RetrogeneDB ID: retro_tsyr_1594

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_50308:9169..10018(+)
• 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_1594
AAGCGCCGCTGCTCGCTGCTCTGCATCCCCGGGGAGATCGACACCACACCCGCAGCCCGGAGCAGCTGCTGCTGGACGCC
AACCAGCTCAGTGAGCTGCCCCGGCAATTTTTCCAGCCAGTCAAATTACGAAAGCCAGACTTAGTGGTCATGAAATTCCG
CGGATCCCTCCAGAAATAGCAAACTTCATGGAGCTGGTGGAACTAGATGTGTCTGGACATGATATTTCTGAAACTGCAGA
AAGCATCTCGTTCTGCAAAGCATTGCAGAGAGTGGACTTCAGCGGAAGCCTGCAGATGACATTGCTAGAAAGCTTTCCCG
AATTGCAGGATTTAACGTGTCTTTCTGTAAATGACATCTCACTGCAGTCTCTGCCTGAGAATATTGGCAATCTTTATAAC
CTGGCCTCATTGGAACTGAGAGAGAATCTTCCTACATATCTTCCTGACTCTCTTACTCAGCTGTGGAGACTAGAAGAATT
TGATTTAGGAAAAAATGAAATACATAACTTGTCAGAATCAATTGGAGCACTCTTACATCTGAGGATCTCTGGTTGGATGG
AAATCAACTATCAGAAACACCTCAGGAAATAGGAAATCTGAAGAAGCTGCTGTGCTTAGATATCTCCAAGAACAGGTTGG
AAAGACTTCCTGAAGAAATCAGTGGCCTGACCTCATTAACAGATTTCATCATTTCACAGAACTTATTAGAAATGATTCCA
GATGGCACTGAAAAACTAAATAAACTGTCAATCTTGAAGGTGGATCAGAACAGACTCACACAGTTGCCTGAAGCAGTTGG
AGACTGCAAAAGTCTCACTGGGCTAATACTTACAAAAACCCGGCTCTTG

Alignment

ORF - retro_tsyr_1594 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77. %
• Parental protein coverage: 54.2 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  KSHCSLVCVPKKI-YRYSRSLEELLLDANQLRQLPEQFFQLVKLRK-LGLSDNEIQRLPPEIANFMQLVE
          K..CSL.C.P..I.....RS.E.LLLDANQL..LP.QFFQ.VKLRK...LS..EI.R.PPEIANFM.LVE
Retrocopy KRRCSLLCIPGEI<RHHTRSPEQLLLDANQLSELPRQFFQPVKLRK<ARLSGHEIPRIPPEIANFMELVE

Parental  LDVSRNDISEIPESISFCKALQIADFSGNPLTRLPESFPELQNLTCLSVNDISLQSLPENIGNLYNLVSL
          LDVS..DISE..ESISFCKALQ..DFSG.....L.ESFPELQ.LTCLSVNDISLQSLPENIGNLYNL.SL
Retrocopy LDVSGHDISETAESISFCKALQRVDFSGSLQMTLLESFPELQDLTCLSVNDISLQSLPENIGNLYNLASL

Parental  ELRENLLTYLPDSLTQLRRLEELDLGNNEIYNLPESIGALLHLK-NLWLDGNQLSELPQEIGNLKNLLCI
          ELRENL.TYLPDSLTQL.RLEE.DLG.NEI.NL.ESIGALLHL...LWLDGNQLSE.PQEIGNLK.LLC.
Retrocopy ELRENLPTYLPDSLTQLWRLEEFDLGKNEIHNLSESIGALLHLR<DLWLDGNQLSETPQEIGNLKKLLCL

Parental  DVSENRLERLPEEISGLTSLIDLVISQNLLETIPDGIGKLKKLSILKLDQNRLTQLPEAVGDCESLTELV
          D.S.NRLERLPEEISGLTSL.D..ISQNLLE.IPDG..KL.KLSILK.DQNRLTQLPEAVGDC.SLT.L.
Retrocopy DISKNRLERLPEEISGLTSLTDFIISQNLLEMIPDGTEKLNKLSILKVDQNRLTQLPEAVGDCKSLTGLI

Parental  LTENRLL
          LT..RLL
Retrocopy LTKTRLL

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_1594 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,