RetrogeneDB ID:

retro_mdom_1720

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:7:72132909..72133150(+)
Located in intron of:ENSMODG00000025156
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL31
Ensembl ID:ENSMODG00000001704
Aliases:None
Description:ribosomal protein L31 [Source:HGNC Symbol;Acc:10334]


Retrocopy-Parental alignment summary:






>retro_mdom_1720
GCCATCGACGGAGTGGTACCCAAACAATATATTATCAACATTCACTTCAGATCCATGAAGTGGCCTTCAACCAGAGTGTT
CCTGAGGTTTAAAGGAAACCCCTAAATTTCTCATGAAAGAAATGGGAACTTCAGAAATGTTTATTGACACCCATTGTAAT
AAAGCTGTCTGAGCCAAAGGAATAAGGAATGCCTCTTATCATATCTGGGTGCATTTGTTTGAGAAACATAATAAAGATGA
A

ORF - retro_mdom_1720 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 56.63 %
Parental protein coverage: 64.8 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalAINEVVTREYTINIHKR-IHGVGFKKRAPRA-LKEIRKFAMKEMGTPDVRIDTRLNKAVWAKGIRNVPYR
AI..VV...Y.INIH.R.IH.V.F....P...LKE..KF.MKEMGT....IDT..NKAV.AKGIRN..Y.
RetrocopyAIDGVVPKQYIINIHFR<IHEVAFNQSVPEV<LKETPKFLMKEMGTSEMFIDTHCNKAV*AKGIRNASYH
ParentalIRVRLSRKRNEDE
I.V.L..K.N.DE
RetrocopyIWVHLFEKHNKDE

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_1720 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_1720 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 21 parental genes, and 167 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000079141 retrocopy
Ailuropoda melanoleuca ENSAMEG000000156472 retrocopies
Bos taurus ENSBTAG000000197019 retrocopies
Felis catus ENSFCAG0000002643013 retrocopies
Gorilla gorilla ENSGGOG0000000643224 retrocopies
Latimeria chalumnae ENSLACG000000136031 retrocopy
Loxodonta africana ENSLAFG0000002787312 retrocopies
Microcebus murinus ENSMICG0000001605915 retrocopies
Myotis lucifugus ENSMLUG0000000250721 retrocopies
Macaca mulatta ENSMMUG000000098731 retrocopy
Monodelphis domestica ENSMODG00000001704 5 retrocopies
Mustela putorius furoENSMPUG000000121972 retrocopies
Nomascus leucogenys ENSNLEG000000144442 retrocopies
Oryctolagus cuniculus ENSOCUG000000023929 retrocopies
Otolemur garnettii ENSOGAG0000001449410 retrocopies
Pongo abelii ENSPPYG000000258704 retrocopies
Rattus norvegicus ENSRNOG000000135088 retrocopies
Sarcophilus harrisii ENSSHAG000000117063 retrocopies
Sus scrofa ENSSSCG000000081704 retrocopies
Sus scrofa ENSSSCG000000251806 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000001090215 retrocopies



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