RetrogeneDB ID:

retro_mdom_869

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:2:254708828..254710082(-)
Located in intron of:ENSMODG00000007423
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ABHD16A
Ensembl ID:ENSMODG00000015277
Aliases:None
Description:abhydrolase domain containing 16A [Source:HGNC Symbol;Acc:13921]


Retrocopy-Parental alignment summary:






>retro_mdom_869
GCAAAGATGCTGAGCTGCATCTTGGGCTCCTGGCTTTAGCAGGTCTATCAGGAGAGGGACAAAGAAAGGACCTAGTCTAG
CATTCCTGGAACTCCAGCTGCCATCACCACCTCCCCAGCTGGCTTCTGGGAGTCTATTATCAGCTCCTGGCACTGGAGAA
ATATGCTGACATCCTGACTTTGGCTTGAGTCTTCTGGTCTATTTATTATTCCTCTCCCTTGGCTTTCTTCTACTTGTACA
GGAAAAGTTGTTTGTGTATGTCAAAGGTAGTGCCATTTTCTCACTATGCTGGGACATTGCTACTGCTTCCAGCGTGTGTG
GCCTGTCTTTGAGGCATTGGCCACTGGACCAAATCCCACTACATCCAGTTCATCACCATTTTGGAAGAGACTCATAGCAA
TAACTTCTTAGAGAAAAGAAGCAACTGTTTACTTACAAGTTTGACTTTAAGAGCTGGCCTGTTCACTTCCATTGAGAAGA
ACCCAATAGCCAGAAGGATTTCCAGTGTGTTCTCTCCCACAAAGGTGTATCTTTGCTTCAAACTGAACCACGACATTGGG
GGATGACTGATAATATCCTTAACCAGGTTAAAAAGCTTCCCTGTCAGAATGCCAATTTTTTGGTTGCTCATACTCCAGGG
CACTGGATGCTATACCCTGGTTCTGTATACTTGCTCCAGAAGACCTTCATGCCCATGTTGCTGCAGGGCCAGGCTTGACT
GATAGAAGAGCTCCATTGGTCACTGAGCCAAAATGGTGGCCTGTGCTAGTAATGAGATTAACACCATATTTATTGACACA
TCAGAAGCACATCAGAACCTCAGGGATGGAATTACTGGTAATCTGCTATGAGGGGAGTGCTGGATTCTAGGAGGCTGGCT
CCCTCTCCACTCCTCTGGAAGTGGGATATTTGGTCGTGGGTTGGAATCATACTGACTTTACTGGCAGCATAGGGGTCCCA
TTCCCTCAAAATGAAGCCAGTGTCATGGATGTGGCAATCCAATTTGCTATCCACCACCTCAACTTCCAGCCATAGGACAT
CGTTCTCTATGGGGTTTTTTGGTCAGTTGTGGGGTTTACTGCCATGTGGGCTGCACTTTCCTACTCAGAGATCAGTGCCC
CAATATGAGATGTCTCCTTTCATGACCTACTACCTTTGGCCCTAAAGATCATTCCTGACAGCTGGAGGACCCTTGAGACT
TGAACATCGAGGTAGTACCTGAATCTGAATAAAACTGAGCAGATATGCAGGTAT

ORF - retro_mdom_869 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.16 %
Parental protein coverage: 74.73 %
Number of stop codons detected: 12
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalAKLLSCVLGPRLYRVYREREPGRAQASVPGTPAAITTSPAGSWES-YYQPRALEKHADSILAMASVLWSI
AK.LSC.LG..L..VY.ER...R...S.PGTPAAITTSPAG.WES.YYQ..ALEK.AD.IL..A.V.WSI
RetrocopyAKMLSCILGSWL*QVYQERDKERT*SSIPGTPAAITTSPAGFWES<YYQLLALEKYAD-ILTLA*VFWSI
ParentalSYYTSPLAFFYLYRKGYLCMSKVVPFSHYAGTLLLLLAGVACLRGIGRWTNPHYIQFITILEETHRNNSL
.YY.SPLAFFYLYRK..LCMSKVVPFSHYAGTLLLL.A.VACL.GIG.WT..HYIQFITILEETH.NN.L
Retrocopy-YYSSPLAFFYLYRKSCLCMSKVVPFSHYAGTLLLLPACVACL*GIGHWTKSHYIQFITILEETHSNNFL
ParentalEN-KRQLSVYNFDFKSWPADFHWEDPSSRKDSQHGLSRKGVSLLRTEPLHRGTADNFLNRVKKLPCQIAS
E..K.QL..Y.FDFKSWP..FH.E.P.S.KD.Q..LS.KGVSLL.TEP.H.G..DN.LN.VKKLPCQ.A.
RetrocopyEK<KKQLFTYKFDFKSWPVHFH*EEPNSQKDFQCVLSHKGVSLLQTEPRHWGMTDNILNQVKKLPCQNAN
ParentalFFVAHTLGRRMLYPGSVYLLQKALMPMLMQGQARLVEEFN-GRRAKLVACDGNEIDTMFVDRRSTPE-PP
F.VAHT.G..MLYPGSVYLLQK..MPML.QGQA.L.EE...G..AK.VAC..NEI.T.F.D.........
RetrocopyFLVAHTPGHWMLYPGSVYLLQKTFMPMLLQGQA*LIEELH>GH*AKMVACASNEINTIFIDTSEAHQ>TS
ParentalGQKLV-ICCEGNAGFYEVGCLSTPLEAGYSVLGWNHPGFAGSTGVPFPQNEANAMDVVIQFAIHRLNFQP
G..L..IC.EG.AGF.E.G.LSTPLE.GY.V.GWNH..F.GS.GVPFPQNEA..MDV.IQFAIH.LNFQP
RetrocopyGMELLVICYEGSAGF*EAGSLSTPLEVGYLVVGWNHTDFTGSIGVPFPQNEASVMDVAIQFAIHHLNFQP
ParentalQNIVLYA--WSIGGFTATWAAMSYPEISAVILDASFDDLVPLALKVMPDSWRTLVTRTVRQHLNLNNAEQ
..IVLY...WS..GFTA.WAA.SY.EISA.I.D.SF.DL.PLALK..PDSWRTL.T.T.R..LNLN..EQ
Retrocopy*DIVLYGVFWSVVGFTAMWAALSYSEISAPI*DVSFHDLLPLALKIIPDSWRTLET*TSR*YLNLNKTEQ
ParentalLCRY
.CRY
RetrocopyICRY

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






RNA-Seq - click to see more details

(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

ChIP-Seq - click to see more details

Monodelphis domestica was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mdom_869 retrocopy.

TSS - click to see more details

Monodelphis domestica was not studied using FANTOM5 data.

Lab - click to see more details

retro_mdom_869 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 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Monodelphis domestica ENSMODG00000015277 1 retrocopy
retro_mdom_869 ,


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