RetrogeneDB ID:

retro_mdom_1834

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:8:41436138..41438133(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMODG00000025131
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:ZNF800
Ensembl ID:ENSMODG00000015235
Aliases:None
Description:zinc finger protein 800 [Source:HGNC Symbol;Acc:27267]


Retrocopy-Parental alignment summary:






>retro_mdom_1834
ATGCCTCTAAGGGACAACTGCTGTCAGACTGACCACCATCATCATGGATGCTGTGAACCAGTATATATTCTGGAACCTGG
AGATCCTCCTTTGTTACAGCAGCCATTGCAGACTTCCAAATCTGGCATTCAACAAAGTATTGAATGCTTTCAATCAGGAA
CTAAACAACTAAAATGCATTTTATTAAGAGATGTGGACACAATTTTTGAGTGTAAATTATGTCGCCGTCTCTTCAGAGGA
TTACCAAATTTAATTACTCATAAAAAATTCTACTGCCCTCCAAGTCTCCAGATGGATGACAACCTTCCTAATGTAAATGA
TAAACAAAGCCAAGCCATAAATGATCTCCTAGAAGCCATTTATCCAAGCGTGGACAAACGAGAATATATTATTAGGCTAG
AACCCATAGAAACTAATCAGAATGCAGTGTTTCAGTGTATTTCAAGGACTAATAACCCAGCTGAGGTCACTGAGTCAAGT
AATTCTCCTGATCAAACTCAAGTTCAGATGCAAGAATCTAACACTGAAACAGTCCAAAACAACTCCAGTTCCAGATGCAG
AAGTAGAAATTGTAGAACCCCCGCCTACAGAAACAGTTGCAAATGAAGCAACACCAGCTTCTGATGAGCAGCCTCAGGAA
TCACACACTGACTTGGAAACTTCTGATAATTCTGATTTTGGCCACCAGTTGATTTGTTGTCTTTGTAGAAAAGAATTCAA
CTCCAGACGTGGTATTCTCTGGCACATTAGGAAAGTACACAAAAAAAAGATGGAAGAACTAAAGAAGTACATTGAAACAT
GAAAGAATCCAAACCAGTCTTCTACTAAAGGACGCAATAAGAATGTTCTAGTAACATTGAGTAGGAGTTGTCCAGTATGT
TATAAATCTTTTGCTACAAAAGCAAATGTAAGGAGGCATTTTGATGAAGTTCATAGAGGACTGAGGAGGGATTCAATTAG
TCCTGATATAGCTGCAAAGCCTGGGCAGCCTTTGTTCCTGGATACTGTTTCTCCTAAAAAATCTTTTAAGACTCGGAAAC
AAAAATCTTCTTCAAAGGCTGAATACAATTTAACTGCATGCAAATGCCTTCTTTGCAAGAGGAAATATAGTTCACAAATA
ATGCTTAAAAGACATATGCAAATTGTTCACAAGATAACTCTTTCTGTAACAAACTCTAAAAGAGAGAAAGGCCCTAATAA
TACTGCCAACAGCACAGAAATAAAAGTAAAAGTTGAACCATCAGGCTCTGTAGAATCTTCACCCCCTTCTATTACCCATT
CTCCACAGAATGAATTAAAGGGAACAAATCATTCAAATGAGAAAAAGAACACACTGGCAGCACAGAAAAATAAAGTTAAG
CAAGACTTGGACAGCCCTAAATCAACAAGTCATTTTGCTGCAGGTGGCCAGCAAAAAACCAGGAAACCAAAACTTTCAGC
TGGCTTTGACTTCAAGCAGCTTTACTGTAAACTTTGTAAATGTCAATTTACTTCCAAGCAGAACTTGACTAAACACATTG
AGTTGCACACAGATGGAAATAACATTTATGTTAAATTCTATAAGTGTCCACTTTGCACTTATGAAACGCGTCGGAAACAT
GATGTGATAAGGCACATAATTGTGGTTCACAAAAAATCATCACATTATCTTGGGAAAATCACAGCCTGTTTAGAAATCAG
AGCTATAAAAAAGCCCATTGATTTTGTTCTAAATAAAGTGGCAAAAAGAGGCCCTCCAAGGGATGAAGCGAAGCAGAATG
ATTCAAAACATGATGGAACTTCTAATTCTCCCAACAAAAAGTATGAAGTAGCTGATGTTGGCATTGAAGTAAAAGTTAAA
AAAACTTTTCTCTTCACAGATGCAATAAGTGTGGAAAGGCATTTGCAAAAAAGATTTACCTTGAACATCATAAGAAAACT
CACAAGGCAAATGCTTCTAATTCACCTGAAGGAAATAAAACCAAAGGCCAAAGTACAAGATCTAAGGCTCTTGTC

ORF - retro_mdom_1834 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 95.05 %
Parental protein coverage: 99.85 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMPLRDKCCQTDHHHHGCCEPVYILEPGDPPLLQQPLQTSKSGIQQIIECFRSGTKQLKHILLRDVDTIFE
MPLRD.CCQTDHHHHGCCEPVYILEPGDPPLLQQPLQTSKSGIQQ.IECF.SGTKQLK.ILLRDVDTIFE
RetrocopyMPLRDNCCQTDHHHHGCCEPVYILEPGDPPLLQQPLQTSKSGIQQSIECFQSGTKQLKCILLRDVDTIFE
ParentalCKLCRSLFRGLPNLITHKKFYCPPSLQMDDNLPDVNDKQSQAINDLLEAIYPSVDKREYIIRLEPIETNQ
CKLCR.LFRGLPNLITHKKFYCPPSLQMDDNLP.VNDKQSQAINDLLEAIYPSVDKREYIIRLEPIETNQ
RetrocopyCKLCRRLFRGLPNLITHKKFYCPPSLQMDDNLPNVNDKQSQAINDLLEAIYPSVDKREYIIRLEPIETNQ
ParentalNAVFQYISRTNNPAEVTESSNSPDQTQVQMQEPNTE-QSKTTPVPDAEVEIVESPPTETVANEATPASDE
NAVFQ.ISRTNNPAEVTESSNSPDQTQVQMQE.NTE.QSKTTPVPDAEVEIVE.PPTETVANEATPASDE
RetrocopyNAVFQCISRTNNPAEVTESSNSPDQTQVQMQESNTE>QSKTTPVPDAEVEIVEPPPTETVANEATPASDE
ParentalQPQESHTDLETSDNSDFGHQLICCLCRKEFNSRRGVRRHIRKVHKKKMEELKKYIETRKNPNQSSTKGRN
QPQESHTDLETSDNSDFGHQLICCLCRKEFNSRRG...HIRKVH...MEELKKYIET.KNPNQSSTKGRN
RetrocopyQPQESHTDLETSDNSDFGHQLICCLCRKEFNSRRGILWHIRKVHXXXMEELKKYIET*KNPNQSSTKGRN
ParentalKNVLVTLSRSCPVCYKSFATKANVRRHFDEVHRGLRRDSITPDIATKPGQPLFLDTVSPKKSFKTRKQKS
KNVLVTLSRSCPVCYKSFATKANVRRHFDEVHRGLRRDSI.PDIA.KPGQPLFLDTVSPKKSFKTRKQKS
RetrocopyKNVLVTLSRSCPVCYKSFATKANVRRHFDEVHRGLRRDSISPDIAAKPGQPLFLDTVSPKKSFKTRKQKS
ParentalSSKAEYNLTACKCLLCKRKYSSQIMLKRHMQIVHKITLSGTNSKREKGPNNTANSTEIKVKVEPSDSVES
SSKAEYNLTACKCLLCKRKYSSQIMLKRHMQIVHKITLS.TNSKREKGPNNTANSTEIKVKVEPS.SVES
RetrocopySSKAEYNLTACKCLLCKRKYSSQIMLKRHMQIVHKITLSVTNSKREKGPNNTANSTEIKVKVEPSGSVES
ParentalSPPSITHSPQNELKGTNHSNEKKNTPAAQKNKVKQDLDSPKSTSPSAAGGQQKTRKPKLSAGFDFKQLYC
SPPSITHSPQNELKGTNHSNEKKNT.AAQKNKVKQDLDSPKSTS..AAGGQQKTRKPKLSAGFDFKQLYC
RetrocopySPPSITHSPQNELKGTNHSNEKKNTLAAQKNKVKQDLDSPKSTSHFAAGGQQKTRKPKLSAGFDFKQLYC
ParentalKLCKRQFTSKQNLTKHIELHTDGNNIYVKFYKCPLCTYETRRKRDVIRHITVVHKKSSRYLGKITASLEI
KLCK.QFTSKQNLTKHIELHTDGNNIYVKFYKCPLCTYETRRK.DVIRHI.VVHKKSS.YLGKITA.LEI
RetrocopyKLCKCQFTSKQNLTKHIELHTDGNNIYVKFYKCPLCTYETRRKHDVIRHIIVVHKKSSHYLGKITACLEI
ParentalRAIKKPIDFVLNKVAKRGPPRDEAKQNDSKHDGTSNSPNKKYEVADVGIEVKVT-KNFSLHRCNKCGKAF
RAIKKPIDFVLNKVAKRGPPRDEAKQNDSKHDGTSNSPNKKYEVADVGIEVKV..KNFSLHRCNKCGKAF
RetrocopyRAIKKPIDFVLNKVAKRGPPRDEAKQNDSKHDGTSNSPNKKYEVADVGIEVKVK<KNFSLHRCNKCGKAF
ParentalAKKTYLEHHKKTHKANASNSPEGNKTKGRSTRSKALV
AKK.YLEHHKKTHKANASNSPEGNKTKG.STRSKALV
RetrocopyAKKIYLEHHKKTHKANASNSPEGNKTKGQSTRSKALV

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_1834 retrocopy.

TSS - click to see more details

Monodelphis domestica was not studied using FANTOM5 data.

Lab - click to see more details

retro_mdom_1834 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 ENSMODG00000015235 1 retrocopy
retro_mdom_1834 ,


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