RetrogeneDB ID:

retro_tbel_3605

Retrocopy
location
Organism:Treeshrew (Tupaia belangeri)
Coordinates:scaffold_146093:171188..171602(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:H3F3B
Ensembl ID:ENSTBEG00000016171
Aliases:None
Description:H3 histone, family 3B (H3.3B) [Source:HGNC Symbol;Acc:4765]


Retrocopy-Parental alignment summary:






>retro_tbel_3605
ATGGCTCCTATAAAGCAGACAGCCCGCCAATCCACCGGAAATAAAGCGCCCAGGAAGCGACTGGCTGCCGAAGCTGCTGG
CCAGAGTGCGCCCTCTACCGGAGGGATGAAGAAACCTCATCGTTCAGGCCCCGCCCGTACTGCCGCACTCCGTGAAATTA
CACGTTAGCAGAATTCCACTGAACTCATTCTCAAACTTCCTTTCCAGCGTCTCAGGGGAGTAATTGCTCAGGATTTCAAA
GCAAATCTGCTGTTCCAGAGCTCAGCCATTGGTGCTTTGTAGAAGGCAAGTTGAGGCCTACTTGGTTGGACTTTTTTTTT
TGAAGATACCAACCTGTGTGCTATCCATGCCAAACGTAAAACGATTATGTCAAAAGACATCCAGCTAGCACCCCACATAC
GTGGAGAACATGCT

ORF - retro_tbel_3605 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.35 %
Parental protein coverage: 100. %
Number of stop codons detected: 3
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPG-TVALREIRRYQKSTELLIRKLPFQ
MA..KQTAR.STG.KAPRK.LA..AA..SAPSTGG.KKPHR..P..T.ALREI.R.Q.STEL...KLPFQ
RetrocopyMAPIKQTARQSTGNKAPRKRLAAEAAGQSAPSTGGMKKPHRSGPARTAALREITR*QNSTELIL-KLPFQ
ParentalRLVREIAQDFKTDLRFQSAAIGALQEASEAYL--VGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA
RL...IAQDFK..L.FQS.AIGAL..AS...L......EDTNLCAIHAKR.TIM.KDIQLA..IRGE.A
RetrocopyRLRGVIAQDFKANLLFQSSAIGAL*KAS*GLLGWXXXXEDTNLCAIHAKRKTIMSKDIQLAPHIRGEHA

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






Tupaia belangeri was not studied using RNA-Seq expression data.
Tupaia belangeri was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_tbel_3605 retrocopy.
Tupaia belangeri was not studied using FANTOM5 data.
retro_tbel_3605 was not experimentally validated.

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.

Parental genes homology:
Parental genes homology involve 10 parental genes, and 53 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG0000001270210 retrocopies
Equus caballus ENSECAG000000069041 retrocopy
Equus caballus ENSECAG000000169481 retrocopy
Latimeria chalumnae ENSLACG000000041181 retrocopy
Microcebus murinus ENSMICG000000021392 retrocopies
Oreochromis niloticus ENSONIG000000199755 retrocopies
Pongo abelii ENSPPYG000000086361 retrocopy
Pan troglodytes ENSPTRG0000000965512 retrocopies
Tupaia belangeri ENSTBEG0000000617713 retrocopies
Tupaia belangeri ENSTBEG00000016171 7 retrocopies



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