RetrogeneDB ID: retro_tsyr_802

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_204593:70..676(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAB11A
• Ensembl ID: ENSTSYG00000014758
• Aliases: None
• Description: RAB11A, member RAS oncogene family [Source:HGNC Symbol;Acc:9760]

Sequence

>retro_tsyr_802
GTCCTTATTGGAGATTGTGGTGTTAGGAAGAGTAATCTCCTGTCTCGATTTACTCGAAATGAGTTTAATCTGGAAAGCAA
GAGCACCATTGGTGTAGAGTTTGCAACAAGAAGCATTCAGGTTGATGGGAAAACAATCAAGGCACAGATATGGGATACTG
CTGGGCAGGAGCAATACCGAGCCATCACTTCAGCATACTATCGTGGAGCTGTAGGTGCCTTATTGGTTTATGACATTGCT
AAACATCTCACATATGAAAATGTGGAGCGATGGCTGAAAGAGCTGAGAGATCATGCTGATAGTAACATTTTCATCATGCT
TGTAGGCAACAAGAGTGACTTACGTCATCTCAGGGCAGTTCCCACAGATGAAGCAAGAGCTTTTGCAGAAAAGAATGGCT
TGTCATTTATTGAGACATCTGCTTTAGACTCTACAAATGTAGAAGCTGCTTTTCAGACAATTCTAACAGAGATATACCTC
ATTGTTTCTCAGAAGCAGATGTCAGACAGACGCGAAAATGACATGTCTCCAAGTAACAACGTGGTTCCTATTCATGTTCC
TCCAACCACTGAAAACAAGCCAAAGGTGCAGTGCTGTCAGAACATC

Alignment

ORF - retro_tsyr_802 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.52 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRAITSAYYRGA
          VLIGD.GV.KSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQE.YRAITSAYYRGA
Retrocopy VLIGDCGVRKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQEQYRAITSAYYRGA

Parental  VGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETS
          VGALLVYDIAKHLTYENVERWLKELRDHADSNI.IMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETS
Retrocopy VGALLVYDIAKHLTYENVERWLKELRDHADSNIFIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETS

Parental  ALDSTNVEAAFQTILTEIYRIVSQKQMSDRRENDMSPSNNVVPIHVPPTTENKPKVQCCQNI
          ALDSTNVEAAFQTILTEIY.IVSQKQMSDRRENDMSPSNNVVPIHVPPTTENKPKVQCCQNI
Retrocopy ALDSTNVEAAFQTILTEIYLIVSQKQMSDRRENDMSPSNNVVPIHVPPTTENKPKVQCCQNI

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_802 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
Petromyzon marinus	ENSPMAG00000009335	1 retrocopy	retro_pmar_25,
Tarsius syrichta	ENSTSYG00000013060	1 retrocopy	retro_tsyr_1215,
Tarsius syrichta	ENSTSYG00000014758	1 retrocopy	retro_tsyr_802 ,