RetrogeneDB ID:

retro_mdom_198

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:3:291507348..291508653(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMODG00000021403
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000011798
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mdom_198
GTACTAGATCTGTACAAGACTGGCAAAATGGAGGCCCAAGACGGAAAGTCTGAGGTTATGCTGGCTGTTGTGACAGAACC
TCAGTTTACCCAGCATTATAGAGAATATCTTGAGAAGCAGCAGCTCCTGGACAGGCGTCACCGAGTGAAGCAGCTGCCCG
ATGGTACCATAGCACTACCTGTTGTGGGAGAGACCCTCAGTGAGCAGCACCTACTAGCCCTGAGGCAGCAAGGGACCCCT
GAGAACATCTGCCGGCTGGTGCACATCCCGAAACCCATTCTTTCCAAGAAAGCTCAGAGATGTTCACCTGCTCAGAAGCT
ATGTCAGGAGCTTCAGTGCCTGGTGGAAAGTCAAGGACACATGTGGTCAACTGAGCTAGAAAAAGATCTTCCCCGCTCCT
GGCAACGTCATGGTGACCTCCTTCTGCTCAGTGAGGACAGCTTCAAAGATCCCCATTGGAAAAAACTGGAACCAGGGCTC
TGGAAGACAGTAGCCTCTGCACTGGGAGGTCAGCGTTTGGCAAAGCGAGGGCGTGTGTCGCCAGGTGGAACACGAACTCC
CAAAGTAATCCTAATGCTGGGTGACCATGGCTGGGTGGAGCATGTGGATAATGGCATCAGGTACACATTTGATGTGACTC
AAAGTATGTTCTCCTTTGGAAACATCACAGAAAAGCTGCGAGTGGCATCAATGTCCTGTGCAGGAGAAGTGCTAGTGGAT
CTCTATGCAGGGATTGGCTACTTCACTTTGCCATTCCTCATTCATGCAAATGCTGCTTTTGTCCATGCCTGTGAGTGGGA
TCCTCATGCCGCAGCAGCCTTGAAAAAGAACCTGGAGCTCAATGGTGTTTCGGATCGCTGCAGTATACACCTTGGTGATA
ACAGGAAGCTAAAGTTACGGAGCATTGCAAACAGGGTGAACTTGGGGCTCATCCCCACCTCAGAGGAGGGCTGGCCCATT
GCCTGCCAGGTACTGCGCCAGGACACTGGCGGCATCCTGCATATCCATCACAATGTGGAGTCTTTCCCAGGGAAAGACCT
TCAGCTCCCCAGTAGCAGTGAGGCAGGGCAAAAGGAGCAGATAGCTGCCAGGAATTCTGGAAGACAAACACCAGCAAAGG
TCCCTAAGCTAGAATGGAGAAAGTGGGCTGAAGTTGTGGCTGCTCGGATTAGAGACCTGCTTTTGCAGCTGCATGGGAAC
CCCTGGGAGACCCATATCCTGCATATTCAGCCAGTGAAATCTTATGCTCCCCATGTGGATCACATAGTCTTAGATTTGGA
CTGTCGTCCCCTCTCTTATTCTGGG

ORF - retro_mdom_198 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.01 %
Parental protein coverage: 88.21 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalKSDLVVAVVTEPRFTQCCREYLEKQQLLDRQHRVKQLPDGTMALPVLGETLSEWHLQALRKQGAPGSTCR
KS....AVVTEP.FTQ..REYLEKQQLLDR.HRVKQLPDGT.ALPV.GETLSE.HL.ALR.QG.P...CR
RetrocopyKSEVMLAVVTEPQFTQHYREYLEKQQLLDRRHRVKQLPDGTIALPVVGETLSEQHLLALRQQGTPENICR
ParentalLARIPKPVPSKKAQSSSPGQNLCQDVRHLVESQGHIWSAELEKDLPHSWQCHGDLLLLNENSFKATYWKK
L..IPKP..SKKAQ..SP.Q.LCQ....LVESQGH.WS.ELEKDLP.SWQ.HGDLLLL.E.SFK...WKK
RetrocopyLVHIPKPILSKKAQRCSPAQKLCQELQCLVESQGHMWSTELEKDLPRSWQRHGDLLLLSEDSFKDPHWKK
ParentalLEPGLWKTVASALGGLRLAKRGRVSPGGTRTPKVILLLGDHGWVEHVDNGIRYTFDVTQSMFSFGNITEK
LEPGLWKTVASALGG.RLAKRGRVSPGGTRTPKVIL.LGDHGWVEHVDNGIRYTFDVTQSMFSFGNITEK
RetrocopyLEPGLWKTVASALGGQRLAKRGRVSPGGTRTPKVILMLGDHGWVEHVDNGIRYTFDVTQSMFSFGNITEK
ParentalLRVASMSCAGEVLVDLYAGIGYFTLPFLIHANAAFVHACEWDPHAATALKKNLELNSVADRCCIHLGDNR
LRVASMSCAGEVLVDLYAGIGYFTLPFLIHANAAFVHACEWDPHAA.ALKKNLELN.V.DRC.IHLGDNR
RetrocopyLRVASMSCAGEVLVDLYAGIGYFTLPFLIHANAAFVHACEWDPHAAAALKKNLELNGVSDRCSIHLGDNR
ParentalKLKLRSIADRVNLGLIPSSEEGWPIACQVLRQDTGGILHIHHNVESFPGKELQLPNSSEAGQKEQRAARN
KLKLRSIA.RVNLGLIP.SEEGWPIACQVLRQDTGGILHIHHNVESFPGK.LQLP.SSEAGQKEQ.AARN
RetrocopyKLKLRSIANRVNLGLIPTSEEGWPIACQVLRQDTGGILHIHHNVESFPGKDLQLPSSSEAGQKEQIAARN
ParentalSGRQTPAKIAKLEWRRWAETVAAHIGVLLLQQHGKLWKTQILRVQRVKSYAPHVHHLVLDLDCRPLSCS
SGRQTPAK..KLEWR.WAE.VAA.I..LLLQ.HG..W.T.IL..Q.VKSYAPHV.H.VLDLDCRPLS.S
RetrocopySGRQTPAKVPKLEWRKWAEVVAARIRDLLLQLHGNPWETHILHIQPVKSYAPHVDHIVLDLDCRPLSYS

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_198 retrocopy.

TSS - click to see more details

Monodelphis domestica was not studied using FANTOM5 data.

Lab - click to see more details

retro_mdom_198 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 ENSMODG00000011798 1 retrocopy
retro_mdom_198 ,


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