RetrogeneDB ID: retro_tbel_122

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_1192:361436..361937(-)
• Located in intron of: ENSTBEG00000017098

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_122
AAAGAACAAAAATACAGAGGAAAAGCAGTTGGTTCTCATCTGTATTACAGGAAGTAGAAGACAAAGAATCTATGGGCAAA
GGAGAAAGCGAATGAAGACCTTTCTAAATATAAATTATATGAGGATGAGGATGAAGATGAAGATGATGTTGATCTCTCAA
AGTATAATCTTGATGGCAGTGAAGAAGAAGGTGGTAAAAAAAAGAAATTTAATAGATGAAGTCACTCAAAGTCTTGATCT
TCACATTTACAATCTTCATCATGCTCATCCTCCCCATCAGGCTCAAGCCTAGGTCCAGGTCTCGTTCAAGAGTTCTTCCA
GCTCAGAGTCAAGATCTCATTTCAGTTCTAGAGAATGTTTGAAATCTTGTGGGTCAAAATCAAGCTCCACATCCCACAGG
GGCTCTTCTTCCCCCATGAAAAAGATCTTATTCGAGTTCATCCTTTTTTCCTGAGAGCAACAGAAAGAGAAGTCATTCTA
GAGCTTCCTCATCTGGTGATA

Alignment

ORF - retro_tbel_122 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.56 %
• Parental protein coverage: 54.22 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  KKKKYRGKAVGPASILKEVEDKESEGEEE-DEDEDLSKYKLDEDEDEDDADLSKYNLDASEEEDSNKKKS
          K..KYRGKAVG..........K.....E...ED....K............DLSKYNLD.SEEE.....K.
Retrocopy KEQKYRGKAVGSHLYYRK*KTKNLWAKEKANEDLSKYKLXXXXXXXXXXVDLSKYNLDGSEEEGGXXXKF

Parental  NRRSRSKSRSSHSRSSSRSSSPSSS-RSRSRSRSR-SSSSSQSRSRSSSRERSRSRGSKSRSSSRTGA-L
          NR.S.SKS.SSH..SSS.SSSPS.S...RSRSRSR.SSSSS.SRS..SSRE...S.GSKS.S.S..G...
Retrocopy NR*SHSKS*SSHLQSSSCSSSPSGS<KPRSRSRSR<SSSSSESRSHFSSRECLKSCGSKSSSTSHRGS<F

Parental  LPHEKDLIRVHHLLLRGTEREVVLDLLHLVI
          .PHEKDLIRVH...LR.TEREV.L.L.HLVI
Retrocopy FPHEKDLIRVHPFFLRATEREVILELPHLVI

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_122 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_122 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,