANVLEIDLSLVKNAVSMYCRLGFAHKKGQVINLDQ
          .LEGFV..RVQGDYFETLLYKIFVSIDEHTNVAELANVL.I.LSLVKNAVSMYC.LGFAH.KGQVINLD.
Retrocopy SLEGFVKDRVQGDYFETLLYKIFVSIDEHTNVAELANVLKIHLSLVKNAVSMYCHLGFAHRKGQVINLDR

Parental  LHSSWKNVPSVNRLKSTLDPQKMLLSWDGGERRSPVQEASSATDTDTNSQEDPADTASV-SSLSLSTGYT
          LHSSWKNVPSVNRLKSTLD.QKMLLSWD.GERR.P.QEASSAT.TDTNSQEDPADTA.V..S.SLST.YT
Retrocopy LHSSWKNVPSVNRLKSTLDLQKMLLSWDSGERRRPIQEASSATNTDTNSQEDPADTANV<GSVSLSTEYT

Parental  KRIAFLFDSTLTAFLMMGNLSPNLKSHAVTMFEVGKLSDESLDSFLVELEKVQSTGEGEAQRYFDHALTL
          KRIAFLFDSTL.AFLMMGNLSPNLK..A.TMFE.GKLSDE.L.SFL.ELEKVQSTGEGE..RYFDH.LTL
Retrocopy KRIAFLFDSTLMAFLMMGNLSPNLKICAITMFEGGKLSDEFLESFLIELEKVQSTGEGETLRYFDHPLTL

Parental  RNTILFLRHNKDLVAQTAQPDQPNYGFPLDLLRCESLLGLDPATCSRVLNKNY
          RNTILFLRHNKDLVAQTAQPDQPNY.FPLDLL.CESLL.L.P.TC.RVLNKNY
Retrocopy RNTILFLRHNKDLVAQTAQPDQPNYDFPLDLLCCESLLVLNPTTCRRVLNKNY

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_342 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000176853	2 retrocopies	retro_hsap_225, retro_hsap_226,
Nomascus leucogenys	ENSNLEG00000005385	1 retrocopy	retro_nleu_3035,
Sus scrofa	ENSSSCG00000024424	2 retrocopies	retro_sscr_470, retro_sscr_507,
Tarsius syrichta	ENSTSYG00000004376	1 retrocopy	retro_tsyr_342 ,