RetrogeneDB ID: retro_tsyr_1565

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_49294:7703..8151(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000002171
• Aliases: None
• Description: None

Sequence

>retro_tsyr_1565
GCCAAGGTAATCTGTGACAACTTTGGCATCGTGGAGGAATTCATGACCACATCCCTACCATCACTGCCACCCAGAAGACC
ATGAATGGCCCCTCTGGAAAGCTGTGATGCAACTGCCATGGGGCCTCCAGAATATCACCCCTGTGTCCACTGGCTGCCAA
GGCCATGGACAAGGTCACCCCTGTGCTGAACAGGAAGCTCATGGGCATGGCCTTCTGTGCCTTTACCCCCAATGTGTCCA
TCATGGACCTGACCTGCCATCTGGAGAAACCCACCAAATATGATGACTCAAGAAGGTGGTATAGCAGGCATCCAAGGGCC
CCCTCAAGGGTATCCTGGGCTATGCCAAGTACCAGATTGTGTCCTCCAACTTTAGCAGTGACATCTACTCTTCCACCTTT
GATGCTGGGGGTGGCATTGCTCTCAACGACCTCTTTGTCAAGCTCATC

Alignment

ORF - retro_tsyr_1565 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.26 %
• Parental protein coverage: 52.31 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AKAIHDHFGMVKGLMAT-VHTITATE-TVDGPSGKLWRDGRAFQNIIPESPGAVKAVGKTVPELNEKLMG
          AK.I.D.FG.V...M.T...TITAT..T..GPSGKL.........I.P..P.A.KA..K..P.LN.KLMG
Retrocopy AKVICDNFGIVEEFMTT<IPTITATQKTMNGPSGKL*CNCHGASRISPLCPLAAKAMDKVTPVLNRKLMG

Parental  CAFCVPTATVPFVDLTCHLEKPAKYDD-INKVV-KAAQGPLKVLLGCIEHQVVSSD-NSDNHSSTFDAGA
          .AFC..T..V...DLTCHLEKP.KYDD...KVV..A..GPLK..LG....Q.VSS...SD..SSTFDAG.
Retrocopy MAFCAFTPNVSIMDLTCHLEKPTKYDD<LKKVV*QASKGPLKGILGYAKYQIVSSNFSSDIYSSTFDAGG

Parental  GIALKSCFVKLL
          GIAL...FVKL.
Retrocopy GIALNDLFVKLI

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_1565 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 1 parental gene, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Tarsius syrichta	ENSTSYG00000002171	12 retrocopies	retro_tsyr_1094, retro_tsyr_1401, retro_tsyr_1496, retro_tsyr_1565 , retro_tsyr_2005, retro_tsyr_2047, retro_tsyr_302, retro_tsyr_436, retro_tsyr_450, retro_tsyr_454, retro_tsyr_461, retro_tsyr_69,