RetrogeneDB ID:

retro_dnov_117

Retrocopy
location
Organism:Armadillo (Dasypus novemcinctus)
Coordinates:GeneScaffold_1778:17837..18207(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:YWHAZ
Ensembl ID:ENSDNOG00000001672
Aliases:None
Description:tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide [Source:HGNC Symbol;Acc:12855]


Retrocopy-Parental alignment summary:






>retro_dnov_117
GAGAGCAACGTCTTCCATTTGAAAATGAAAGGAGACTGCTATGGTTACTTAGCCGAGGATGCTGCTGGTGAAGACAAGAA
AGGGATTGTGGCTCAGGCACAACAATCACACCAAGAATAATTGAAATGAGCAGAAAGGAAATGCAACCAACATATCCTAT
CAGATTGGGTTTGGCTCTTAACTTTTCTGTGTCCTCTTATGAGATTCTGAACTCCCTAGAGAAGGCCTGCTCTCTTGCAA
AGACAGCTTTTGATGAAGCCCTTGCTGAACTTGACACATTAGTGAAGAGTCATGCAAAGAGAGCATGCTCTTAAGGTAAT
TACTGAGAGACAAGTTGACATCGTGGATGTCAGATGCCCAAGGAGATGAA

ORF - retro_dnov_117 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.4 %
Parental protein coverage: 89.86 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalESKVFYLKMKGDYYRYLAEVAAGDDKKGIVDQSQQAYQE-AFEISKKEMQPTHPIRLGLALNFSVFYYEI
ES.VF.LKMKGD.Y.YLAE.AAG.DKKGIV.Q.QQ..QE...E.S.KEMQPT.PIRLGLALNFSV..YEI
RetrocopyESNVFHLKMKGDCYGYLAEDAAGEDKKGIVAQAQQSHQE<IIEMSRKEMQPTYPIRLGLALNFSVSSYEI
ParentalLNSPEKACSLAKTAFDEAIAELDTL-SEESYKDSTLIMQLLRDNLTLWTSDTQGDE
LNS.EKACSLAKTAFDEA.AELDTL.SEES.K.S.L...LLRD.LT.W.SD.QGDE
RetrocopyLNSLEKACSLAKTAFDEALAELDTL<SEESCKESMLLR*LLRDKLTSWMSDAQGDE

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 6 .61 RPM 62 .04 RPM
SRP012922_cerebellum 0 .00 RPM 53 .48 RPM
SRP012922_heart 0 .46 RPM 3 .94 RPM
SRP012922_kidney 0 .00 RPM 11 .50 RPM
SRP012922_liver 0 .46 RPM 8 .82 RPM
SRP012922_lung 8 .86 RPM 30 .39 RPM
SRP012922_quadricep_muscle 0 .00 RPM 3 .46 RPM
SRP012922_spleen 39 .83 RPM 44 .53 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_117 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 29 parental genes, and 115 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000086942 retrocopies
Bos taurus ENSBTAG000000002364 retrocopies
Canis familiaris ENSCAFG000000005806 retrocopies
Choloepus hoffmanni ENSCHOG000000027989 retrocopies
Callithrix jacchus ENSCJAG000000158445 retrocopies
Cavia porcellus ENSCPOG000000202855 retrocopies
Dasypus novemcinctus ENSDNOG00000001672 10 retrocopies
Dasypus novemcinctus ENSDNOG000000038082 retrocopies
Ficedula albicollis ENSFALG000000058601 retrocopy
Felis catus ENSFCAG000000320174 retrocopies
Gallus gallus ENSGALG000000107251 retrocopy
Gorilla gorilla ENSGGOG000000221339 retrocopies
Loxodonta africana ENSLAFG000000049442 retrocopies
Myotis lucifugus ENSMLUG000000173233 retrocopies
Macaca mulatta ENSMMUG000000064897 retrocopies
Monodelphis domestica ENSMODG000000061588 retrocopies
Mus musculus ENSMUSG000000222853 retrocopies
Nomascus leucogenys ENSNLEG000000032207 retrocopies
Oryctolagus cuniculus ENSOCUG000000007342 retrocopies
Ochotona princeps ENSOPRG000000002763 retrocopies
Procavia capensis ENSPCAG000000107441 retrocopy
Pongo abelii ENSPPYG000000187917 retrocopies
Pelodiscus sinensis ENSPSIG000000037031 retrocopy
Sarcophilus harrisii ENSSHAG000000126712 retrocopies
Sus scrofa ENSSSCG000000060622 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000238643 retrocopies
Taeniopygia guttata ENSTGUG000000120781 retrocopy
Tursiops truncatus ENSTTRG000000159064 retrocopies
Vicugna pacos ENSVPAG000000058651 retrocopy



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