RetrogeneDB ID:

retro_mdom_639

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:1:622739602..622739971(-)
Located in intron of:ENSMODG00000003614
Retrocopy
information
Ensembl ID:ENSMODG00000003621
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000028750
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mdom_639
GTAAAGATGGCTAAGTCTAAGAACCACACCACCCACAACCAATCACGAAAATGGCACAGAAATGCCATCAAGAAACCTAG
GTCACAGAGATATGAGTCTCTGAAAGGGGTTGACCCCAAGTTTCTGAGAAACATGTGCTTTGCCAAGAAACATAACAAGA
AGGGACTGAAGAAGATGCAGGCCAACAACGTCAAAGCCATCAAGGCCCGAGCAGAGGCGATCAAGGCTCTGAGCACCAAG
GCCTCCAAGGCCAAGCTCCTCAGGCCAAAGATCTCCAAGGCCAATGCCCGGCGTGCTGGCCATAAGATGGCCACCAAGCG
TCCAGGCCCAAGGGTTGGCATCAAACATCCAGGCTCCAAGATCACAAAG

ORF - retro_mdom_639 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 96.75 %
Parental protein coverage: 80.39 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalVKMAKSKNHTTHNQSRKWHRNGIKKPRSQRYESLKGVDPKFLRNMRFAKKHNKKGLKKMQANNAKAIKAR
VKMAKSKNHTTHNQSRKWHRN.IKKPRSQRYESLKGVDPKFLRNM.FAKKHNKKGLKKMQANN.KAIKAR
RetrocopyVKMAKSKNHTTHNQSRKWHRNAIKKPRSQRYESLKGVDPKFLRNMCFAKKHNKKGLKKMQANNVKAIKAR
ParentalAEAIKALSTKASKAKLLRPKISKANARRAGHKMATKRPGPRVGIKRPGSKITK
AEAIKALSTKASKAKLLRPKISKANARRAGHKMATKRPGPRVGIK.PGSKITK
RetrocopyAEAIKALSTKASKAKLLRPKISKANARRAGHKMATKRPGPRVGIKHPGSKITK

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 3 .93 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 11 .20 RPM 0 .00 RPM
Monodelphis domestica was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_mdom_639 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_639 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 27 parental genes, and 247 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000091636 retrocopies
Bos taurus ENSBTAG000000186281 retrocopy
Callithrix jacchus ENSCJAG000000059519 retrocopies
Cavia porcellus ENSCPOG000000117381 retrocopy
Dasypus novemcinctus ENSDNOG000000002097 retrocopies
Equus caballus ENSECAG000000073972 retrocopies
Felis catus ENSFCAG000000017629 retrocopies
Homo sapiens ENSG0000016224423 retrocopies
Gorilla gorilla ENSGGOG0000002469116 retrocopies
Loxodonta africana ENSLAFG000000057575 retrocopies
Microcebus murinus ENSMICG000000027059 retrocopies
Myotis lucifugus ENSMLUG0000001508814 retrocopies
Macaca mulatta ENSMMUG000000192482 retrocopies
Monodelphis domestica ENSMODG00000028750 17 retrocopies
Mustela putorius furoENSMPUG000000117346 retrocopies
Mus musculus ENSMUSG000000487583 retrocopies
Otolemur garnettii ENSOGAG000000137662 retrocopies
Ochotona princeps ENSOPRG0000000882110 retrocopies
Procavia capensis ENSPCAG000000097124 retrocopies
Pongo abelii ENSPPYG0000001381821 retrocopies
Rattus norvegicus ENSRNOG0000001113815 retrocopies
Sorex araneus ENSSARG000000135728 retrocopies
Sarcophilus harrisii ENSSHAG000000068542 retrocopies
Sus scrofa ENSSSCG000000275737 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000002048814 retrocopies
Tursiops truncatus ENSTTRG000000035145 retrocopies
Vicugna pacos ENSVPAG0000000128229 retrocopies



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