RetrogeneDB ID:

retro_mdom_17

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:3:162436585..162437029(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMODG00000006958
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:UBE2D2
Ensembl ID:ENSMODG00000011783
Aliases:None
Description:ubiquitin-conjugating enzyme E2D 2 [Source:HGNC Symbol;Acc:12475]


Retrocopy-Parental alignment summary:






>retro_mdom_17
ATGGCGCTGAAACGGATTAATAAGGAACTTAGCGATTTGGCCCGTGACCCTCCAGCACAGTGTTCTGCAGGTCCAGTTGG
GGATGATATGTTTCATTGGCAAGCCACAATTATGGGACCTAATGACAGCCCATATCAAGGCGGTGTATTCTTTTTGACAA
TTCATTTCCCTACAGACTACCCCTTCAAACCACCTAAGGTTGCATTTACAACAAGAATTTATCATCCAAACATTAACAGT
AATGGCAGCATTTGTCTCGATATTCTAAGATCACAGTGGTCTCCTGCTTTAACTCTTTCTAAAGTTCTTTTATCCATTTG
TTCACTGCTATGTGATCCAAACCCAGATGACCCCTTAGTGCCAGAGATTGCACGGATCTATAAAACAGACAGAGACAAGT
ACAACAGAATATCTCGAGAATGGACTCAGAAGTATGCCATGTGA

ORF - retro_mdom_17 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 96.6 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMALKRIHKELNDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPPKVAFT
MALKRI.KEL.DLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPPKVAFT
RetrocopyMALKRINKELSDLARDPPAQCSAGPVGDDMFHWQATIMGPNDSPYQGGVFFLTIHFPTDYPFKPPKVAFT
ParentalTRIYHPNINSNGSICLDILRSQWSPALTISKVLLSICSLLCDPNPDDPLVPEIARIYKTDREKYNRIARE
TRIYHPNINSNGSICLDILRSQWSPALT.SKVLLSICSLLCDPNPDDPLVPEIARIYKTDR.KYNRI.RE
RetrocopyTRIYHPNINSNGSICLDILRSQWSPALTLSKVLLSICSLLCDPNPDDPLVPEIARIYKTDRDKYNRISRE
ParentalWTQKYAM
WTQKYAM
RetrocopyWTQKYAM

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 750 .34 RPM
SRP007412_cerebellum 0 .00 RPM 630 .71 RPM
SRP007412_heart 0 .00 RPM 421 .23 RPM
SRP007412_kidney 0 .00 RPM 525 .42 RPM
SRP007412_liver 0 .00 RPM 377 .62 RPM
SRP007412_testis 0 .00 RPM 370 .87 RPM
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_17 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_17 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 24 parental genes, and 81 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000021831 retrocopy
Ailuropoda melanoleuca ENSAMEG000000112166 retrocopies
Bos taurus ENSBTAG000000041616 retrocopies
Canis familiaris ENSCAFG000000310415 retrocopies
Ciona intestinalis ENSCING000000187112 retrocopies
Ciona savignyi ENSCSAVG000000061361 retrocopy
Erinaceus europaeus ENSEEUG000000146583 retrocopies
Echinops telfairi ENSETEG000000012913 retrocopies
Gorilla gorilla ENSGGOG000000013682 retrocopies
Loxodonta africana ENSLAFG000000068782 retrocopies
Macaca mulatta ENSMMUG000000206663 retrocopies
Monodelphis domestica ENSMODG000000103012 retrocopies
Monodelphis domestica ENSMODG00000011783 2 retrocopies
retro_mdom_17 , retro_mdom_884,
Monodelphis domestica ENSMODG000000176652 retrocopies
Mustela putorius furoENSMPUG000000091105 retrocopies
Mus musculus ENSMUSG000000918963 retrocopies
Ornithorhynchus anatinus ENSOANG000000054151 retrocopy
Oryctolagus cuniculus ENSOCUG0000002944810 retrocopies
Pongo abelii ENSPPYG000000158446 retrocopies
Pan troglodytes ENSPTRG000000173033 retrocopies
Pteropus vampyrus ENSPVAG000000154381 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000134816 retrocopies
Tupaia belangeri ENSTBEG000000002705 retrocopies
Tarsius syrichta ENSTSYG000000054591 retrocopy



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