RetrogeneDB ID: retro_tsyr_2159

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_97538:1944..2498(-)
• 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_2159
ATGGAGCCTCTCACAGCTTACCCATGAAAATGCTCGGGGCCCAAAGCAAAAGTATTTGCGGTTTTGCTGCCTATGGTTCT
ATGTACAGTAATGCTATTTCTTCTACAACTAAAATTCCTAAAACCTAAAATCAACAGCTTTTATGCCTTTGAAGTGAAGG
ATGCAAAAGGAAGAAACGTTTCTCTGGAGAGGTTTAAAAGCAAAATTTCACTAGCTGTAAACGTGGCTAGTGACTGCCAA
CTCACAGACAGAAATTACTTAGCACTAACGGAACTGCACAGAGAGTTTGGACCATCCCACTTCAGCGTGTTGGCTTTTCC
CTGCAATCAGTTTGGAGAATCGGAGCCCCGCTGAGCAAGGAAGTAGAATCTTTTGCAAGAAAAAACTATGGAGTAACATT
CCCCATCTTCCACAAGATTAAGATTTTAGGATCTGACGCAGAACCTGCATTTAGATTTCTTGTTGATTCTTCAAAGAAAG
AACCAAGGTGGAATTTTTGGAAGTATCTGGTAAACCCTGAAGGTCAAGTTGTGAAGTTTTGGAGGCCAGAGGAG

Alignment

ORF - retro_tsyr_2159 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.16 %
• Parental protein coverage: 88.52 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MEPLTAYPLKCSGPKAKVFAVLLSMVLCTVMLFLLQLKFLKPKINSFYAFEVKDAKGRNVSLEKFKGKVS
          MEPLTAYP.KCSGPKAKVFAVLL.MVLCTVMLFLLQLKFLKPKINSFYAFEVKDAKGRNVSLE.FK.K.S
Retrocopy MEPLTAYP*KCSGPKAKVFAVLLPMVLCTVMLFLLQLKFLKPKINSFYAFEVKDAKGRNVSLERFKSKIS

Parental  LVVNVASDCQLTDRNYLALKELHREFGPSHFSVLAFPCNQFGESEPR-PSKEVESFARKNYGVTFPIFHK
          L.VNVASDCQLTDRNYLAL.ELHREFGPSHFSVLAFPCNQFGESEPR..SKEVESFARKNYGVTFPIFHK
Retrocopy LAVNVASDCQLTDRNYLALTELHREFGPSHFSVLAFPCNQFGESEPR<LSKEVESFARKNYGVTFPIFHK

Parental  IKILGSDAEPAFRFLVDSSKKEPRWNFWKYLVNPEGQVVKFWRPEE
          IKILGSDAEPAFRFLVDSSKKEPRWNFWKYLVNPEGQVVKFWRPEE
Retrocopy IKILGSDAEPAFRFLVDSSKKEPRWNFWKYLVNPEGQVVKFWRPEE

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_2159 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 ,