RetrogeneDB ID: retro_tsyr_480

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_12475:33539..34177(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: METAP1
• Ensembl ID: ENSTSYG00000004984
• Aliases: None
• Description: methionyl aminopeptidase 1 [Source:HGNC Symbol;Acc:15789]

Sequence

>retro_tsyr_480
CTAGCACACATTGCAAGAAATTTGCTATCTTTCTCCCCTGAGTTATTATAATTTCTCAAAGTTTTGTTGTACTTCACTGA
ATGTAGTCATCTGCCATGGAATTCCAGACAGATGGCCCTTGCAAGAAGGCAATATTGTTAATGTGACTATTACTCTTTAT
TGCAATGGTTGTCACAGGGACCTGAATGTGACATTTTATTTTGGAGATGTCGATGAGGGAGCATGGAAACTCATTCAGAC
CATATATATGTGCTTGATGCAAGTCATCAACGCTGTGAAATCTGGTGTTCAAGACGGAGAACTGAGAAACAATATTCAGA
AGCATGCCCAGGCAAATGGGTTTTCAGTTGTTTGAAGCTATTCTGGGCACGGAATCCACAAGCTTTTTCATACAGCCCCC
AACACACCCCACTATGCCAAAAATAAAGCAGTTGGAGTGATGAAGTCGGGCCATGTGTTTACAGTTGAGCCAATGATTTG
TGAAGGTGTATGGCAGGATAAAACCTGGCCAGATGGTTGGACTGCAATGACAAGACAAAGAAAGTAGTCTGCTCAGTACA
ATCACACCCTGCTGGTGGACCCTGGCTGTGAAATCCTAACCTGGTGACTTGGAAAGCATGTGGCCTCACTTCATATCC

Alignment

ORF - retro_tsyr_480 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.95 %
• Parental protein coverage: 55.32 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LACIARN-CYPSPLNYYNFPKSCCTSVNEVICHGIPDRRPLQEGDIINVDITVYRNGYHGDLSETFFVGD
          LA.IARN.CY.SPL.YYNF.K.CCTS.N.VICHGIPDR.PLQEG.I.NV.IT.Y.NG.H.DL..TF..GD
Retrocopy LAHIARN>CYLSPLSYYNFSKFCCTSLNVVICHGIPDRWPLQEGNIVNVTITLYCNGCHRDLNVTFYFGD

Parental  VDEGARKLVQTTYECLMQAVDAVKPGVRYRELGNIIQKHAQANGFSVVRSYCGHGIHKLFHTAPNVPHYA
          VDEGA.KL.QT.Y.CLMQ...AVK.GV...EL.N.IQKHAQANGFSVV.SY.GHGIHKLFHTAPN.PHYA
Retrocopy VDEGAWKLIQTIYMCLMQVINAVKSGVQDGELRNNIQKHAQANGFSVV*SYSGHGIHKLFHTAPNTPHYA

Parental  KNKAVGVMKSGHVFTIEPMICEGGWQDETWPDGWTAVTRDGKCSAQFEHTLMVMDTNCDILTW-QLDSAR
          KNKAVGVMKSGHVFT.EPMICEG.WQD.TWPDGWTA.TR..K.SAQ..HTL.V.D..C.ILTW..L.S..
Retrocopy KNKAVGVMKSGHVFTVEPMICEGVWQDKTWPDGWTAMTRQRK*SAQYNHTLLV-DPGCEILTW>DLESMW

Parental  PHFVS
          PHF.S
Retrocopy PHFIS

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_480 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Gorilla gorilla	ENSGGOG00000001520	1 retrocopy	retro_ggor_789,
Otolemur garnettii	ENSOGAG00000015636	1 retrocopy	retro_ogar_288,
Tarsius syrichta	ENSTSYG00000004984	2 retrocopies	retro_tsyr_1836, retro_tsyr_480 ,
Tursiops truncatus	ENSTTRG00000002515	1 retrocopy	retro_ttru_1077,