RetrogeneDB ID:

retro_dnov_542

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_5931:19978..20798(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:AZI2
Ensembl ID:ENSDNOG00000011053
Aliases:None
Description:5-azacytidine induced 2 [Source:HGNC Symbol;Acc:24002]


Retrocopy-Parental alignment summary:






>retro_dnov_542
GACAACTCTGAATCTTTGAAAGTATTGAATGAATAGCTACAATCTAAAGAACTCTTCCAGCTAAGGACAGAAGTGGAAGC
TCAGCGGGTGATCAGGAATTTAAATCCCCCTTCATCCAGCTAGGAGGTGGAAAATTTGAGCTGAGACTTGAAGTTTCATG
ATTTGGAACAAGAGCTGGAACTGATGAGGAAAGAATGTAATGACCTCAAAGGAGAGCTACAAAAATACAAATAAATGAAT
CTGTCTCAGGAAGACAATCTAAAGAGCAGAGATCTCCAAAGACTAAGCATTTCAAGTGATAATATACAGCAGGCATACTG
AGAATTGAAGAGAGAAAAGCCTAATTTACATCTGGTGACTCAAGTATAAGCCAAACTACTAAGAAAACTGAAAACCCTAG
CTGCAATCAAGAAAGCCTATGCCCCAGTACGATGTGTTGAAGACCTTGGAAAAAACAACACAAAATTGCACTTGACAAAT
TTTACTGCAATATAAAGAGGGCACACCCCTCTCTTACCAAATGGCAAAGCTCTTTGTTCTACCACATCTTGCCTGTTGCC
TGGAGACATAAAGATTTTATCTGAGAAACCAACTCTGCAATCATGGACAGATAATGAGAAATCCCTTCCAAATGATGGAG
CAAACTTTCAGGAACACAACTGTTATAGCAGAAATTCCCTGGAAGACAATTCTTGGGCTTTCCCAAGGCCTCTGTAAATC
AAGTATGACAGCATTTGGCAAAACTAAAACTTTGCCTTTACCCAACTTGCCACCACTGCATTGCTTGGATCAACATAATC
AGAACTGCCTTTGTAAGAAT

ORF - retro_dnov_542 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.7 %
Parental protein coverage: 70.48 %
Number of stop codons detected: 7
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalDNSESLKVLNEQLQSKEVELLQLRTEVETQQVMRNLNPPSSDWEVEKLSCDLKIYGLEQELELMRKECND
DNSESLKVLNE.LQSKE..L.QLRTEVE.Q.V.RNLNPPSS..EVE.LS.DLK...LEQELELMRKECND
RetrocopyDNSESLKVLNE*LQSKE--LFQLRTEVEAQRVIRNLNPPSSS*EVENLS*DLKFHDLEQELELMRKECND
ParentalLKIELQKSKQMDLSQEDNLKSRDLQRLNISSDNIQQAYWELKREMSNLHLVTQVQAELLRKLKIPTAIKK
LK.ELQK.K.M.LSQEDNLKSRDLQRL.ISSDNIQQAY.ELKRE..NLHLVTQV.A.LLRKLK...AIKK
RetrocopyLKGELQKYK*MNLSQEDNLKSRDLQRLSISSDNIQQAY*ELKREKPNLHLVTQV*AKLLRKLKTLAAIKK
ParentalACAPVGCVEDFGKDNTKLHLANFTATYKRYTPVSPDCKALCHTTSSPIPGDIKILPEKPILQSWTDNEKS
A.APV.CVED.GK.NTKLHL.NFTA.....TP..P..KALC.TTS...PGDIKIL.EKP.LQSWTDNEKS
RetrocopyAYAPVRCVEDLGKNNTKLHLTNFTAI*RGHTPLLPNGKALCSTTSCLLPGDIKILSEKPTLQSWTDNEKS
ParentalIPNDGANFQENNSYGRNSLEDNSWVFPSP-PKSSETAFGEIKSKTLPLPNLPPLHYLDHHNQNCLYKN
.PNDGANFQE.N.Y.RNSLEDNSW.FP.P..KSS.TAFG..K.KTLPLPNLPPLH.LD.HNQNCL.KN
RetrocopyLPNDGANFQEHNCYSRNSLEDNSWAFPRP>CKSSMTAFG--KTKTLPLPNLPPLHCLDQHNQNCLCKN

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






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP012922_ascending_colon 0 .19 RPM 44 .73 RPM
SRP012922_cerebellum 0 .00 RPM 31 .89 RPM
SRP012922_heart 0 .00 RPM 12 .99 RPM
SRP012922_kidney 0 .00 RPM 21 .36 RPM
SRP012922_liver 0 .00 RPM 16 .72 RPM
SRP012922_lung 0 .00 RPM 28 .86 RPM
SRP012922_quadricep_muscle 0 .00 RPM 36 .35 RPM
SRP012922_spleen 0 .00 RPM 39 .03 RPM
Dasypus novemcinctus was not studied using ChIP-Seq data.
Dasypus novemcinctus was not studied using EST data.
Dasypus novemcinctus was not studied using FANTOM5 data.
retro_dnov_542 was not experimentally validated.

Retrocopy orthology:
Dasypus novemcinctus 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 14 parental genes, and 22 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000104322 retrocopies
Dasypus novemcinctus ENSDNOG00000011053 2 retrocopies
retro_dnov_1377, retro_dnov_542 ,
Homo sapiens ENSG000001635122 retrocopies
Gorilla gorilla ENSGGOG000000228812 retrocopies
Loxodonta africana ENSLAFG000000085382 retrocopies
Myotis lucifugus ENSMLUG000000000433 retrocopies
Macaca mulatta ENSMMUG000000000561 retrocopy
Monodelphis domestica ENSMODG000000150751 retrocopy
Nomascus leucogenys ENSNLEG000000040691 retrocopy
Oryctolagus cuniculus ENSOCUG000000149561 retrocopy
Otolemur garnettii ENSOGAG000000058961 retrocopy
Pongo abelii ENSPPYG000000140532 retrocopies
Pan troglodytes ENSPTRG000000147071 retrocopy
Tursiops truncatus ENSTTRG000000164341 retrocopy



Copyright © RetrogeneDB 2014-2017