RetrogeneDB ID: retro_tsyr_1170

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_333422:468..1049(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000012413
• Aliases: None
• Description: None

Sequence

>retro_tsyr_1170
ATGGAGCCACTCGCAGTTTACTCATTAAAATGCTTGGGACCCAAAGCAAAGGTATTTGCATTTCTGCTGTCTGTGGTTCT
ATGCACAGTAATGATATTTTCTCTACAACAAAAATTCCTAAAACCTAAAATCAACAGCTTTTATGCCTTTGAAGTGAAGG
ATGTAAAAGGAAGAACCGTTTCTCTGGAAAATTTTAAAGGCAAAGTTTCACTAGTGATAAATGTGGTTAAAGACTGCCAA
CTCACAGACAAAGATTACTTAGCACTGAAGGAATTGCACAGAGAGTTTGGACCATCTCACTTCAGTGTGTTGGCTTTTCC
ATGTAACCAGTTTGGAGAATCAGAGCGCCACCCAAGCAAAGAAGTAGAATCTTTTGCAAGAAAATATTACAGAGTGGCAT
TCCCCCAGCTTCCACAAGATTAAGATTCTAGGATCTGAAAAAGGACCTGCATTTAGATTTTTTTGTTGATTCTTCTAAGA
AAGAACCAAGGTGCAATTTTTGGAAGTATCTGGTCAACCCTGAAGGTCAAATTGTGAAGTTCTGAAGGCCAGAGGAGCCT
ATTGACGTCATTAGGCCTGAC

Alignment

ORF - retro_tsyr_1170 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.56 %
• Parental protein coverage: 92.34 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MEPLTAYPLKCSGPKAKVFAVLLSMVLCTVMLFLLQLKFLKPKINSFYAFEVKDAKGRNVSLEKFKGKVS
          MEPL..Y.LKC.GPKAKVFA.LLS.VLCTVM.F.LQ.KFLKPKINSFYAFEVKD.KGR.VSLE.FKGKVS
Retrocopy MEPLAVYSLKCLGPKAKVFAFLLSVVLCTVMIFSLQQKFLKPKINSFYAFEVKDVKGRTVSLENFKGKVS

Parental  LVVNVASDCQLTDRNYLALKELHREFGPSHFSVLAFPCNQFGESEPRPSKEVESFARKNYGVTF-PIFHK
          LV.NV..DCQLTD..YLALKELHREFGPSHFSVLAFPCNQFGESE..PSKEVESFARK.Y.V.F.P.FHK
Retrocopy LVINVVKDCQLTDKDYLALKELHREFGPSHFSVLAFPCNQFGESERHPSKEVESFARKYYRVAF>PSFHK

Parental  IKILGSDAEPAFR-FLVDSSKKEPRWNFWKYLVNPEGQVVKFWRPEEPTEVIRPD
          IKILGS...PAFR.F.VDSSKKEPR.NFWKYLVNPEGQ.VKF.RPEEP..VIRPD
Retrocopy IKILGSEKGPAFR>FFVDSSKKEPRCNFWKYLVNPEGQIVKF*RPEEPIDVIRPD

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_1170 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000028869	1 retrocopy	retro_cfam_66,
Rattus norvegicus	ENSRNOG00000010461	1 retrocopy	retro_rnor_2360,
Tarsius syrichta	ENSTSYG00000000641	1 retrocopy	retro_tsyr_1061,
Tarsius syrichta	ENSTSYG00000012413	2 retrocopies	retro_tsyr_1170 , retro_tsyr_2159,