RetrogeneDB ID: retro_tsyr_1685

Retrocopy location

• Organism: Tarsier (Tarsius syrichta)
• Coordinates: scaffold_542346:199..760(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NUDT21
• Ensembl ID: ENSTSYG00000014602
• Aliases: None
• Description: nudix (nucleoside diphosphate linked moiety X)-type motif 21 [Source:HGNC Symbol;Acc:13870]

Sequence

>retro_tsyr_1685
TATCCTCTGATAGATTATCCTCTCAGTACAAAAAAACCTCTCTATGAGGACAGCTCTGCTGCAGTCAGATTTCAGCACAT
AAGGGAGAAATTTGATAAAATCGGAATGAGGAGGATCATAGGAGGAGTCCTGATTGTATATGAGCACCGGCTACCCCATG
TGTTATTGCTACAGTTGGGAACAACTTTTCTCAAATTACCTGGTGGTGAACTTAACCCAGAAGAAGATGAAGTGGAAGGA
CTAAAATGCCTGATGACAGAGATACTGGGTCCTCGAGATAGAGTTCTGCAAGATTGGGTCATTGATGACCATGTTGGTAA
CTGATGGAGACTAAATTTTGAACCTCCTCAGGATACATATATTTCTGCACATATTAAGAAGCCTAAGGAGCATAAGCAGT
TGTTTCTGATTCAACTTCAAGAGAAGGTCTTGTTTGCAGTCCCTGAAAATTACAAGCTGGTAGCTGCACCATTGTTTGAG
TCACATGACCATGCACCAGGATGTGGACCCATCATTTCTAGTCTCTCTCAGCTGTTGAGTAGGTCCAATTTTATACACAA
C

Alignment

ORF - retro_tsyr_1685 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.19 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YPLTNYTFGTKEPLYEKDSSVAARFQRMREEFDKIGMRRTVEGVLIVHEHRLPHVLLLQLGTTFFKLPGG
          YPL..Y...TK.PLYE.DSS.A.RFQ..RE.FDKIGMRR...GVLIV.EHRLPHVLLLQLGTTF.KLPGG
Retrocopy YPLIDYPLSTKKPLYE-DSSAAVRFQHIREKFDKIGMRRIIGGVLIVYEHRLPHVLLLQLGTTFLKLPGG

Parental  ELNPGEDEVEGLKRLMTEILGRQDGVLQDWVIDDCIGNWWRPNFEPPQYPYIPAHITKPKEHKKLFLVQL
          ELNP.EDEVEGLK.LMTEILG..D.VLQDWVIDD..GN.WR.NFEPPQ..YI.AHI.KPKEHK.LFL.QL
Retrocopy ELNPEEDEVEGLKCLMTEILGPRDRVLQDWVIDDHVGN*WRLNFEPPQDTYISAHIKKPKEHKQLFLIQL

Parental  QEKALFAVPKNYKLVAAPLFELYDNAPGYGPIISSLPQLLSRFNFIYN
          QEK.LFAVP.NYKLVAAPLFE..D.APG.GPIISSL.QLLSR.NFI.N
Retrocopy QEKVLFAVPENYKLVAAPLFESHDHAPGCGPIISSLSQLLSRSNFIHN

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_1685 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 10 parental genes, and 18 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000012724	3 retrocopies	retro_cjac_1121, retro_cjac_2211, retro_cjac_4100,
Echinops telfairi	ENSETEG00000013634	1 retrocopy	retro_etel_622,
Loxodonta africana	ENSLAFG00000028465	1 retrocopy	retro_lafr_610,
Macaca mulatta	ENSMMUG00000019906	1 retrocopy	retro_mmul_1360,
Mustela putorius furo	ENSMPUG00000003451	1 retrocopy	retro_mputfur_158,
Oryctolagus cuniculus	ENSOCUG00000017224	2 retrocopies	retro_ocun_154, retro_ocun_87,
Pteropus vampyrus	ENSPVAG00000014583	2 retrocopies	retro_pvam_533, retro_pvam_711,
Sarcophilus harrisii	ENSSHAG00000009651	1 retrocopy	retro_shar_469,
Sus scrofa	ENSSSCG00000029848	2 retrocopies	retro_sscr_117, retro_sscr_185,
Tarsius syrichta	ENSTSYG00000014602	4 retrocopies	retro_tsyr_1685 , retro_tsyr_1888, retro_tsyr_790, retro_tsyr_988,