RetrogeneDB ID: retro_tsyr_1322

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_39715:4584..5169(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSTSYG00000010967
• Aliases: None
• Description: None

Sequence

>retro_tsyr_1322
CATGGCATCCTTTCCCTGCAAATCCTCCCAACCACGATGGCTTCCGCAGTGTTTTTACACTTCGAGTCTGTACGGACATT
CGTGCACAACAATCCTGCCATAATTCTGGGGTCTGCCTTGGAATCCTTGGGCTTGATTTTGGCCTTAACTCCACACAGAC
ATGAGTATCCCCTCAACCTGTACCTGCTTTTTGGATTTACCCTGATGGAAGCCCTGACTGTGGTCTTTGTGGTTACTTTC
TATGACATACGGATTATTCTGCAAGCTTTTAGACTGATGACGACAGTATTTCTTGGTTTGACAGCCTACACCCTCCAATC
CAAGAGAGTTCGGCAAAATTGGAGCAGGGCTGTTTGCTGTCTTTTGGATTTTGTGGTTGTCAGGATTCTTGAAGTTGTTC
TTCTACAGCAAGATGGTGGAGGTGGTCTTTGCTGCCGCGGGAGCCCTTCTTTTCTGTGGCTTCATTATCTATGACACACA
CTCACTGATGCACAGACTGTCACCTGAAGAGTACATGTTAGCTGCCATCAACCTCTACCTGGATATCATCAACCTCTCCT
GCACCTGTTGTGGCTTCTGGAAGCA

Alignment

ORF - retro_tsyr_1322 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.41 %
• Parental protein coverage: 95.59 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  YGILSLQVLLTTMTSAVFLYFESVRTFVHNSPAVILVSAFGSLGLIFALTLHRHKYPLNLYLLFGFTLME
          .GILSLQ.L.TTM.SAVFL.FESVRTFVHN.PA.IL.SA..SLGLI.ALT.HRH.YPLNLYLLFGFTLME
Retrocopy HGILSLQILPTTMASAVFLHFESVRTFVHNNPAIILGSALESLGLILALTPHRHEYPLNLYLLFGFTLME

Parental  ALTV-FVVTFYDIRIILQAFILTTTVFLALTAYTLQSKR-DFSKFGAGLFAAF-WILWLSGFLRLFFYSE
          ALTV.FVVTFYDIRIILQAF.L.TTVFL.LTAYTLQSKR....K...G....F.WILWLSGFL.LFFYS.
Retrocopy ALTVVFVVTFYDIRIILQAFRLMTTVFLGLTAYTLQSKR<SSAKLEQGCLLSF<WILWLSGFLKLFFYSK

Parental  TVEVVFAAIGALLFCGFIIYDTHSLMHRLSPEEYVLAAINLYLDIINL-FLHLLRLLEA
          .VEVVFAA.GALLFCGFIIYDTHSLMHRLSPEEY.LAAINLYLDIINL..LHLL.LLEA
Retrocopy MVEVVFAAAGALLFCGFIIYDTHSLMHRLSPEEYMLAAINLYLDIINL<LLHLLWLLEA

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_1322 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 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000026993	1 retrocopy	retro_btau_1193,
Callithrix jacchus	ENSCJAG00000014558	1 retrocopy	retro_cjac_521,
Cavia porcellus	ENSCPOG00000007728	1 retrocopy	retro_cpor_441,
Tarsius syrichta	ENSTSYG00000010967	3 retrocopies	retro_tsyr_1322 , retro_tsyr_1408, retro_tsyr_936,