RetrogeneDB ID:

retro_mmus_3698

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:X:134881873..134882316(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:1110059E24Rik
Ensembl ID:ENSMUSG00000035171
Aliases:None
Description:RIKEN cDNA 1110059E24 gene [Source:MGI Symbol;Acc:MGI:1913456]


Retrocopy-Parental alignment summary:






>retro_mmus_3698
ATGATTTCCCAGAAAGGCAACATGGCTGGCTTGACCAGGTCTCAGAAACACCAGGATATGCTCACCTTCAAAAATGACAC
ATTTGCTAAGAGTGCTTGCACCCCCCAAAACTCAACCAACAGTTCACGATGGACGACCTCAGTGCTGAAAAGATGCTCTT
GAGTGAAGTATAAAGTACAGGAAATACAAAGCACTGTCAAAGCCATAAAAGTATGCTAAATGTTTACAAAAGACAGTGAG
GGGCTCTTACCAAATGTCGTGTGGATCATGTGCCCGTGAGCACGAAGTTTGTGCAAAATGTGGGAGAAAAGATGTCATTA
TTCCACGTATAAATAACCAGAAACATCAGAAAATACCGAAAATCAAGGTTCTAAACCATAAAAGAAAGGAAGACAGCGAT
GAAGACTTAGATGACTCTGAATGGTGAGGATGGAGACACTCAG

ORF - retro_mmus_3698 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 55.97 %
Parental protein coverage: 99.35 %
Number of stop codons detected: 4
Number of frameshifts detected 4


Retrocopy - Parental Gene Alignment:

ParentalMSSQKGNVTR-SRPQKHQNTFTFKNDKFDKSVQTK-KINAKLHDGVCQRCKEVLEWRVKYSKYKPLSKPK
M.SQKGN.....R.QKHQ...TFKND.F.KS..T..K.....HDG..Q..K..LE...KY.KYK.LSKP.
RetrocopyMISQKGNMAGLTRSQKHQDMLTFKNDTFAKSACTP>KTQPTVHDGRPQC*KDALE*SIKYRKYKALSKP*
ParentalKCVKCLQKTVKDSYHIMCRPCACELEVCAKCGKKEEIVIP-FNKEPDAPENTENEGS-GHRRRCGRKEDS
K..KCLQKTV..SY...C..CA.E.EVCAKCG.K....IP...K.P...ENTEN.GS..H.R.....EDS
RetrocopyKYAKCLQKTVRGSYQMSCGSCAREHEVCAKCGRK-DVIIP<TYK*PETSENTENQGS>NHKRK----EDS
ParentalDEDLDAESDSD-GEDGDTQ
DEDLD...DS..GEDGDTQ
RetrocopyDEDLD---DSE>GEDGDTQ

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 13 .64 RPM
SRP007412_cerebellum 0 .00 RPM 15 .46 RPM
SRP007412_heart 0 .00 RPM 5 .45 RPM
SRP007412_kidney 0 .00 RPM 10 .07 RPM
SRP007412_liver 0 .00 RPM 17 .20 RPM
SRP007412_testis 0 .00 RPM 9 .15 RPM
RNA Polymerase II actvity near the 5' end of retro_mmus_3698 was not detected
No EST(s) were mapped for retro_mmus_3698 retrocopy.
No TSS is located nearby retro_mmus_3698 retrocopy 5' end.
retro_mmus_3698 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_3698 has 1 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Rattus norvegicus retro_rnor_2960

Parental genes homology:
Parental genes homology involve 19 parental genes, and 41 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000072541 retrocopy
Bos taurus ENSBTAG000000068311 retrocopy
Canis familiaris ENSCAFG000000018201 retrocopy
Callithrix jacchus ENSCJAG000000014412 retrocopies
Cavia porcellus ENSCPOG000000258482 retrocopies
Felis catus ENSFCAG000000319421 retrocopy
Homo sapiens ENSG000001556212 retrocopies
Myotis lucifugus ENSMLUG000000243092 retrocopies
Macaca mulatta ENSMMUG000000188812 retrocopies
Mustela putorius furoENSMPUG000000089711 retrocopy
Mus musculus ENSMUSG00000035171 6 retrocopies
Nomascus leucogenys ENSNLEG000000010231 retrocopy
Oryctolagus cuniculus ENSOCUG000000245782 retrocopies
Otolemur garnettii ENSOGAG000000113021 retrocopy
Pongo abelii ENSPPYG000000297452 retrocopies
Pan troglodytes ENSPTRG000000210182 retrocopies
Rattus norvegicus ENSRNOG000000271615 retrocopies
Sorex araneus ENSSARG000000045231 retrocopy
Tupaia belangeri ENSTBEG000000155566 retrocopies



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