RetrogeneDB ID: retro_tsyr_16

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_405613:515..1238(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSTSYG00000010044
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000008071
• Aliases: None
• Description: None

Sequence

>retro_tsyr_16
ATGTCAGGCTTTGAAAACTTAAACACGGATTTCTACCAGACAAGTTACAGCATCGATGATCAATCACAGCAGTCCTATGA
TTATGGAGGAAGTGGAGGACCCTATAGCAAACAGTACACTGGCTATGACTACTCGCAGCAAGGCCGATTTGTCCCTCCAG
ACATGATGCAGCCACAGCAGCCGTACACTGGGCAGATCTTCCAGCCAACTCAGGCATACACTCCAGCTTCACCTCAGCCA
TTCTATGGAAACAACTTTGAGGATGAGCCACCTTTATTAGAAGAGTTAGGTATCAATTTTGACCACATCTGGCAAAAAAC
ACTAACAGTATTACATCCATTAAAAGTAGCAGATGGAAGCATCATGAATGAAACCGATTTGGCAGGACCAGTGGTTTTTT
GCCTTGCCTTTGGAGCCACATTGTTACTGGCTGGCAAGATCCAGTTTGGCTATGTATATGGGATCAGTGCAATTGGATGT
CTAGGAATGTTTTGTTTATTAAACTTAATGAGTATGACGGGTGTTTCATTTGGTTGTGTGGCAAGTGTCCTTGGATATTG
TCTTCTGCCCATGATTCTACTCTCCAGCTTTGCAGTGATATTTTCTTTGCAAGGGATGGTAGGAATCATTCTCACTGCTG
GGATTATTGGATGGTGTAGTTTTTCTGCTTCCAAGATATTTATTTCTGCATTAGCCATGGAAGGACAGCAACTTTTAGTA
GCA

Alignment

ORF - retro_tsyr_16 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.34 %
• Parental protein coverage: 90.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSGFENLNTDFFQTSYSIDDQSQQSYDYGGSGGPYSKQYTGYDYSQQGRFVPPDMMQPQQPYTGQIFQPT
          MSGFENLNTDF.QTSYSIDDQSQQSYDYGGSGGPYSKQYTGYDYSQQGRFVPPDMMQPQQPYTGQIFQPT
Retrocopy MSGFENLNTDFYQTSYSIDDQSQQSYDYGGSGGPYSKQYTGYDYSQQGRFVPPDMMQPQQPYTGQIFQPT

Parental  QAYTPASPQPFYGNNFEDEPPLLEELGINFDHIWQKTLTVLHPLKVADGSIMNETDLAGPMVFCLAFGAT
          QAYTPASPQPFYGNNFEDEPPLLEELGINFDHIWQKTLTVLHPLKVADGSIMNETDLAGP.VFCLAFGAT
Retrocopy QAYTPASPQPFYGNNFEDEPPLLEELGINFDHIWQKTLTVLHPLKVADGSIMNETDLAGPVVFCLAFGAT

Parental  LLLAGKIQFGYVYGISAIGCLGMFCLLNLMSMTGVSFGCVASVLGYCLLPMILLSSFAVIFSLQGVVGII
          LLLAGKIQFGYVYGISAIGCLGMFCLLNLMSMTGVSFGCVASVLGYCLLPMILLSSFAVIFSLQG.VGII
Retrocopy LLLAGKIQFGYVYGISAIGCLGMFCLLNLMSMTGVSFGCVASVLGYCLLPMILLSSFAVIFSLQGMVGII

Parental  LTAGIIGSCSFSASKIFISALAMEGQQLLVA
          LTAGIIG.CSFSASKIFISALAMEGQQLLVA
Retrocopy LTAGIIGWCSFSASKIFISALAMEGQQLLVA

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_16 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 8 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000010135	1 retrocopy	retro_amel_489,
Dasypus novemcinctus	ENSDNOG00000014497	1 retrocopy	retro_dnov_16,
Felis catus	ENSFCAG00000031350	1 retrocopy	retro_fcat_177,
Myotis lucifugus	ENSMLUG00000011143	3 retrocopies	retro_mluc_2549, retro_mluc_521, retro_mluc_750,
Mus musculus	ENSMUSG00000024487	1 retrocopy	retro_mmus_3086,
Otolemur garnettii	ENSOGAG00000001543	2 retrocopies	retro_ogar_2657, retro_ogar_2803,
Sorex araneus	ENSSARG00000013838	1 retrocopy	retro_sara_516,
Tarsius syrichta	ENSTSYG00000008071	1 retrocopy	retro_tsyr_16 ,