RetrogeneDB ID: retro_tsyr_1220

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_35559:14778..15159(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTSYG00000001879
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: ARHGDIA
• Ensembl ID: ENSTSYG00000012215
• Aliases: None
• Description: Rho GDP dissociation inhibitor (GDI) alpha [Source:HGNC Symbol;Acc:678]

Sequence

>retro_tsyr_1220
ATGTGCGGCAGTGCCCCGGACCCCTTGGAGCTGGACCTGACAAGTGATCTGGAGAGCATCAAGAAGCAGTCATCTGTGCT
AGAGGAGGATGTGGAATATTGGAGAAAGATCTTTTTCCGGGTGAACAGAGAGATTGTGCCGGGCATGAAGTACATCCAGC
ACACATACAGGAAAGGCGTCAAGATTGGCAAGACTGACTACATGGTGGGAAGCTACGTGCCTTAGGCAGAGGAATATGAG
TTCCTGACCTCTGAGGAGGAGGCCCCAAAGGGCATGCTGGCTCTGGGCAGCTGCCACATCAAGTGGTGCGTCACAGACGA
TAGCAAGACTGACCACCTGTCCTGGGAGTGAAATCTCGCCATCGAAAGGGAGTGGAAGGAC

Alignment

ORF - retro_tsyr_1220 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.95 %
• Parental protein coverage: 94.78 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VCSSAPGPLELDLTGDLESFKKQSFVLKEGVEYRIKISFRVNREIVSGMKYIQHTYRKGVKIDKTDYMVG
          .C.SAP.PLELDLT.DLES.KKQS.VL.E.VEY..KI.FRVNREIV.GMKYIQHTYRKGVKI.KTDYMVG
Retrocopy MCGSAPDPLELDLTSDLESIKKQSSVLEEDVEYWRKIFFRVNREIVPGMKYIQHTYRKGVKIGKTDYMVG

Parental  SYGPRAEEYEFLTPMEEAPKGMLARGSYNIKSRFTDDDKTDHLSWEWNLTIKKEWKD
          SY.P.AEEYEFLT..EEAPKGMLA.GS..IK...TDD.KTDHLSWE.NL.I..EWKD
Retrocopy SYVP*AEEYEFLTSEEEAPKGMLALGSCHIKWCVTDDSKTDHLSWE*NLAIEREWKD

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_1220 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Felis catus	ENSFCAG00000030567	1 retrocopy	retro_fcat_584,
Microcebus murinus	ENSMICG00000002895	1 retrocopy	retro_mmur_285,
Tarsius syrichta	ENSTSYG00000012215	1 retrocopy	retro_tsyr_1220 ,