RetrogeneDB ID: retro_tbel_4470

Retrocopy location

• Organism: Treeshrew (Tupaia belangeri)
• Coordinates: scaffold_84628:1236..1592(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CETN3
• Ensembl ID: ENSTBEG00000001992
• Aliases: None
• Description: centrin, EF-hand protein, 3 [Source:HGNC Symbol;Acc:1868]

Sequence

>retro_tbel_4470
CATGAATTGAAGGTGGCAGTGAGAGCCTTGGGGTTTGATGTAAAAAAGCCAATATACTGAAGATTCTTAAAGATTATAAC
AGAGAAGCAACAGGGAAAATCACCTTTGAAGTTTTTAATGAAGTTGTGACAGACTGGATATTGGAACGAGATCTACACGA
AGAAATACTGAAGGCATTTAAACTATTTGATGATGATGATTCAGGTAAAATAAGCTTGAGGAATTTGCGACATGTTGCCA
GAGAATTGGGTGAAAACATGAGTAATGAAGAACTTCGAACTATGATAGAAGAATTTGATAAAGATGGTGATGGAGAAATA
AATCAAGAGGAGTTCATTGCTATTATGACAGGTGAC

Alignment

ORF - retro_tbel_4470 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.67 %
• Parental protein coverage: 71.26 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  HELKVAMRALGFDVKK-ADVLKILKDYDREATGKITFEDFNEVVTDWILERDPHEEILKAFKLFDDDDSG
          HELKVA.RALGFDVKK.A..LKILKDY.REATGKITFE.FNEVVTDWILERD.HEEILKAFKLFDDDDSG
Retrocopy HELKVAVRALGFDVKK<ANILKILKDYNREATGKITFEVFNEVVTDWILERDLHEEILKAFKLFDDDDSG

Parental  KISLRNLRRVARELGENMSDEELRAMIEEFDKDGDGEINQEEFIAIMTGD
          KISLRNLR.VARELGENMS.EELR.MIEEFDKDGDGEINQEEFIAIMTGD
Retrocopy KISLRNLRHVARELGENMSNEELRTMIEEFDKDGDGEINQEEFIAIMTGD

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_4470 retrocopy.

TSS

Tupaia belangeri was not studied using FANTOM5 data.

Lab

retro_tbel_4470 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Dipodomys ordii	ENSDORG00000007233	1 retrocopy	retro_dord_30,
Otolemur garnettii	ENSOGAG00000002383	1 retrocopy	retro_ogar_3511,
Ochotona princeps	ENSOPRG00000002381	1 retrocopy	retro_opri_17,
Procavia capensis	ENSPCAG00000006854	1 retrocopy	retro_pcap_403,
Pteropus vampyrus	ENSPVAG00000017925	1 retrocopy	retro_pvam_19,
Tupaia belangeri	ENSTBEG00000001992	2 retrocopies	retro_tbel_4470 , retro_tbel_4732,