RetrogeneDB ID: retro_tsyr_567

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_140797:1205..1615(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTSYG00000013681
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: GOLT1B
• Ensembl ID: ENSTSYG00000009234
• Aliases: None
• Description: golgi transport 1B [Source:HGNC Symbol;Acc:20175]

Sequence

>retro_tsyr_567
ATGATGTCCTTAACAGACACCCAGAAAAGAGGAATGGGATTAACAGGATTGAAGTGTTTGTCCTGTTCTTTGGAATGATT
CTCTTTTTTGACAAAGCACTACTGGCTACTGGAAATGTTTTATTTGGACTGGCTTGGCTTTTGTAGTTGGTTTAGAAAGA
ACATTCAGGTACTTTTTTCAAAAGTGTAAAATGAAAGTCACAGGAATTTTCCTGAGTGATGTATTTCTCCTTATTGGGTG
GCCTTTGATAGGCATGATCTTCAAAATTTATGAATTTTTAAATCTTGTTCAGGGCCTTGTTGCCAGTGGTCGTTGGCTTT
ATTAAAAGAGTGATAGTCCTTGGATCTCTCTTAAATTTACCTGGAATTAGATCATTTGTAGATAAAGTTGAAGAAAGCAA
CAATATGGTA

Alignment

ORF - retro_tsyr_567 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.01 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  MISLTDTQKIGMGLTGFG-VFFLFFGMILFFDKALLAIGNVLFV-AGLAFVIGLERTFRFFFQKHKMKAT
          M.SLTDTQK.GMGLTG...VF.LFFGMILFFDKALLA.GNVLF...GLAFV.GLERTFR.FFQK.KMK.T
Retrocopy MMSLTDTQKRGMGLTGLK<VFVLFFGMILFFDKALLATGNVLFG<TGLAFVVGLERTFRYFFQKCKMKVT

Parental  GFFLGGVFVVLIGWPLIGMIFEIYGFF-LLFRGFFPVVVGFIRRVPILGSLLNLPGIRSFVDKVGESNNM
          G.FL..VF..LIGWPLIGMIF.IY.F...LFR...PVVVGFI.RV..LGSLLNLPGIRSFVDKV.ESNNM
Retrocopy GIFLSDVFL-LIGWPLIGMIFKIYEFL>ILFRALLPVVVGFIKRVIVLGSLLNLPGIRSFVDKVEESNNM

Parental  V
          V
Retrocopy V

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_567 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000013576	2 retrocopies	retro_dnov_158, retro_dnov_1730,
Loxodonta africana	ENSLAFG00000000965	1 retrocopy	retro_lafr_416,
Tarsius syrichta	ENSTSYG00000009234	1 retrocopy	retro_tsyr_567 ,