RetrogeneDB ID: retro_tsyr_1762

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_57436:5203..6020(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000009184
• Aliases: None
• Description: None

Sequence

>retro_tsyr_1762
AAGCGCCGCTGCTCGCTGCTCCGCGTGCCCGGGGAGATCCACGCCACGCCCGCAGCCCGGAGCAGCAGCTGCCGGACGCC
ACCAGCTCCGCGAGCGGCCCCGGCGCCTTTTCCAGCGAGGAAATTACGAAACCTGGACTTCGTGGTCGTGAAGTCCCGCG
GCTCCCCCCGGAAATAGCAAGCTTCACGGAGCTGGTGGAACTAGACGTGTCTGGGAATGATATTTCTGGAATTGCAGAAA
GCATCTCGTCCTGCAAAGCACTGCAGAGAGTGGACTTCAGCGGAAGCCTGCAGATGAGCTTGCGAGAAAGCTTCCCCGAA
TTACAGGATTTAACGTGTCTTTCCGTAAACGACATCCCACTGCAGTCTCTGCCTGAGACTACTGGCAATCCTTATAGCCT
GGCCCTATTGGAACTGAGAGCGAATCTTCCTAGTATCTTCCTGACTCTCTTACTCAGCTACGGAGACTAGAAGAATTGGA
TTTAGAAAAAAATGAAATATATTAACTTGTCAGAATCAACTGGAGCACGCTTACACCTGAGGACCTCTGGTTGGATGGAA
ATCAACTATCAGAAACACCTCAGGAACCAGGAAATCCGAAGAAGCTGCTGTGCTTAGATGTCTCCAGAAACAGGTTGGAA
AGACTTCCTGAAGAAGTCAGTGGCCTGACCTCCTTAACAGATTTCGTCATTTCCCAGAACTTATTAGAAATGATTCCAGA
TGGCACTGAAAAACCAAACACGCTGTCGATCTCGAAGGTGGATCAGCACAGACTCACACAGTTGCCTGAAGCAGCTGGAG
ACGGCGAAAGTCTCACG

Alignment

ORF - retro_tsyr_1762 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.04 %
• Parental protein coverage: 52.29 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 7

Retrocopy - Parental Gene Alignment:

Parental  KSHCSLVCVPKKIY-RYSRSLEELLLDA-NQLRQLPEQFFQ-LVKLRKL-GLSDNEIQRLPPEIANFMQL
          K..CSL..VP..I..R..RS.E..L.DA..QLR..P...FQ...KLR.L.GL...E..RLPPEIA.F..L
Retrocopy KRRCSLLRVPGEIH<RHARSPEQQLPDA<HQLRERPRRLFQ<ARKLRNL<GLRGREVPRLPPEIASFTEL

Parental  VELDVSRNDISEIPESISFCKALQIADFSGNPLTRLPESFPELQNLTCLSVNDISLQSLPENIGNLYNLV
          VELDVS.NDIS.I.ESIS.CKALQ..DFSG.....L.ESFPELQ.LTCLSVNDI.LQSLPE..GN.Y.L.
Retrocopy VELDVSGNDISGIAESISSCKALQRVDFSGSLQMSLRESFPELQDLTCLSVNDIPLQSLPETTGNPYSLA

Parental  SLELRENLLT-YLPDSLTQLRRLEELDLGNNEIY-NLPESIGALLHLK-NLWLDGNQLSELPQEIGNLKN
          .LELR.NL...YLPDSLTQLRRLEELDL..NEIY.NL.ES.GA.LHL...LWLDGNQLSE.PQE.GN.K.
Retrocopy LLELRANLPS<YLPDSLTQLRRLEELDLEKNEIY>NLSESTGARLHLR<DLWLDGNQLSETPQEPGNPKK

Parental  LLCIDVSENRLERLPEEISGLTSLIDLVISQNLLETIPDGIGKLKKLSILKLDQNRLTQLPEAVGDCESL
          LLC.DVS.NRLERLPEE.SGLTSL.D.VISQNLLE.IPDG..K...LSI.K.DQ.RLTQLPEA.GD.ESL
Retrocopy LLCLDVSRNRLERLPEEVSGLTSLTDFVISQNLLEMIPDGTEKPNTLSISKVDQHRLTQLPEAAGDGESL

Parental  T
          T
Retrocopy T

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_1762 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 1 parental gene, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000009184	5 retrocopies	retro_tsyr_1594, retro_tsyr_1761, retro_tsyr_1762 , retro_tsyr_475, retro_tsyr_598,