RetrogeneDB ID:

retro_tbel_3407

Retrocopy
location
Organism:Treeshrew (Tupaia belangeri)
Coordinates:scaffold_139453:3096..3534(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MAX
Ensembl ID:ENSTBEG00000012645
Aliases:None
Description:MYC associated factor X [Source:HGNC Symbol;Acc:6913]


Retrocopy-Parental alignment summary:






>retro_tbel_3407
AAGAGCCAACCGAGGTTTCAATCTGGCTGACAAATGGCTCATCATAACGCACCGGAACGAAAACGTAGGGACCGCACCAA
GGACAGCTTTCACAGTTTGTGGGACTCAGTCCATCACTCCAAGGAGAGAACGCATCTGGGCCCAAATCCTAGTCAAACCC
ACCGAATATATCCAGTATATGCGAAGGAAAACCACACACACCAGCGAGACATTGCCGACATCAAGCGGTAGAATGCTCTT
CTGGAGCAGCAAGTCCATAGGCTGGAGAAGGTCAGGTCGAGTGCCCAACTGCTGAGCAAATACCCCTCCTCAGACAACAG
CCTCTACCCTGACGACAAAGGCAGCACCATCTCTGCCTTCGATGGGGCCTCAGACTCCAGCTTGGAGTCGGAGCTGGGAG
AGCCCCAGAGCAGGAGGAAACTCCACCTGGAGGCCAGC

ORF - retro_tbel_3407 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.17 %
Parental protein coverage: 100.0 %
Number of stop codons detected: 2
Number of frameshifts detected: 3


Retrocopy - Parental Gene Alignment:

ParentalEEQPRFQSAADKRAHHNALERKRRDHIKDS-HSLRDSV-PSLQGEKASR-AQILDKATEYIQYMRRK-NH
..QPRFQS.....AHHNA.ERKRRD..KDS.HSL.DSV.PSLQGE.AS..AQIL.K.TEYIQYMRRK.NH
RetrocopyKSQPRFQSG*-QMAHHNAPERKRRDRTKDSFHSLWDSV<PSLQGENASG<AQILVKPTEYIQYMRRK<NH
ParentalTHQQDIDDLKRQNALLEQQVRALEKARSSAQLQTNYPSSDNSLYTNAKGSTISAFDGGSDSSSESEPEEP
THQ.DI.D.KR.NALLEQQV..LEK.RSSAQL...YPSSDNSLY...KGSTISAFDG.SDSS.ESE..EP
RetrocopyTHQRDIADIKR*NALLEQQVHRLEKVRSSAQLLSKYPSSDNSLYPDDKGSTISAFDGASDSSLESELGEP
ParentalQSRKKLRMEAS
QSR.KL..EAS
RetrocopyQSRRKLHLEAS

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






RNA-Seq - click to see more details

Tupaia belangeri was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tupaia belangeri was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_tbel_3407 retrocopy.

TSS - click to see more details

Tupaia belangeri was not studied using FANTOM5 data.

Lab - click to see more details

retro_tbel_3407 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 16 parental genes, and 32 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000034722 retrocopies
retro_amel_1261, retro_amel_1606,
Canis familiaris ENSCAFG000000162122 retrocopies
retro_cfam_1179, retro_cfam_1325,
Callithrix jacchus ENSCJAG000000197022 retrocopies
retro_cjac_2057, retro_cjac_2556,
Cavia porcellus ENSCPOG000000101721 retrocopy
retro_cpor_710,
Erinaceus europaeus ENSEEUG000000039733 retrocopies
retro_eeur_216, retro_eeur_344, retro_eeur_37,
Echinops telfairi ENSETEG000000029671 retrocopy
retro_etel_1294,
Felis catus ENSFCAG000000103471 retrocopy
retro_fcat_278,
Macaca mulatta ENSMMUG000000043411 retrocopy
retro_mmul_1648,
Mustela putorius furoENSMPUG000000068593 retrocopies
retro_mputfur_1218, retro_mputfur_1615, retro_mputfur_192,
Mus musculus ENSMUSG000000594368 retrocopies
retro_mmus_2891, retro_mmus_2892, retro_mmus_2893, retro_mmus_2894, retro_mmus_2991, retro_mmus_2992, retro_mmus_2993, retro_mmus_2994,
Nomascus leucogenys ENSNLEG000000143731 retrocopy
retro_nleu_1122,
Ochotona princeps ENSOPRG000000162451 retrocopy
retro_opri_945,
Pongo abelii ENSPPYG000000059111 retrocopy
retro_pabe_3097,
Rattus norvegicus ENSRNOG000000080493 retrocopies
retro_rnor_1653, retro_rnor_1877, retro_rnor_2369,
Ictidomys tridecemlineatus ENSSTOG000000281421 retrocopy
retro_itri_42,
Tupaia belangeri ENSTBEG00000012645 1 retrocopy
retro_tbel_3407 ,


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