RetrogeneDB ID:

retro_mdom_1099

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:3:106822164..106823403(-)
Located in intron of:ENSMODG00000025607
Retrocopy
information
Ensembl ID:ENSMODG00000002471
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:RBM41
Ensembl ID:ENSMODG00000002312
Aliases:None
Description:RNA binding motif protein 41 [Source:HGNC Symbol;Acc:25617]


Retrocopy-Parental alignment summary:






>retro_mdom_1099
ATGAAGAGGATAAACAGTAGCCTTTCCAGTGATGACCTTATTCTGGAGGACTTGGAGACAGAGGGAGAGAGGCAGCTAAG
AAGCCTTCTTCACCATCAGCTCGATACTTCTGTTTCTGTTGAGGAATGTGTATCTAAGAAGCAATGCTTTGCTCCTGCTG
CAGTGTACAAGCCCTTTGGTGAGGAGGCAGCTGGGGTTTTGAGCTTGTCCCAGTTTCAGGCACTACAGAAGAGTGACCAG
GAAATCGCATCTCTGAGGGACTTGGGTCTTACTGATAGAGAAATCATGCTGTGGAAAAATCGTGCTTCATTAGAGAGGGG
TACAGGGCTGGGAGCAACCCCTGAAGCAACACAGGACTGTCTTCGAGACATTGAAGAGAAGATCTCGGAGCATCAGCGCA
TCCTGGCTTTGCCACAGAGGTTTGCAGGGTGTAAACAGCTGAGCCGACGGGAGATGGAAATAGAAAAGGCTTTGTTTCAG
GGGAATGATCGCCATTCCTTCTTGAGGGCTCTCTATTACCAAGGTGAATCCCATAAGAGACTAGAGGCTGAGAAGGACCC
CATTAATAATCTGGAGACTGTTTACCAAGAGATGATGGCCAAACCCCATCTCAAAGAAGCTCAGCTTATGAGAGATGAAC
CTTTTGCTTGCCCTTTATTGGACTCACATGCATTAGCGGACAGTAGTGTCACAGCTAAGAACTTGTCAGTACTTGAAGCT
CAAGGAAACCAGGCAGCACAGGCCAAGGGGCCTAGCCTCTGTGTGGTAAAAGTTATTGAATCTGAGGCACAACAATATCT
TACTGAGCCCAAGAAGTTGACAGAAGTAGTGGAATTTGTCCCAGAAGATGAGATTGAGAGGAACCGTCTGTCACAAGAGG
ACATCCGAAAAATACCTATGTTTGCTTCTTACAGTCCTGGAGAGCCAAACAAAGTACTGTATTTAAAGAACCTTAGTCCT
CGGGTGACTGAGAAGGAACTTGTCTCCTTGTTTGCTAGGTTCCAGGAGGATAAAGGAACTCCAATTCAATTCCGAGTGTT
GACTGGCCGCATGAAGGGCCAGGCCTTCATCACCTTCCCCAGTACGGAGATGGCCCAGCAGGCATTGCTTTTGGTGAATG
GATACAACCTCCTGGGGAAAACACTGGTGATAGAGTTTGGCAAACACAAAAAGCAGAGGGCAGGGCTGCATTTGGCACCC
CCTACCCCACATGTGACACACAACATGACAGAACAAGAT

ORF - retro_mdom_1099 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 87.65 %
Parental protein coverage: 99.52 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMKRINSSLSSDDLILEDLETEGERQLRSLLHHQLDTSVSVEECVSKKQCFAPAAVYKPFGEEAAGALSLS
MKRINSSLSSDDLILEDLETEGERQLRSLLHHQLDTSVSVEECVSKKQCFAPAAVYKPFGEEAAG.LSLS
RetrocopyMKRINSSLSSDDLILEDLETEGERQLRSLLHHQLDTSVSVEECVSKKQCFAPAAVYKPFGEEAAGVLSLS
ParentalQFQALQKSDQEISSLRDLGLNDREIILWKNRASSERGRGLGAAPEATQDRLRDIEEKISEHQRILALPQR
QFQALQKSDQEI.SLRDLGL.DREI.LWKNRAS.ERG.GLGA.PEATQD.LRDIEEKISEHQRILALPQR
RetrocopyQFQALQKSDQEIASLRDLGLTDREIMLWKNRASLERGTGLGATPEATQDCLRDIEEKISEHQRILALPQR
ParentalFAGSKQLSRREMEIEKALFQGNDRHSFLRALYYQGESHKRLEAEKDPINNLETVYQEMMAKPHPEEAQLM
FAG.KQLSRREMEIEKALFQGNDRHSFLRALYYQGESHKRLEAEKDPINNLETVYQEMMAKPH..EAQLM
RetrocopyFAGCKQLSRREMEIEKALFQGNDRHSFLRALYYQGESHKRLEAEKDPINNLETVYQEMMAKPHLKEAQLM
ParentalRGEPFACPSLDSDVLVDSSGPSKNLSVLEDQGNQAAQAEGSSLHVVKAIESEPQQCLNEPKKLTEVVDFV
R.EPFACP.LDS..L.DSS...KNLSVLE.QGNQAAQA.G.SL.VVK.IESE.QQ.L.EPKKLTEVV.FV
RetrocopyRDEPFACPLLDSHALADSSVTAKNLSVLEAQGNQAAQAKGPSLCVVKVIESEAQQYLTEPKKLTEVVEFV
ParentalSEDDIERNRLSEEDIRKIPMFASYSPGEPNKVLYLKNLSPRVTEKELVSLFARFQEKKGPLIQFRVLTGR
.ED.IERNRLS.EDIRKIPMFASYSPGEPNKVLYLKNLSPRVTEKELVSLFARFQE.KG..IQFRVLTGR
RetrocopyPEDEIERNRLSQEDIRKIPMFASYSPGEPNKVLYLKNLSPRVTEKELVSLFARFQEDKGTPIQFRVLTGR
ParentalMKGQAFVTFPNMEMAQQALLLVNGYNLLGKTLVIEFGKNKTQMPGLQSASPIPCATDSMTERN
MKGQAF.TFP..EMAQQALLLVNGYNLLGKTLVIEFGK.K.Q..GL..A.P.P..T..MTE..
RetrocopyMKGQAFITFPSTEMAQQALLLVNGYNLLGKTLVIEFGKHKKQRAGLHLAPPTPHVTHNMTEQD

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_1099 retrocopy.

TSS - click to see more details

Monodelphis domestica was not studied using FANTOM5 data.

Lab - click to see more details

retro_mdom_1099 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 ENSMODG00000002312 1 retrocopy
retro_mdom_1099 ,


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