RetrogeneDB ID: retro_tsyr_229

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: GeneScaffold_5911:42187..42672(-)
• Located in intron of: ENSTSYG00000005852

Retrocopy information

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

Parental gene information

• Parental gene symbol: ELOVL5
• Ensembl ID: ENSTSYG00000000707
• Aliases: None
• Description: ELOVL fatty acid elongase 5 [Source:HGNC Symbol;Acc:21308]

Sequence

>retro_tsyr_229
ATAAAAAATGTTGATGCATCATAAGTACCTATTTCAAGGCACTGCTAAGCACTAAGATATCAAAGTAGAAGAAAGGTTTC
TTCTGGACAATTATGTACCTACATTTATCTGCTGTCATGTATTTACTAATTGTATAGCTGGAACCAAAATACATGAGAAA
TGGACTGCTGTTCTCTTGCAGGGGACTTTTAGTGGTGTGTAACCCTGGACTCTTGTCAATCTCTACATGTTCTGAGTTAC
TAACAGGAGTATGGGAATGTAAATACAACCTCTGACAAAGCACACACAGCACGGGTGAGTTAAATACAAAAATTATCTGT
GTCCACTAGTGGTACCACTTCTCCAAGCTCATAGAATTTATGGACACCTTCCTCTTCATCCTGCACAAAAACCACCACCA
GATCAAAATCCTGCATGTCTACCATCATGATATCTGGTGGTCTGTCATGAACTGGGTTCCCTGCAGCCACTCTGATTTTG
GTGCC

Alignment

ORF - retro_tsyr_229 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 56.4 %
• Parental protein coverage: 64.39 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MEHFDAS-LSTYFKALLGPRDTR-VKGWFLLDNYIPTFICTVIYLLIVWLGPKYMRNRQPFSCRGILVVY
          ....DAS..STYFKALL........KG.F....Y.......V.YLLIV.L.PKYMRN...FSCRG.LVV.
Retrocopy IKNVDAS<ISTYFKALLSTKISK*KKGFFWTIMYL--HLSAVMYLLIV*LEPKYMRNGLLFSCRGLLVVC

Parental  NLGLTLLSLYMFCELVTGVWEGRYNFFCQGTRSAGESDMKIVRVLWWYYFSKLIEFMDTFFFVLRKNNHQ
          N.GL..LS.....EL.TGVWE..YN...Q.T.S.GE...KI..V..WY.FSKLIEFMDTF.F.L.KN.HQ
Retrocopy NPGL--LSISTCSELLTGVWECKYNL*-QSTHSTGELNTKIICVH*WYHFSKLIEFMDTFLFILHKNHHQ

Parental  ITVLHVYHHASMLNIWWFVMNWVPCGHSSVRA
          I..LHVYHH.....IWW.VMNWVPC.HS...A
Retrocopy IKILHVYHH----DIWWSVMNWVPCSHSDFGA

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_229 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 3 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000011119	1 retrocopy	retro_cjac_1568,
Ictidomys tridecemlineatus	ENSSTOG00000015170	2 retrocopies	retro_itri_120, retro_itri_143,
Tarsius syrichta	ENSTSYG00000000707	1 retrocopy	retro_tsyr_229 ,