RetrogeneDB ID: retro_tsyr_1964

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_7272:34793..35291(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EIF3K
• Ensembl ID: ENSTSYG00000007001
• Aliases: None
• Description: eukaryotic translation initiation factor 3, subunit K [Source:HGNC Symbol;Acc:24656]

Sequence

>retro_tsyr_1964
ATGGCAATGTCTGAGCAGATGAAGGCAAATGTGGGCAAGTTGCTCAGGGGTATTGACAGGTACAATCCTGAAAACCTGGC
CACCTTGAAGAACTATGTGGAGACACAGGAAAAGGAGAATGCCTATGATCTGGAAGCCAACCTGGCTGTTCTGAAGTTGT
ACCAGTTCAACCTAGCCTTCTTTCAGACCATAGTCACTGCCCATATTCTGCTGAAGACCCTCACCAACCTGCCCCACACT
GGCTTTACCCTGTGCAAGTGCATGATTGACCAGGCACATCAAGAAGAGCAGCCAATCCCACAGATTTTGTACCTTGGGAA
CCTGCTGGAGACTTGCCACTTCAAGGCCTTCTGGCAAGCCTTTGATGAAAACATGGACCTCTTGACAGGGATAACTGGCT
TTGAAGACTCTGTCTGAAAATTTATCTGCTGTGCTGTGGGCATCACCTACCAGCACATCAACCACTGGCTGTTGGCGGAG
ATGCTCTGGGTTCTGACA

Alignment

ORF - retro_tsyr_1964 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.54 %
• Parental protein coverage: 76.15 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAMFEQMRANVGKLLKGIDRYNPENLATLERYVETQAKENAYDLEANLAVLKLYQFNPAFFQTTVTAQIL
          MAM.EQM.ANVGKLL.GIDRYNPENLATL..YVETQ.KENAYDLEANLAVLKLYQFN.AFFQT.VTA.IL
Retrocopy MAMSEQMKANVGKLLRGIDRYNPENLATLKNYVETQEKENAYDLEANLAVLKLYQFNLAFFQTIVTAHIL

Parental  LKALTNLPHTDFTLCKCMIDQAHQEERPIRQILYLGDLLETCHFQAFWQALDENMDLLEGITGFEDSVRK
          LK.LTNLPHT.FTLCKCMIDQAHQEE.PI.QILYLG.LLETCHF.AFWQA.DENMDLL.GITGFEDSV.K
Retrocopy LKTLTNLPHTGFTLCKCMIDQAHQEEQPIPQILYLGNLLETCHFKAFWQAFDENMDLLTGITGFEDSV*K

Parental  FICHVVGITYQHIDRWLLAEMLGDLT
          FIC..VGITYQHI..WLLAEML..LT
Retrocopy FICCAVGITYQHINHWLLAEMLWVLT

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_1964 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 11 parental genes, and 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Echinops telfairi	ENSETEG00000007594	3 retrocopies	retro_etel_1653, retro_etel_1868, retro_etel_5,
Homo sapiens	ENSG00000178982	2 retrocopies	retro_hsap_2616, retro_hsap_3224,
Gorilla gorilla	ENSGGOG00000016808	1 retrocopy	retro_ggor_2192,
Myotis lucifugus	ENSMLUG00000010217	1 retrocopy	retro_mluc_645,
Macaca mulatta	ENSMMUG00000028767	2 retrocopies	retro_mmul_1478, retro_mmul_2029,
Monodelphis domestica	ENSMODG00000013314	3 retrocopies	retro_mdom_1235, retro_mdom_1929, retro_mdom_781,
Otolemur garnettii	ENSOGAG00000026260	1 retrocopy	retro_ogar_413,
Pongo abelii	ENSPPYG00000025857	4 retrocopies	retro_pabe_2342, retro_pabe_2555, retro_pabe_2610, retro_pabe_2673,
Pan troglodytes	ENSPTRG00000010934	2 retrocopies	retro_ptro_1763, retro_ptro_2176,
Sarcophilus harrisii	ENSSHAG00000005313	1 retrocopy	retro_shar_689,
Tarsius syrichta	ENSTSYG00000007001	1 retrocopy	retro_tsyr_1964 ,