RetrogeneDB ID:

retro_mdom_148

Retrocopy
location
Organism:Opossum (Monodelphis domestica)
Coordinates:3:227949015..227949333(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMODG00000024858
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSMODG00000001275
Aliases:None
Description:60S ribosomal protein L36 [Source:UniProtKB/TrEMBL;Acc:F7CIW1]


Retrocopy-Parental alignment summary:






>retro_mdom_148
ATGGCCATCCTCTATCCCATGGCCGTGGGCCTTAATAAGGGCCACAAAGTTACCAAGAACGTTTTGAAGCCACGACACTG
CAGCCACTGTGGGCGCTTGACCAAGTACACCAAGTTTGTGAGAGATATGATCCGTGAGGTATGTGGATTTGCTCCTTATG
AGAGACGTGCCATGGAATTGTTAAAGGTCTCCAAGGATAAGCGAGCTCTTAAATTCATCAAAAAAAGGGTAGGAACTCAC
ATCCGGGCCAAGAGGAAGAGAGAGGAGCTCAGAAATGTCCTAGCTGCCATGAGGAAGGCTGCTGCCAAGAAGGACTAA

ORF - retro_mdom_148 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.33 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMAIRYPMAVGLNKGHKVTKNVSKPRHCRRRGRLTKHTKFVRDMIREVCGFAPYERRAMELLKVSKDKRAL
MAI.YPMAVGLNKGHKVTKNV.KPRHC...GRLTK.TKFVRDMIREVCGFAPYERRAMELLKVSKDKRAL
RetrocopyMAILYPMAVGLNKGHKVTKNVLKPRHCSHCGRLTKYTKFVRDMIREVCGFAPYERRAMELLKVSKDKRAL
ParentalKFIKKRVGTHIRAKRKREELSNVLAAMRKAAAKKD
KFIKKRVGTHIRAKRKREEL.NVLAAMRKAAAKKD
RetrocopyKFIKKRVGTHIRAKRKREELRNVLAAMRKAAAKKD

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_148 retrocopy.
Monodelphis domestica was not studied using FANTOM5 data.
retro_mdom_148 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 22 parental genes, and 157 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000123496 retrocopies
Bos taurus ENSBTAG000000017943 retrocopies
Callithrix jacchus ENSCJAG000000170722 retrocopies
Cavia porcellus ENSCPOG000000228393 retrocopies
Dasypus novemcinctus ENSDNOG000000051638 retrocopies
Echinops telfairi ENSETEG0000001294315 retrocopies
Felis catus ENSFCAG000000118385 retrocopies
Homo sapiens ENSG0000013025513 retrocopies
Gorilla gorilla ENSGGOG0000001536511 retrocopies
Latimeria chalumnae ENSLACG000000151611 retrocopy
Macropus eugenii ENSMEUG000000027434 retrocopies
Monodelphis domestica ENSMODG00000001275 2 retrocopies
retro_mdom_1353, retro_mdom_148 ,
Mustela putorius furoENSMPUG000000061666 retrocopies
Mus musculus ENSMUSG000000578639 retrocopies
Nomascus leucogenys ENSNLEG0000001368915 retrocopies
Otolemur garnettii ENSOGAG0000002704912 retrocopies
Pongo abelii ENSPPYG0000000943112 retrocopies
Pan troglodytes ENSPTRG0000001033813 retrocopies
Rattus norvegicus ENSRNOG000000334735 retrocopies
Sarcophilus harrisii ENSSHAG000000134928 retrocopies
Sus scrofa ENSSSCG000000300102 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000205182 retrocopies



Copyright © RetrogeneDB 2014-2017