RetrogeneDB ID:

retro_mdom_1966

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:Un:65380184..65382038(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:EIF2AK3
Ensembl ID:ENSMODG00000009643
Aliases:None
Description:eukaryotic translation initiation factor 2-alpha kinase 3 [Source:HGNC Symbol;Acc:3255]


Retrocopy-Parental alignment summary:






>retro_mdom_1966
TTTTTTGACAATATGAATTACAACAAAAATATCCGCAAAAAGGACTCTGTCCTCCTCCTGCACTGGTGGAAAGAAATAGT
CGCCACCATCTTGTTCTGCATCATAGCAACAACTTTTATTGTGCGCAGACTGTTCCACCCGAATCCTCATCGACAAAGGA
AGGAATCTGAAACTCAGTGTCAGACTGACTACTAAGTATGACTCCATAAGTGGCGAAGGTAGTGACAGCAGCTGGTCCGA
TTCCAAGTCCTCTGGATACACATCAAGATACTTAACAGATTTTGAACCCATCCAGTGTATGGGTCGTGGAGGATTCAGCG
TGGTCTTTGAAGCTAGAAACAAAGTTGACGATTGCAATTATGCCATCAAGAGAATCCGTTTCCCCAATAGGGAATTGGCC
CGTGAGAAGGTGATGCGAGAAGTTAAGGCTTTAGCCAAACTTGAGCATCCAGGAATTGTGAGATATTTCAATGCCTGGTT
GGAAGCACCACCGGAAAAATGGCAGGAGAAGATGGATGAACTTTGGCTGAAAGCTGAAAGCACCGCCTGGCCTCTCAGCT
CTCCAAGCCTGATGGAAGCGCCCTCGGTCAACATCCGCAGAATGGATCCATTCTCCACAAAGGAGCACATCGAGATCGTA
GTTCAGTCGCCGCAGAGAAGGAAGTCCTTCCCCGTAGGGATCTCTTACGACCAGGAGAGCTCCGAAAGTCGCTTCTCTCC
CCTGGAGTTCTCCGTAACCAGTAACGGGGACGTGAGCAGCTCGGCCGACCCAGCGGTGAACCTGAGGGACAGCTGCCTTA
TGGACTGCGGCGTGGGAGACAACACGATGGACAGCAACGACGAGGGCCATCCCTTTGAGCTCTGTCCCTCGGAGGGCCTT
CCTTACAGGCGGTCTAAGGACAGAACGTCTTCTTCCATTGTTTTTGAAGACTCTGGCTGCGACAACACCGCCAGTAAGGA
GCTCCGGCCGGTGGCCTTGCGCAATGGCAGCCAGCGTGCGGCCCAGAAGCTCGCCCAGATCCAGCAGTCGGACTGGAAAT
TCTCTTCCGAAAGCCCTTTGTCAGTGTCCCCTCCGAGACCGACAACCTTAAGTCTGGACCTCACCAAAAACGCTGCGGAA
ACGCTCCAGCCCAGTTCCCCAAAGGTGTATCTTTATATCCAAATGCAGCTGTGCAGAAAAGAGAACCTCAAGGACTGGAT
GAACCGCAGGTGCGCCCTGGAGGACCGGGAGTGAGCCGTGTGTCTGCACATCTTCCTGCAGATCACTGAGGCCGTGGAGT
TCCTGCAAGTAAGGGGCTCATGCACAGAGACCTCAAGCTTTCCAATATATTCTTTACGATGAACGTCGTGGTGAAGGTCG
GGGACTTTGGGCTGGTGACCGCCATGGACCAAGATGAGGAGGAACAGATGGTTCTGACCCCGATGCCCGCTTACGCCAGG
CACAAGGGCCAAGTGGGGACCAAGCTCTACATGAACCCCGAGCAGATTCACGGCAATACGTATTCCCATAAAGTGGACAT
CTTCTCTCTGGGCCTCATCCTCTTTGAACTACTCTACCCGTTTAGCACTCAGATGGAGAGGGTCAAGACGTTAAGCGACG
TGAGGGATCTCAAATTCCCACCACTGTTTGCTCAGAAATATCCTCAAGAATACATGATGGTGCGACACATGCTCTCTCCC
TCTCCCAATGAGCGGCCCGAGGCCACGGACATCATTGAAAACCCTTTATTTGAAGACTTGGAGCTCCCGGGGAAATCCGT
GCTCAGGCAGAGGTCTCACTCCCTCAGCTTCTCCGGCATGAAGCATTGCAGGCAGCCCAGCAAGTAGCCTTCGGGCTGGG
GGTCCCCCTCCCAC

ORF - retro_mdom_1966 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.23 %
Parental protein coverage: 55.4 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalFFDNMNYNKNIRKKDPVLLLHWWKEIVATILFCIIATTFIVRRLFHPNPHRQRKESETQCQTD-SKYDSI
FFDNMNYNKNIRKKD.VLLLHWWKEIVATILFCIIATTFIVRRLFHPNPHRQRKESETQCQTD..KYDSI
RetrocopyFFDNMNYNKNIRKKDSVLLLHWWKEIVATILFCIIATTFIVRRLFHPNPHRQRKESETQCQTD>TKYDSI
ParentalSGEGSDSSWSDSKSSGYTSRYLTDFEPIQCMGRGGFGVVFEARNKVDDCNYAIKRIRLPNRELAREKVMR
SGEGSDSSWSDSKSSGYTSRYLTDFEPIQCMGRGGF.VVFEARNKVDDCNYAIKRIR.PNRELAREKVMR
RetrocopySGEGSDSSWSDSKSSGYTSRYLTDFEPIQCMGRGGFSVVFEARNKVDDCNYAIKRIRFPNRELAREKVMR
ParentalEVKALAKLEHPGIVRYFNAWLEAPPEKWQEKMDELWLKDESTDWPLSSPSLMEAPSVKIRRMDPFSTKEH
EVKALAKLEHPGIVRYFNAWLEAPPEKWQEKMDELWLK.EST.WPLSSPSLMEAPSV.IRRMDPFSTKEH
RetrocopyEVKALAKLEHPGIVRYFNAWLEAPPEKWQEKMDELWLKAESTAWPLSSPSLMEAPSVNIRRMDPFSTKEH
ParentalIEIIAPSPQRRKSFSVGISYGQESSESRFSPLEFSVTSNGDVSSSADPAVNLRDSCLTDCGVGDDTMDGN
IEI...SPQRRKSF.VGISY.QESSESRFSPLEFSVTSNGDVSSSADPAVNLRDSCL.DCGVGD.TMD.N
RetrocopyIEIVVQSPQRRKSFPVGISYDQESSESRFSPLEFSVTSNGDVSSSADPAVNLRDSCLMDCGVGDNTMDSN
ParentalDEGHSFELCPSEGLPYRRSKDRTSSSIVFEDSGCDNTASKELRPVALRNGSQCAAQKLAQIQQSDWKFSS
DEGH.FELCPSEGLPYRRSKDRTSSSIVFEDSGCDNTASKELRPVALRNGSQ.AAQKLAQIQQSDWKFSS
RetrocopyDEGHPFELCPSEGLPYRRSKDRTSSSIVFEDSGCDNTASKELRPVALRNGSQRAAQKLAQIQQSDWKFSS
ParentalASPLSVSPPRPTTLSLDLTKNAAEKLQPSSPKVYLYIQMQLCRKENLKDWMNRRCALEDRERAVCLHIFL
.SPLSVSPPRPTTLSLDLTKNAAE.LQPSSPKVYLYIQMQLCRKENLKDWMNRRCALEDRE.AVCLHIFL
RetrocopyESPLSVSPPRPTTLSLDLTKNAAETLQPSSPKVYLYIQMQLCRKENLKDWMNRRCALEDRE*AVCLHIFL
ParentalQIAEAVEFLH-SKGLMHRDLKPSNIFFTMDDVVKVGDFGLVTAMDQDEEEQTVLTPMPAYARHTGQVGTK
QI.EAVEFL..SKGLMHRDLK.SNIFFTM..VVKVGDFGLVTAMDQDEEEQ.VLTPMPAYARH.GQVGTK
RetrocopyQITEAVEFLQ<SKGLMHRDLKLSNIFFTMNVVVKVGDFGLVTAMDQDEEEQMVLTPMPAYARHKGQVGTK
ParentalLYMSPEQIHGNTYSHKVDIFSLGLILFELLYPFSTQMERVKTLSDVRDLKFPPLFAQKYPQEYMMVRHML
LYM.PEQIHGNTYSHKVDIFSLGLILFELLYPFSTQMERVKTLSDVRDLKFPPLFAQKYPQEYMMVRHML
RetrocopyLYMNPEQIHGNTYSHKVDIFSLGLILFELLYPFSTQMERVKTLSDVRDLKFPPLFAQKYPQEYMMVRHML
ParentalSPSPTERPEATDIIENPVFEDLELPGKTVLRQRSRSLSSSGMKHCRQPSN--TREGSPGH
SPSP.ERPEATDIIENP.FEDLELPGK.VLRQRS.SLS.SGMKHCRQPS......GSP.H
RetrocopySPSPNERPEATDIIENPLFEDLELPGKSVLRQRSHSLSFSGMKHCRQPSK*PSGWGSPSH

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_1966 retrocopy.

TSS - click to see more details

Monodelphis domestica was not studied using FANTOM5 data.

Lab - click to see more details

retro_mdom_1966 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 ENSMODG00000009643 1 retrocopy
retro_mdom_1966 ,


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