RetrogeneDB ID:

retro_mmus_1688

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:18:8679050..8679292(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Rps21
Ensembl ID:ENSMUSG00000039001
Aliases:Rps21, 1810049N11Rik, 2410030A14Rik
Description:ribosomal protein S21 [Source:MGI Symbol;Acc:MGI:1913731]


Retrocopy-Parental alignment summary:






>retro_mmus_1688
ATGCAGAATGAGGCCAGCAAGTTTGTGGACCTGTAGTTGCCTCGGCATTGCTCTGGGAGCAACCACATCATTGCTGCCAA
GGACCACACGTCCATCCAGATGAATGTGGCCAAGGTTAACGGGGGCACAGGCTGGTTTAATAGCCAGTTTTAATCCTACG
GCATCTGTGGATTTGCAGGATAGATGAGTCAGATGATTCTGTTCTCCTATTGGCTAAGGCTGATGGAGTTGTCTCAAAGA
AC

ORF - retro_mmus_1688 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.86 %
Parental protein coverage: 98.8 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMQNDAGEFVDLYVPRKCSASNRIIAAKDHASIQMNVAEVDRTTGRFNGQFKTYGICGAIRRMGE-SDDSI
MQN.A..FVDL..PR.CS.SN.IIAAKDH.SIQMNVA.V...TG.FN.QF..YGICG....M....D...
RetrocopyMQNEASKFVDL*LPRHCSGSNHIIAAKDHTSIQMNVAKVNGGTGWFNSQF*SYGICGFAG*MSQ<DDSVL
ParentalLRLAKADGIVSKN
L.LAKADG.VSKN
RetrocopyL-LAKADGVVSKN

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 91 .23 RPM
SRP007412_cerebellum 0 .00 RPM 56 .40 RPM
SRP007412_heart 0 .00 RPM 82 .68 RPM
SRP007412_kidney 0 .00 RPM 73 .67 RPM
SRP007412_liver 0 .00 RPM 64 .53 RPM
SRP007412_testis 0 .00 RPM 35 .77 RPM
RNA Polymerase II actvity near the 5' end of retro_mmus_1688 was not detected
No EST(s) were mapped for retro_mmus_1688 retrocopy.
No TSS is located nearby retro_mmus_1688 retrocopy 5' end.
retro_mmus_1688 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_1688 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 16 parental genes, and 70 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000173992 retrocopies
Bos taurus ENSBTAG000000207952 retrocopies
Canis familiaris ENSCAFG000000126764 retrocopies
Callithrix jacchus ENSCJAG000000141955 retrocopies
Homo sapiens ENSG000001718586 retrocopies
Gorilla gorilla ENSGGOG000000237457 retrocopies
Latimeria chalumnae ENSLACG000000127531 retrocopy
Monodelphis domestica ENSMODG000000167691 retrocopy
Mus musculus ENSMUSG00000039001 11 retrocopies
Ornithorhynchus anatinus ENSOANG000000033612 retrocopies
Otolemur garnettii ENSOGAG0000001667312 retrocopies
Pongo abelii ENSPPYG000000112058 retrocopies
Pan troglodytes ENSPTRG000000137081 retrocopy
Rattus norvegicus ENSRNOG000000063252 retrocopies
Sus scrofa ENSSSCG000000218251 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000010295 retrocopies



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