RetrogeneDB ID: retro_tsyr_1826

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_60938:3303..4560(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000005278
• Aliases: None
• Description: None

Sequence

>retro_tsyr_1826
GCATTTATTGAAGAACAGCAACGAGAAGAAGAGAAGCTGTTGGAGAGAGAGGCAAAAATTACACGAGGAACGTTACTAAG
GGAGCAGAAGGCACAAGAAGAATTCAGGATAAGGAAGGAAAGGGAAGAGGCAGCTAGAAAATGGCAGGAAGAACAAGGGA
GAAAGTTCAAGGAAGAATGGGAGGAACAGCAGAGAAAAGAGAAAGAGCAGAAACTACAAGAGAAAGAGGAAGCTGTGCAG
AAGATGCTGGATCAGGCTGAAAATGAGTTGGAAAATGGTACCACGTGGCAAAACCCAGAACCACCTACAGAGTTGAGAGT
AATGGAGAAAGATCGAGCGAATTGTCCATTCTGCAGTAAAACAGGAGCTTGCAATTTGGAGACAGATGTTCACATAAACA
TAACTTCCAACATCGAGTCTCTCCCTTGTTATTAAAAGCATGTTTACAACATTTGGAATGGAGCAGTGCAGGACGGATGA
CTATGACCCTAAGGCGAGCCTGGAGTACAGTGAGGAGGAGACCTACCAGCAGTTCCTAGATTTCTATGAAGATGTGCTCC
CTGAGTTCAAGAACGTGGGGAAAGTGATTCAGTTCAAGGTCAGCTGTAACTCGGAACCTCACCTGCGGGGTAATGTGCAT
GCTCAGTACCAGCCGGAAGAAGAAGGCCGAACAGCCCTTTCTCTATTTCATGGACGATGCTATGCAGGACGACAGCTTCG
GTGCGAATTCTGCCCGGTGACCCGGCGGAAAGTGGCGATTTGTGGTTTATTTGAAATGCAGCAGTGTCCAAGAGGAAAAC
ACTGCAGCTTTCTTCATGTGTTCCGAAATCCCAACAACGAATTTTGGGAAGCTAGTAGAGACCCGTACCTGTCTCCAGAT
CGGACTGGCTCCTTTGGTGAGAACTCGGAGAGGAGAGACAGGATGGGTCACCATGACGAGTCCTACGGCCGGCCGAGGAG
GAGAAGGAGCCCCAGTGCAGACCACGCCTGCAAGAGAAATGGGGAATCGGAGAGGAAAAGGAGTAGTCACAGAGGGAAGA
AGTCTCACAGACACACGTCCAAGAGTCATGAGAGGCACAGTTCACAAGGTAGTGGAAGAAAACGGGATCGCAGCCGGGCC
CGGGGCTGCTGCGGTCAGAGCCGCGGAAGCGCCGCAGCCGGAGTCGCAGCCGGAGCCAGAGTTCGTCTAGGTCCAGAAGT
CATGGCAGGAGACGGTCAGGTAGTAGAGACAGAAATATCCAGAGTCCCAAATCTAAA

Alignment

ORF - retro_tsyr_1826 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.54 %
• Parental protein coverage: 97.25 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  AFIEEKQREEEKLLE-RERQKLHEE-WLLREQKAQEEFRIKKEKEEAARKWQEEQERKLKEEWEEQQRKE
          AFIEE.QR.EE..L..RERQKLHEE..LLREQKAQEEFRI.KE.EEAARKWQEEQ.RK.KEEWEEQQRKE
Retrocopy AFIEEQQR-EEEKLL>RERQKLHEE<TLLREQKAQEEFRIRKEREEAARKWQEEQGRKFKEEWEEQQRKE

Parental  KEEEEQKLQEKREEEAVQKMLDQAENELENGTTWQNPEPPTELRVMEKDRANCPFYSKTGAC-RFGDRCS
          K...EQKLQEK..EEAVQKMLDQAENELENGTTWQNPEPPTELRVMEKDRANCPF.SKTGAC..FGDRCS
Retrocopy K---EQKLQEK--EEAVQKMLDQAENELENGTTWQNPEPPTELRVMEKDRANCPFCSKTGAC<QFGDRCS

Parental  RKHNF-PTSSPTLLIRSMFTTFGMEQCRRDDYDPDASLEYSEEETYQQFLDFYEDVLPEFKNVGKVIQFK
          .KHNF.PTSS..L.I.SMFTTFGMEQCR.DDYDP.ASLEYSEEETYQQFLDFYEDVLPEFKNVGKVIQFK
Retrocopy HKHNF<PTSSLSLVIKSMFTTFGMEQCRTDDYDPKASLEYSEEETYQQFLDFYEDVLPEFKNVGKVIQFK

Parental  VSCNLEPHLRGNVYVQYQSEEECQTALSLFNGRWYAGRQLQCEFCPVTRWKMAICGLFEIQQCPRGKHCN
          VSCN.EPHLRGNV..QYQ.EEE..TALSLF.GR.YAGRQL.CEFCPVTR.K.AICGLFE.QQCPRGKHC.
Retrocopy VSCNSEPHLRGNVHAQYQPEEEGRTALSLFHGRCYAGRQLRCEFCPVTRRKVAICGLFEMQQCPRGKHCS

Parental  FLHVFRNPNNEFWEANRDLYLSPDRTGSFGKNSERRDRMGHHDEYYGRLRRRRSPSTDHSYKRNGESERK
          FLHVFRNPNNEFWEA.RD.YLSPDRTGSFG.NSERRDRMGHHDE.YGR.RRRRSPS.DH..KRNGESERK
Retrocopy FLHVFRNPNNEFWEASRDPYLSPDRTGSFGENSERRDRMGHHDESYGRPRRRRSPSADHACKRNGESERK

Parental  RSSHRGKKSHKHTSKSHERHSSRSSGRKRDRSRA-GCCSQSR-RSRRSRSRS-SQSSSRSRSHGRRRSGS
          RSSHRGKKSH.HTSKSHERHSS..SGRKRDRSRA.GCC.QSR.R.RRSRSRS.SQSSSRSRSHGRRRSGS
Retrocopy RSSHRGKKSHRHTSKSHERHSSQGSGRKRDRSRARGCCGQSR<RKRRSRSRSRSQSSSRSRSHGRRRSGS

Parental  RDRNIHSPKSK
          RDRNI.SPKSK
Retrocopy RDRNIQSPKSK

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_1826 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.

---

Parental genes homology:

Parental genes homology involve 9 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000009333	1 retrocopy	retro_fcat_44,
Homo sapiens	ENSG00000169249	1 retrocopy	retro_hsap_39,
Gorilla gorilla	ENSGGOG00000011962	1 retrocopy	retro_ggor_1422,
Macaca mulatta	ENSMMUG00000014054	1 retrocopy	retro_mmul_2030,
Mus musculus	ENSMUSG00000031370	1 retrocopy	retro_mmus_233,
Nomascus leucogenys	ENSNLEG00000009496	1 retrocopy	retro_nleu_1,
Pan troglodytes	ENSPTRG00000021693	1 retrocopy	retro_ptro_25,
Rattus norvegicus	ENSRNOG00000033176	1 retrocopy	retro_rnor_176,
Tarsius syrichta	ENSTSYG00000005278	1 retrocopy	retro_tsyr_1826 ,