RetrogeneDB ID: retro_tsyr_634

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_15708:6021..6439(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CXorf56
• Ensembl ID: ENSTSYG00000008043
• Aliases: None
• Description: chromosome X open reading frame 56 [Source:HGNC Symbol;Acc:26239]

Sequence

>retro_tsyr_634
CCTGAAGACATTGAATGGCAGTACAGGAAGAAGTGTGCAAAATGTGGACTGCCACTCTTCTACCAGTCTCAGCCGAAGAA
TGCTCCCATGACCTTCATTGTGGATGGAGCAGTAGACAAGTTTGGCCAGGGCTTTGGGAAAATGAACATATGTACTCAGA
AACAAGAGCCTCCTAAGGTGATGACGACCAAACGGACTAAAGACATGGGCAAGTGCAGTTCTATTAACTGTGTTTACCAT
TGATGAAAAGGAAGAAATTGAGGCTAGAGAAGTTGCTGATTCATATGAACAGAATTCCAAAGTGATTGAAAAACAGCAGG
AACACAAAGGCATGAGCAAGAGGTGACTGCAAGAGCTGGCTGAACTAGAAGCCAAGGTAGTGAAAATGAAGGAGACCTTG
ATTGACAACCAGTTCAAA

Alignment

ORF - retro_tsyr_634 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.51 %
• Parental protein coverage: 63.51 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PEGIERQYRKKCAKCGLPLFYQSQPKNAPVTFIVDGAVVKFGQGFGKTNIYTQKQEPPKKVMMTKRTKDM
          PE.IE.QYRKKCAKCGLPLFYQSQPKNAP.TFIVDGAV.KFGQGFGK.NI.TQKQEPP.KVM.TKRTKDM
Retrocopy PEDIEWQYRKKCAKCGLPLFYQSQPKNAPMTFIVDGAVDKFGQGFGKMNICTQKQEPP-KVMTTKRTKDM

Parental  GKFSSV-TVSTIDEEEEEIEAREVADSYAQNAKVIEKQLERKGMSKRRLQELAELEAKKAKMKGTLIDNQ
          GK.SS..TV.TID.E.EEIEAREVADSY.QN.KVIEKQ.E.KGMSKR.LQELAELEAK..KMK.TLIDNQ
Retrocopy GKCSSI>TVFTID-EKEEIEAREVADSYEQNSKVIEKQQEHKGMSKR*LQELAELEAKVVKMKETLIDNQ

Parental  FK
          FK
Retrocopy FK

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_634 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 10 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000005111	1 retrocopy	retro_cjac_311,
Latimeria chalumnae	ENSLACG00000012468	1 retrocopy	retro_lcha_59,
Myotis lucifugus	ENSMLUG00000015751	1 retrocopy	retro_mluc_72,
Otolemur garnettii	ENSOGAG00000012474	1 retrocopy	retro_ogar_145,
Pongo abelii	ENSPPYG00000020670	1 retrocopy	retro_pabe_177,
Pan troglodytes	ENSPTRG00000022224	1 retrocopy	retro_ptro_104,
Sorex araneus	ENSSARG00000003163	1 retrocopy	retro_sara_5,
Sarcophilus harrisii	ENSSHAG00000006319	1 retrocopy	retro_shar_16,
Ictidomys tridecemlineatus	ENSSTOG00000011579	1 retrocopy	retro_itri_103,
Tarsius syrichta	ENSTSYG00000008043	1 retrocopy	retro_tsyr_634 ,