RetrogeneDB ID: retro_tbel_4007

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_53413:382..965(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZRANB2
• Ensembl ID: ENSTBEG00000002316
• Aliases: None
• Description: zinc finger, RAN-binding domain containing 2 [Source:HGNC Symbol;Acc:13058]

Sequence

>retro_tbel_4007
TATGGTGGCGGTTTTAGTGAAAGAGAAAATGTTGAGTACATAGAAAGAGAAGAATCTGATGGTGAATATGATGAGTTTGG
ACGTAAAAAGAAAAAATACAGAGAAAAGGCGGTTGGTCCTGCATCTATATTAAAGGAAGTTGAAGATAAAGAATCTGAGG
GCGAAGAAGAGGATGAGGATGAAGATCTTTCTAAATATAAATTAGATGAGGATGAGGATGAAGATGATGCTGATCTCTCA
AAATATAATCTTGATGCCAGCGAAGAAGAAGATAGTAATAAAAAGAAATCTAATAGACAAAGTCGCTAAAAGTCTCGATC
TTCACATTCACGATCTTCATCACGCTCATCCTCCCCCTCAAGTTCAAGGTCTAGGTCCAGGTCCCGTTCAAGAAGTTCTT
CCAGCTCGCAGTCAAGATCTCGTTCCAGTTCCAGAGAACATTCGAGATCTCATGGGTTGAAATCAAGCTCCAGATCCCAC
AGGGGCTCTTCTTCCCCACGAAAAAGATCTTATTCGAGTTCATCATCTTCTCCTGAGAGGAACAGAAAGAAAAGTCATTC
TAGATCTTCTTCATCTGATGATT

Alignment

ORF - retro_tbel_4007 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.2 %
• Parental protein coverage: 63.31 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  YGGGFNERENVEYIEREESDGEYDEFGRKKKKYRGKAVGPASILKEVEDKESEGEEEDEDEDLSKYKLDE
          YGGGF.ERENVEYIEREESDGEYDEFGRKKKKYR.KAVGPASILKEVEDKESEGEEEDEDEDLSKYKLDE
Retrocopy YGGGFSERENVEYIEREESDGEYDEFGRKKKKYREKAVGPASILKEVEDKESEGEEEDEDEDLSKYKLDE

Parental  DEDEDDADLSKYNLDASEEEDSNKKKSNRRSRSKSRSSHSRSSSRSSSPSSSRSRSRSRSRSSSSSQSRS
          DEDEDDADLSKYNLDASEEEDSNKKKSNR.SR.KSRSSHSRSSSRSSSPSSSRSRSRSRSRSS.SS....
Retrocopy DEDEDDADLSKYNLDASEEEDSNKKKSNRQSR*KSRSSHSRSSSRSSSPSSSRSRSRSRSRSS-SSSQSR

Parental  RSSSR-ERSRSRGSKSRSSSRTGALLPHEKDLIRVHHLLLRGTEREVVLDLLHLVI
          ..SS..E..R...........TGALLPHEKDLIRVHHLLLRGTER.V.LDLLHL.I
Retrocopy SRSSS>ENIRDLMG*NQAPDPTGALLPHEKDLIRVHHLLLRGTERKVILDLLHLMI

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_4007 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4007 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 4 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006356	2 retrocopies	retro_cjac_2350, retro_cjac_4199,
Macaca mulatta	ENSMMUG00000017312	2 retrocopies	retro_mmul_2602, retro_mmul_2618,
Monodelphis domestica	ENSMODG00000000504	2 retrocopies	retro_mdom_1975, retro_mdom_443,
Tupaia belangeri	ENSTBEG00000002316	3 retrocopies	retro_tbel_122, retro_tbel_3653, retro_tbel_4007 ,