RetrogeneDB ID: retro_tbel_1590

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: GeneScaffold_5170:107538..108795(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: DDX21
• Ensembl ID: ENSTBEG00000002310
• Aliases: None
• Description: DEAD (Asp-Glu-Ala-Asp) box helicase 21 [Source:HGNC Symbol;Acc:2744]

Sequence

>retro_tbel_1590
AAAGAGCCTTCTGCAAAGAAAATCATTTCTCCTAAAACCAAAAAAGTAATAAAAAAGTGAGGAGCCTTCTGAAGAAGAAA
CAGATGCTCCTAAGCCCAAGAAGCTGGAGAAAGAGAAAGAAATGAATGGAGACATTGGAGAAAAAAATCCCAAACTGAAG
AATGGATTTGTTCCTTCTGATCCTGTCTCTAACTCCAAAGAAGCTGCCAGTGAAGAAAGTAACAGTGAGACAGAGCAGGA
AAAATACCTGTGGAACAAAAAGAAGAGGCTTTTTCAAATTTCTCTATCTGAAGAGACTATTAAGCTTCTCAAAGCCATGG
GGTGACCTTCCTGTTTCCTATACAAGCAAAGACATTCCACCATATCAATACTGGGGAGGATTTAATTGCACAAGCATGGA
CAGGAACTGGGAAGACTTCTCCTTTGCCATTCTTCTGATGGAGAAACTTCAGGGAGAAATGCAAGACAAAAAGAGAGGCT
GTTCTCCTCAGGTACTGGTTCTTACACCTACAAGGGAGTTGGCAAATCAAGTAAGCAGAGACTTCAATGACATCACAAAG
AAGCAGGCATTGGCTTGTTTTTATGGTGAAACTCAATATGGAGGTCAAATTGAATGCCTGCAGAATGGGATTGATATCCT
GGTTGGGACGTGGGGTCATATCAAAGACCACCTACAGAATGGCAAGCTTGATCTCACCAAACTTAAGCATGTTGTCCTAG
ATGAATGAAGTCAACCAGATGTTGGATATGGGTTTTGCTGATCAAGTGGAAGAGATCTTATGTGTGGCCTACAATAAAGA
TTTTGAAGATAATCCCCAAACATTGCTTTTTTCTGCAACTTGCCCTCATTGGGTATTTAATGTTGCTAAGAAATACATGA
AACCTACACGTGAACAGGTGGATCTGATTGGCAAAAAGACTCAGAAAACTGCAATAACGGGAGCATCTGGTATCAAGTGC
CACTGGACTCAGAGGGCAGAGGTTATTGGGGATGTGATCTCTCAGATCACATGTGGCCATCAAGGGCGTACCATCATCTT
TTGTGAAACCAAAAAAGAGGCCCAGGAGCTCTCGCAGAATATGTCTATAAAGCAGGATACCCAGTCACTACATGGAGACA
TTCCACAGAAACAGAGAGAAGTCACCCTGAAAGTTTTTAGAAATGGTGATTTTGGAGTTCTGGTGGCAACCAGTGATGCT
GCATGTGGACTAGACATCCCTGAGATTGATTTGGTTGTACAAAGCTCTCCACCAAAG

Alignment

ORF - retro_tbel_1590 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.3 %
• Parental protein coverage: 53.85 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  KEPSAKEIASPKTKKVIK-SEEPPEEEIDAPKPKKLKKEEEVNGDIGEKSPKLKNGFAPSDPYSNSNEAA
          KEPSAK.I.SPKTKKVIK.SEEP.EEE.DAPKPKKL.KE.E.NGDIGEK.PKLKNGF.PSDP.SNS.EAA
Retrocopy KEPSAKKIISPKTKKVIK>SEEPSEEETDAPKPKKLEKEKEMNGDIGEKNPKLKNGFVPSDPVSNSKEAA

Parental  SEESNSEAEQEISVEQKEGAFSNFPISEETIKLLKG-RGVTFLFPIQAKTFHHVYSGKDLIAQARTGTGK
          SEESNSE.EQE.....K.........SEETIKLLK...GVTFLFPIQAKTFHH...G.DLIAQA.TGTGK
Retrocopy SEESNSETEQEKYLWNKKKRLFQISLSEETIKLLKA<HGVTFLFPIQAKTFHHINTGEDLIAQAWTGTGK

Parental  T-FSFAIPLIEKLQGEMQDKKRGRSPQVLVLTPTRELASQVSRDFSDITKKLSVACFYGGTPYGGQIERM
          T.FSFAI.L.EKLQGEMQDKKRG.SPQVLVLTPTRELA.QVSRDF.DITKK...ACFYG.T.YGGQIE..
Retrocopy T<FSFAILLMEKLQGEMQDKKRGCSPQVLVLTPTRELANQVSRDFNDITKKQALACFYGETQYGGQIECL

Parental  RNGIDILVGTPGRIKDHLQNGKLDLTKLKHVVLDEVDQM-LDMGF-ADQVEEILCVAYKKD--ENRQTLL
          .NGIDILVGT.G.IKDHLQNGKLDLTKLKHVVLDE..Q.....GF.ADQVEEILCVAY.KD...N.QTLL
Retrocopy QNGIDILVGTWGHIKDHLQNGKLDLTKLKHVVLDE*SQPDVGYGF>ADQVEEILCVAYNKDFEDNPQTLL

Parental  FAC---HWVFNVAKKYMKPSYEQVDLIGKKTQKTAITVEHLAIKCHWTQRAAVIGDVI-RVYSGHQGRTI
          F.....HWVFNVAKKYMKP..EQVDLIGKKTQKTAIT.....IKCHWTQRA.VIGDVI.....GHQGRTI
Retrocopy FSATCPHWVFNVAKKYMKPTREQVDLIGKKTQKTAITGAS-GIKCHWTQRAEVIGDVISQITCGHQGRTI

Parental  IFCETKKEAQELSQNTSIKQDAQSLHGDIPQKQREITLKGFRNGNFGVLVATNVAARGLDIPEVDLVVQC
          IFCETKKEAQELSQN.SIKQD.QSLHGDIPQKQRE.TLK.FRNG.FGVLVAT..AA.GLDIPE.DLVVQ.
Retrocopy IFCETKKEAQELSQNMSIKQDTQSLHGDIPQKQREVTLKVFRNGDFGVLVATSDAACGLDIPEIDLVVQS

Parental  SPPK
          SPPK
Retrocopy SPPK

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_1590 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_1590 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 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000013791	2 retrocopies	retro_cfam_1024, retro_cfam_1925,
Callithrix jacchus	ENSCJAG00000012876	1 retrocopy	retro_cjac_1912,
Macropus eugenii	ENSMEUG00000010586	1 retrocopy	retro_meug_1383,
Microcebus murinus	ENSMICG00000015112	1 retrocopy	retro_mmur_95,
Mus musculus	ENSMUSG00000020075	2 retrocopies	retro_mmus_582, retro_mmus_662,
Procavia capensis	ENSPCAG00000016697	1 retrocopy	retro_pcap_346,
Pongo abelii	ENSPPYG00000002389	1 retrocopy	retro_pabe_3816,
Tupaia belangeri	ENSTBEG00000002310	2 retrocopies	retro_tbel_1590 , retro_tbel_4454,
Tupaia belangeri	ENSTBEG00000009490	1 retrocopy	retro_tbel_4260,