RetrogeneDB ID: retro_tsyr_1504

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_469374:512..1004(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: XRCC6BP1
• Ensembl ID: ENSTSYG00000006918
• Aliases: None
• Description: XRCC6 binding protein 1 [Source:HGNC Symbol;Acc:29452]

Sequence

>retro_tsyr_1504
CAAAGACAATTTTCTTGTGAAGATCGTAATGGAAATGTCAGTGGGGGTTTCGATGCTTCAACATCTCAGGTTGTTTTGTG
GCAGAATAATATCTGAAATCAAGCCCACATGCACAGAGTGGTCACCCACACGTTCATTCATGCATTTGATCATCGTGGAA
CCCATGTCAACTGGTCCACCAACGTCTGACATTTGGCCCGCTCAGAGGTTCGAGCTGCTAACCTTAGCAGAGACTGCTCA
CTGGCAAACCAAATATTCAGGTTTTGCTTTGGATTGAAGCGACACCATAAGACTTGTGTGTGAGACAGAGCCATTCTTTC
TATTCTGGCTGTTAGGAACATCAGCAAAGAAGTAGTTTAGAAGACTGTTGATGAAGTTTTTGAATCTTATTTCAATGACC
ATGAACCTTTTGGAAGGATCCCACATAGCAAGAGTTATGCGAGATACGCTCATAGGGACTTTCAAAATCTTAATTGATAC
TATTCAAATATG

Alignment

ORF - retro_tsyr_1504 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.27 %
• Parental protein coverage: 66.94 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ERHFSCEDCNGNVSGGFDASTSQIVLCQNNIRNQAHMNRVVTHELIHAFDHCRAHVDWFTNIRHLACSEV
          .R.FSCED.NGNVSGGFDASTSQ.VL.QNNI.NQAHM.RVVTH..IHAFDH...HV.W.TN..HLA.SEV
Retrocopy QRQFSCEDRNGNVSGGFDASTSQVVLWQNNI*NQAHMHRVVTHTFIHAFDHRGTHVNWSTNV*HLARSEV

Parental  RAANLSGDCSLVNEIFRFHFGLKRHHQTCVRDRAILSILAVRNISKEVAKRAVDEVFESCFNDHEPFGRI
          RAANLS.DCSL.N.IFRF.FGLKRHH.TCV.DRAILSILAVRNISKEV....VDEVFES.FNDHEPFGRI
Retrocopy RAANLSRDCSLANQIFRFCFGLKRHHKTCV*DRAILSILAVRNISKEVV*KTVDEVFESYFNDHEPFGRI

Parental  PHNKTYARYAHRDFQNRDRYYSNI
          PH.K.YARYAHRDFQN...YYSN.
Retrocopy PHSKSYARYAHRDFQNLN*YYSNM

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_1504 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Tupaia belangeri	ENSTBEG00000010031	1 retrocopy	retro_tbel_1769,
Tarsius syrichta	ENSTSYG00000006918	1 retrocopy	retro_tsyr_1504 ,