RetrogeneDB ID: retro_tsyr_1836

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_61439:10263..11397(+)
• 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_1836
ATGTGTGAGATGAACAAATGTAGCAGCGAGGCTAAGCTCCAGTGCCCCACCTGCATCAAGCTGGGCATCCTGGGCTGGTA
CTTCTGCTTGCAGGAGTGTTTTCAAGGAAGCTGGGCTACTCACAAGTTACTATATAAGAAAGCAAAAGATGAAAAGGCAA
AGTGAGAAGTGTCTTCCTGGACTGTAGAAGGTGATGTTAACACAGACCCATGGGCAGGTTATCGATACACTGGTAAACTC
AGACCACATTATCCACTGATGCCAACAAGGCCAGTTCCAAGTTATAGTCAAAGACCGGGTTATGCTGATCATCTCTTAGG
AATGTCTGAAGCTGCACAGGCTCTTAAAGGTACTTTTCAAATTAAATTACTGTCCTCTGAAGATATAGAAGGGATGAGAC
TTGTATGTAGGCTTGCGAGAGAAACTTTGGATATTGCTGCTGGGATGATTAAACCAGGTGTAGCCACTGAAGAAATAAAT
CATGCTGTGCACTTATCATGCATTGCAATAAATTGCTATCCTTCTCCCCTGAATTACTGTAATTTTCCAAAGTCTTGTTG
TACCTCAGTGAATGAAGTCACCTGCTATGGAATTCCAGACAGACAGCCCTTACAAGAAGGGATATTATTAATGTGAACAT
CACTGTTTATTGCAACAGTTATCATGGGGACCTGAGAGCAATTTTTTTGTTGGCCATGTAGATGAGGGAGCTTGGAAGCT
TGTCCAGACCACTTATGAGTGCCTAATGCAAGCCGTTGATGCAGTGAAACCTGGTGTTTGATACAGAGAATTGGGAAACA
TTATTCAGAAGCATGCCCACGCGAATGAGTTTTCAGTTGTTCGAAGCTATTGTGGGCATGGAATCCATAAGCTTTTCCAT
ACAGCCCCAATGTACCCCTCTATGCCAAAAATTAAGCAGTTGGAGTGATGAAGTTGGGTCATGTATTAACAATTGAGCCA
ATGATTTGTGAAGGTGGATGGCAGGACAAAACTTGGCCAGACGGTTGGACTGCAGTGACAAGAGACGGAAAGTGCTCCGC
TCAGTTCGAGCACACCCTGATGGTCATGGACACTAACTGTGACATCCTCACCTGGCAACTTGACAGTGCGCGGCCTCACT
TCGTGTCCCAAGTT

Alignment

ORF - retro_tsyr_1836 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.7 %
• Parental protein coverage: 98.18 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  VCVMNDCSSEAKLQCPTCIKLGIQGFYFC-SECFPGSWPTHKLLHKKAKDEKAKREVSSWTVEGDVNTDP
          .C.MN.CSSEAKLQCPTCIKLGI.G.YFC..ECF.GSW.THKLL.KKAKDEKAK.EVSSWTVEGDVNTDP
Retrocopy MCEMNKCSSEAKLQCPTCIKLGILGWYFCLQECFQGSWATHKLLYKKAKDEKAK*EVSSWTVEGDVNTDP

Parental  WAGYRYTGKLRPHYPLMPTRPVPSYIQRPDYADHPLGMSESEQALKGTSQIKLLSSEDIEGMRLVCRIAR
          WAGYRYTGKLRPHYPLMPTRPVPSY.QRP.YADH.LGMSE..QALKGT.QIKLLSSEDIEGMRLVCR.AR
Retrocopy WAGYRYTGKLRPHYPLMPTRPVPSYSQRPGYADHLLGMSEAAQALKGTFQIKLLSSEDIEGMRLVCRLAR

Parental  EVLDIAAGMKKPGVTTEEIDHAVHLACIARNCYPSPLNYYNFPKSCCTSVNEVICHGIPDRRPLQEG-DI
          E.LDIAAGM.KPGV.TEEI.HAVHL.CIA.NCYPSPLNY.NFPKSCCTSVNEV.C.GIPDR.PLQEG.DI
Retrocopy ETLDIAAGMIKPGVATEEINHAVHLSCIAINCYPSPLNYCNFPKSCCTSVNEVTCYGIPDRQPLQEG<DI

Parental  INVDITVYRNGYHGDL-SETFFVGDVDEGARKLVQTTYECLMQAVDAVKPGVRYRELGNIIQKHAQANGF
          INV.ITVY.N.YHGDL....FFVG.VDEGA.KLVQTTYECLMQAVDAVKPGV.YRELGNIIQKHA.AN.F
Retrocopy INVNITVYCNSYHGDL<ESNFFVGHVDEGAWKLVQTTYECLMQAVDAVKPGV*YRELGNIIQKHAHANEF

Parental  SVVRSYCGHGIHKLFHTA-PNVPHYAKNKAVGVMKSGHVFTIEPMICEGGWQDETWPDGWTAVTRDGKCS
          SVVRSYCGHGIHKLFHTA.PNVP.YAKN.AVGVMK.GHV.TIEPMICEGGWQD.TWPDGWTAVTRDGKCS
Retrocopy SVVRSYCGHGIHKLFHTA<PNVPLYAKN*AVGVMKLGHVLTIEPMICEGGWQDKTWPDGWTAVTRDGKCS

Parental  AQFEHTLMVMDTNCDILTWQLDSARPHFVSQV
          AQFEHTLMVMDTNCDILTWQLDSARPHFVSQV
Retrocopy AQFEHTLMVMDTNCDILTWQLDSARPHFVSQV

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_1836 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,