RetrogeneDB ID:

retro_mdom_295

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:7:37281708..37282131(-)
Located in intron of:ENSMODG00000017505
Retrocopy
information
Ensembl ID:ENSMODG00000025344
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000009520
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mdom_295
GTTTGCTGCGCCAAGCTCGCCTGCTCCCCAGCTCTGATTCGTGCTGGATCCAGAATTGTATATAGACCAATTTCTGCAGC
AGTGTTGTCTCTACCAGAGGCCAGGACTGGAGAGGACAACACAGTATCTAATGGGCCCCAGAACAGAGTGTCTCAGCTAG
CACTAAGGGAGTCCCAGACCAGTGCTATCAGCAGGGACGTTGATACTGCTGCCAAATTTATTGGTGCAGGTGCTGCCACA
GTAGGAGTGGCTGATTCTGGTGCTGGTATTGGAACTATCTTTGGTTCTCTCATTATTGGTTATGCCAGAAACCCATCACT
GAAGCAGCAGCTGTTCTCATATGCTCTCCTGGGATTCGCCTTGTCTGAAGCTATGGGTCTCTTTTGTTTGATGGTTGCTT
TCCTGATCTTGTTTGCCATGTAA

ORF - retro_mdom_295 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.48 %
Parental protein coverage: 97.87 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalCAKLACSPALIRAGSRIVYRPISAAVLSRPEVRTGEGNTVSNGAQNRVSQLALREFQTSAISRDVDTAAK
CAKLACSPALIRAGSRIVYRPISAAVLS.PE.RTGE.NTVSNG.QNRVSQLALRE.QTSAISRDVDTAAK
RetrocopyCAKLACSPALIRAGSRIVYRPISAAVLSLPEARTGEDNTVSNGPQNRVSQLALRESQTSAISRDVDTAAK
ParentalFIGAGAATVGVAGSGAGIGTVFGSLIIGYARNPSLKQQLFSYAILGFALSEAMGLFCLMVAFLILFAL
FIGAGAATVGVA.SGAGIGT.FGSLIIGYARNPSLKQQLFSYA.LGFALSEAMGLFCLMVAFLILFA.
RetrocopyFIGAGAATVGVADSGAGIGTIFGSLIIGYARNPSLKQQLFSYALLGFALSEAMGLFCLMVAFLILFAM

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






(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
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_295 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_295 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 19 parental genes, and 32 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000123671 retrocopy
Bos taurus ENSBTAG000000029441 retrocopy
Canis familiaris ENSCAFG000000133662 retrocopies
Choloepus hoffmanni ENSCHOG000000125923 retrocopies
Callithrix jacchus ENSCJAG000000082073 retrocopies
Cavia porcellus ENSCPOG000000061941 retrocopy
Dasypus novemcinctus ENSDNOG000000104402 retrocopies
Loxodonta africana ENSLAFG000000107681 retrocopy
Myotis lucifugus ENSMLUG000000128221 retrocopy
Macaca mulatta ENSMMUG000000039541 retrocopy
Monodelphis domestica ENSMODG00000009520 3 retrocopies
retro_mdom_1070, retro_mdom_295 , retro_mdom_545,
Mustela putorius furoENSMPUG000000139861 retrocopy
Oryctolagus cuniculus ENSOCUG000000121641 retrocopy
Otolemur garnettii ENSOGAG000000275781 retrocopy
Rattus norvegicus ENSRNOG000000015961 retrocopy
Sorex araneus ENSSARG000000067331 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000135724 retrocopies
Tupaia belangeri ENSTBEG000000121591 retrocopy
Tursiops truncatus ENSTTRG000000115243 retrocopies



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