RetrogeneDB ID:

retro_mdom_1815

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:7:206344597..206345086(-)
Located in intron of:ENSMODG00000021287
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:YWHAZ
Ensembl ID:ENSMODG00000006158
Aliases:None
Description:tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein, zeta polypeptide [Source:HGNC Symbol;Acc:12855]


Retrocopy-Parental alignment summary:






>retro_mdom_1815
AGGGTTATTTCAAGAACTGGGCAAAAAATGGAAGATGCTAAGAAAAAAACCCATCAGACAGCCCGAGACTATAAAGAGAA
AATGGAGACATCAGCAAGAAATATCTGCAAGAATGTACTGTGTCCATTGGGGAAAGTTTTTGATCCCCAATGCTCCACAA
GCAGAAAACAAAGTTTTCTAGATGAAAATTGTGCAAGATTATGTATTACCATTGTTTGGCCGAGGCAGCTGTTGAAGATG
ACAAGAAAGAAACAATAGATCAGTCACAACAAACATGTCAAGAAGCATTGAAATAAAGAAAAGGTGATGCAACCAATGTG
TCCACTATGTTTGGATCTGGTCCTGAACTTCTCTGCTTTCTACTCTGAGATCCTGAACCCTCCAGAAAAAGCTTGTTCCC
TCGTGATGACAGCTTTTGATAAAGCCCTCACTGAATGCTGTGCAATAAGTAGAGAATCATATAAAAACAACACACAAAGA
ATGAGAATG

ORF - retro_mdom_1815 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 56.29 %
Parental protein coverage: 65.71 %
Number of stop codons detected: 1
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalRVVSSIEQKTEGAEKK-QQMAREYREKIETELRDICNDVLSLLE-KFLIPNASQAESKVFYLKMKGDY-Y
RV.S...QK.E.A.KK..Q.AR.Y.EK.ET..R.IC..VL..L..KFLIPNA.QAE.KVF..K...DY.Y
RetrocopyRVISRTGQKMEDAKKKTHQTARDYKEKMETSARNICKNVLCPLG>KFLIPNAPQAENKVF*MKIVQDY>Y
ParentalRYLAEVAA-GDDKKGIVDQSQQAYQEA-FEISK-KEMQPTHPIRLGLALNFSVFYYEILNSPEKACSLAK
......AA..DDKK...DQSQQ..QEA..EI.K.K.MQP..P..L.L.LNFS.FY.EILN.PEKACSL..
RetrocopyYHCLAEAAVEDDKKETIDQSQQTCQEA<IEIKK<KVMQPMCPLCLDLVLNFSAFYSEILNPPEKACSLVM
ParentalTAFDEAIAELDTLSEESYKDSTLIMQL
TAFD.A..E....S.ESYK..T..M..
RetrocopyTAFDKALTECCAISRESYKNNTQRMRM

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
SRP007412_brain 0 .00 RPM 0 .00 RPM
SRP007412_cerebellum 0 .00 RPM 0 .00 RPM
SRP007412_heart 0 .00 RPM 0 .00 RPM
SRP007412_kidney 0 .00 RPM 0 .00 RPM
SRP007412_liver 0 .00 RPM 0 .00 RPM
SRP007412_testis 0 .00 RPM 0 .00 RPM
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_1815 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1815 was not experimentally validated.

Retrocopy orthology:
Monodelphis domestica 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 20 parental genes, and 72 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000086942 retrocopies
Bos taurus ENSBTAG000000002364 retrocopies
Canis familiaris ENSCAFG000000005806 retrocopies
Callithrix jacchus ENSCJAG000000158445 retrocopies
Dasypus novemcinctus ENSDNOG0000000167210 retrocopies
Ficedula albicollis ENSFALG000000058601 retrocopy
Gallus gallus ENSGALG000000107251 retrocopy
Gorilla gorilla ENSGGOG000000221339 retrocopies
Monodelphis domestica ENSMODG00000006158 8 retrocopies
Monodelphis domestica ENSMODG000000101742 retrocopies
Monodelphis domestica ENSMODG000000147401 retrocopy
Monodelphis domestica ENSMODG000000162002 retrocopies
Mus musculus ENSMUSG000000222853 retrocopies
Oryctolagus cuniculus ENSOCUG000000007342 retrocopies
Ochotona princeps ENSOPRG000000002763 retrocopies
Pongo abelii ENSPPYG000000187917 retrocopies
Pelodiscus sinensis ENSPSIG000000037031 retrocopy
Sarcophilus harrisii ENSSHAG000000126712 retrocopies
Sus scrofa ENSSSCG000000060622 retrocopies
Taeniopygia guttata ENSTGUG000000120781 retrocopy



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