RetrogeneDB ID: retro_tbel_4275

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_74423:3916..4273(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NMRK1
• Ensembl ID: ENSTBEG00000004063
• Aliases: None
• Description: nicotinamide riboside kinase 1 [Source:HGNC Symbol;Acc:26057]

Sequence

>retro_tbel_4275
GTGACAAATGGTGGCAAGACAACACTGGTAAAGAATTTGCAGAAACATCTCCCAAATTGCAGTATATCTCAGGATGATTT
CTTCAAGCCAGAATCTGAAATAGAGACAGATTAAAAATGGATTTTGCAGTATGATGTGCTCGAAGCACTTAACATGGATG
AAATGATGGTGGCCATCTCCTGCTAGAGGGAAAACCCAGGGCACTCTGCGGTATCAAAAGAGTGGGGAAGTGCTGAGGAA
ATTCCCATCTTGATCATCAAGGGTTTCCTTCTCTTTAATTACAAGCCGCTTGATACTATATGGAACAGAAACTATTTTTT
GACCATTCCGTATGAAGAATGTAAGAGAAGGAGAAGC

Alignment

ORF - retro_tbel_4275 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.67 %
• Parental protein coverage: 59.2 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VTNGGKTTLAKNLQKHLPNCSVISQDDFFKXXXXXXXXXXXXXXXXXLFALNMDNMMAAVSCWRESPGHS
          VTNGGKTTL.KNLQKHLPNCS.ISQDDFFK.................L.ALNMD.MM.A.SC.RE.PGHS
Retrocopy VTNGGKTTLVKNLQKHLPNCS-ISQDDFFKPESEIETD*KWILQYDVLEALNMDEMMVAISC*RENPGHS

Parental  AVTTERGSAVEIHILIIEGFILFNYKPLDTIWNRSYF-TIPYEECKRRRS
          AV..E.GSA.EI.ILII.GF.LFNYKPLDTIWNR.YF.TIPYEECKRRRS
Retrocopy AVSKEWGSAEEIPILIIKGFLLFNYKPLDTIWNRNYFLTIPYEECKRRRS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq

Tupaia belangeri was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_tbel_4275 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4275 was not experimentally validated.

Homology

Retrocopy orthology:

Tupaia belangeri 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000005312	1 retrocopy	retro_amel_664,
Felis catus	ENSFCAG00000028823	1 retrocopy	retro_fcat_1087,
Macropus eugenii	ENSMEUG00000009787	1 retrocopy	retro_meug_275,
Mustela putorius furo	ENSMPUG00000012337	1 retrocopy	retro_mputfur_634,
Pteropus vampyrus	ENSPVAG00000006121	1 retrocopy	retro_pvam_293,
Tupaia belangeri	ENSTBEG00000004063	2 retrocopies	retro_tbel_1021, retro_tbel_4275 ,
Tarsius syrichta	ENSTSYG00000004232	1 retrocopy	retro_tsyr_718,