RetrogeneDB ID:

retro_mdom_983

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:3:124224686..124226001(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MSTO1
Ensembl ID:ENSMODG00000017015
Aliases:None
Description:misato homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:29678]


Retrocopy-Parental alignment summary:






>retro_mdom_983
AACCTGTTTCTACAAAACCTTCTGATTGCCAAGGGAGTAATTAGTAGTGATGGTGTCTCAAGGGTTCAAACATTTCCCAA
TGGTAAAGGTCTTCCACCACTTAACAAAGCCTTTCTCCCCACCTCCAAATCACTGATCACTCCTGAGGGCAGCATCAGGG
TCTGGTCTGACTTCCTTCATGTGTAGCTATACCCCAGAAGTATTTGTATTATCCAAAATACAACCATGATGGGGAGGCAG
GCCATCCAGAGGGTTTTGGCCAAGGTGAAAGCCTCTTTAGGGAAATTACCTACTTGGAAGAGCTTGAGGAAAGACTAAAC
TTCTATGTGGAAGAATGTGACTATTTGCAGGGTTTCCAAATCCTGTGTGCCCTGCACGATGGCTTCTCTGGCTTAGGAGC
TAAAGCAACAGAGTTGCTTCAGGATGAGGATGCTAGATGTGGGATCCTGATTTGTGACCTTCTCCCTGGCCCCTATACCC
TAGGGGAGCCCCAGAAAAACTCATCATCACTTCAGCACAGCCCTACACCTTGTGAATATGGCTGTTCACAGCTTATTTGT
TTGTCCACTGTTCCTCAGGAGTTGCTTTGGACTTCGGCCTGAGCCCCCAGTTACCTTCCCAAATCTTGGCTATGATGTCA
CACTGCCCTTCCACAGCAGTTCCCTCCTGGCTACAGTCATAGACACAATCACTGTCTCATACTGACTGTATTCTTCCCCA
ATTTCCATGGTGCATCTGTGATATTATGAGCTTTTCTGGGAGAAAGGTTGTTGCAGCTGAAGTTTCCATTCCATTCCCAG
TGGCTCCTGGCCATTCCCTTACCAATACCTTGGCCCAGTTTGGAGGAACAATACCCTAGACTCAAGTTTCTGCATGTGAA
GAACTAAGTGTCTCACTTTGTTTTGTACAAGCTCTGGTGCTTTGGGGTGTATACAAAACAAGACAAACCACACAATTCTC
CCCAGATACATCATCGAATTCCCCATTCCATGCCTGTACCAGCAGAGAGGAGGTCCTGGACCAATATTTGCAACAGTTGC
AACCTGGAGTTCTGAATTCCTTCCAGTTGCTGCTGAGTCCATGCAGGGTAGTTCTTCCATACCCATGATTCTTCTTCTCA
TGACTCAACCAGCAGTGTTTGATTCTGGATGGTGCCGACAATGGAACAGCAGTGGAAACTATCCCTTTGCTTACTAGACT
GTGCTCCTCTTCACTGCTGCATTGGGCCTTAGGCTGTCTGGTAGGGGAACTGGCCAATCTTGACCTGAGATGCTGGGCTA
ATTTCCTGGCAGCAGGAGTGAAACAAGATGACATA

ORF - retro_mdom_983 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 76.8 %
Parental protein coverage: 76.79 %
Number of stop codons detected: 6
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalNPFLQNLLSAEGVMSSDGVWRVQTFPNGKGLPPLTKAFLPTPKSLIPPEGSIKVWSDFLHVQLHPRSICI
N.FLQNLL.A.GV.SSDGV.RVQTFPNGKGLPPL.KAFLPT.KSLI.PEGSI.VWSDFLHV.L.PRSICI
RetrocopyNLFLQNLLIAKGVISSDGVSRVQTFPNGKGLPPLNKAFLPTSKSLITPEGSIRVWSDFLHV*LYPRSICI
ParentalIQ-KYNHDGEAGRLEGFGQGESLLREPTYLEELEDRLHFYVEECDYLQGFQILCDLHDGFSGLGAKATEL
IQ.KYNHDGEAG..EGFGQGESL.RE.TYLEELE.RL.FYVEECDYLQGFQILC.LHDGFSGLGAKATEL
RetrocopyIQ<KYNHDGEAGHPEGFGQGESLFREITYLEELEERLNFYVEECDYLQGFQILCALHDGFSGLGAKATEL
ParentalLQDEYAGRGILTWGLLPGPYTLGE-PQKNFYRLFNTALGLVNMAAHSSFVCPLSLGGGLGLRPEPPVTFP
LQDE.A..GIL...LLPGPYTLGE.P.K.....F.TAL.LVNMA.HS.FVCPL.L....GLRPEPPVTFP
RetrocopyLQDEDARCGILICDLLPGPYTLGE>PRKTHHH-FSTALHLVNMAVHSLFVCPLFLRSCFGLRPEPPVTFP
ParentalHLRYDVTLPYHSSALLATVLDTITVPYRLCSSPISMVHL-ADMLSFSGRKVV-TAGASIPFPVAPGHSLP
.L.YDVTLP.HSS.LLATV.DTITV.Y.L.SSPISMVHL......F.G......A..SIPFPVAPGHSL.
RetrocopyNLGYDVTLPFHSSSLLATVIDTITVSY*LYSSPISMVHL<VIL*AFLGERLL<AAEVSIPFPVAPGHSLT
ParentalDTLAQFGGTIPWTPVSACGEPSGTRCFVQSVVLRGVDKTRQTSQFSPGTSPNSPLHACTSGEEVLAQYLQ
.TLAQFGGTIP.T.VSAC.E.S...CFVQ..VL.GV.KTRQT.QFSP.TS.NSP.HACTS.EEVL.QYLQ
RetrocopyNTLAQFGGTIP*TQVSACEELSVSLCFVQALVLWGVYKTRQTTQFSPDTSSNSPFHACTSREEVLDQYLQ
ParentalQLQPGVLSSSQLLLSPCRVVPPYPRFFSSRLNQQGLILDGTHNGTAVETIPVFATLCSSSLLHRALGRLA
QLQPGVL.S.QLLLSPCRVV.PYP.FF.S.LNQQ.LILDG..NGTAVETIP....LCSSSLLH.ALG.L.
RetrocopyQLQPGVLNSFQLLLSPCRVVLPYP*FFFS*LNQQCLILDGADNGTAVETIPLLTRLCSSSLLHWALGCLV
ParentalGELANLDLRRWASFLAAGVEQDDM
GELANLDLR.WA.FLAAGV.QDD.
RetrocopyGELANLDLRCWANFLAAGVKQDDI

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_983 retrocopy.

TSS - click to see more details

Monodelphis domestica was not studied using FANTOM5 data.

Lab - click to see more details

retro_mdom_983 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 ENSMODG00000017015 1 retrocopy
retro_mdom_983 ,


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