RetrogeneDB ID: retro_tsyr_2031

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_81324:6842..7450(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ACTR1B
• Ensembl ID: ENSTSYG00000000406
• Aliases: None
• Description: ARP1 actin-related protein 1 homolog B, centractin beta (yeast) [Source:HGNC Symbol;Acc:168]

Sequence

>retro_tsyr_2031
CATCCTGTACTCCTGACGGAGGCGCCTTTAAACCCACGGAAAAACCGGGAACGGGCGGCGGAGGTTTTCTTCGAGACCTG
CAACGTACCGGCCCTCCTCATCTCCATGCAAGCCGTGCTCAGCCCTTATGCCACAGGCCGGACCACGGGCGTGGTGCTGG
ATTCCGGGGACGAAGTCACCCACACCGTGCCCGTCTAGGAGGGCTTCGCCATGCCGCGCTCCATCGTGCGCATCGACAGC
GCCGGCCGCGATGTCTCCTGCGTCCTGCGCCCCTCCCTGCGGCAGGAGGGCTACGACTTCCACTCCTCCGCCGAGTTTGA
GATCGTCAAGGCCATCAAGCAGAGAGCCTGCTACCTCTCCACAAACCCCCAAAGAGCAAGACGCTGGAGACCGAGAAGGC
CCAGGACTACCCGCCCGACGGCAGCACCCCTGAGATCGGCCCCTCCCGGCTCCGGACCCCCGAGCTGCTGTTCAGGCCAG
ACCTGATCGGCGAGGAGAGCGAGGGCATCCACGAGGCGCTGATGTTCGCCCTCCAGAAGTCCGACATGGCCCTGCGGCGC
ACGCTGTTCTCCAACATGGTCCTCTCGGGAGGCTCCACCCTGTCCAAG

Alignment

ORF - retro_tsyr_2031 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.02 %
• Parental protein coverage: 54.28 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HPILLTEAPLNPSKNREKAAEVFFETFNVPALFISMQAVLSLYATGRTTGVVLDSGDGVTHAVPIYEGFA
          HP.LLTEAPLNP.KNRE.AAEVFFET.NVPAL.ISMQAVLS.YATGRTTGVVLDSGD.VTH.VP..EGFA
Retrocopy HPVLLTEAPLNPRKNRERAAEVFFETCNVPALLISMQAVLSPYATGRTTGVVLDSGDEVTHTVPV*EGFA

Parental  MPHSIMRVDIAGRDVSRYLRLLLRKEGVDFHTSAEFEVVRTIKERACYLSINPQ-KDEALETEKVQYTLP
          MP.SI.R.D.AGRDVS..LR..LR.EG.DFH.SAEFE.V..IK.RACYLS.NPQ.K...LETEK.Q...P
Retrocopy MPRSIVRIDSAGRDVSCVLRPSLRQEGYDFHSSAEFEIVKAIKQRACYLSTNPQ<KSKTLETEKAQDYPP

Parental  DGSMLDVGPARFRAPELLFQPDLVGDESEGLHEVLAFAIHKSDMDLRRTLFANIVLSGGSTLFK
          DGS....GP.R.R.PELLF.PDL.G.ESEG.HE.L.FA..KSDM.LRRTLF.N.VLSGGSTL.K
Retrocopy DGSTPEIGPSRLRTPELLFRPDLIGEESEGIHEALMFALQKSDMALRRTLFSNMVLSGGSTLSK

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_2031 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 4 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Pteropus vampyrus	ENSPVAG00000007116	1 retrocopy	retro_pvam_992,
Tarsius syrichta	ENSTSYG00000000406	1 retrocopy	retro_tsyr_2031 ,
Tarsius syrichta	ENSTSYG00000008155	5 retrocopies	retro_tsyr_1282, retro_tsyr_2102, retro_tsyr_858, retro_tsyr_9, retro_tsyr_92,
Drosophila melanogaster	FBgn0011745	1 retrocopy	retro_dmel_80,