RetrogeneDB ID:

retro_mmus_2466

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:4:59368305..59368864(-)
Located in intron of:ENSMUSG00000038578
Retrocopy
information
Ensembl ID:ENSMUSG00000083979
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:Zmynd19
Ensembl ID:ENSMUSG00000026974
Aliases:None
Description:zinc finger, MYND domain containing 19 [Source:MGI Symbol;Acc:MGI:1914437]


Retrocopy-Parental alignment summary:






>retro_mmus_2466
GCCCGAATGGAAGTAGATGCTGATGGAAATGGTGCTAAGATATTTGCATATGCCTTTGACAAAAACCGAGGAAAGGGCTC
AGGCAGGCTTCTGCATGAGCTGCTGTGGGACTGGCACAGGGGAGGTGTGGCTCCCGGGTTTCAGGTGGTTTATCTCAATG
CTGTGACTGTGGACAATCACTTGGACAACCTGCCGCTGGTACCATGGGGCTGGCGACCCAAAGCTGAAGAGACCTCCAGC
AAAAAGCTTATACTGGCTTGCAATCCAGCAGCTTCCCACAGACCCTATAGAAGAACATTTCCCTGTCTTGAATGTGACCC
AGTACTATAATGCCAATGGGGATGTGGTGGAAGAGGAAGAAAATTCCTGTACCTACTATGAATGTCATTCTCCTCCTTGT
ATGGTGATTGAAAAGCAGCTTTGAGAGTTCAACATCTGTGGGGGTTGCCCGGTGGCTTGATACTGTGGCTTTCAGTGCCA
GCAGAAGGACCGGCCTGGCCACAAGAAGCACTGTCGGGAGAGGAAGTGTCCCTTCCAGCACAAGCTTGAGCCAGAACGA

ORF - retro_mmus_2466 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 84.29 %
Parental protein coverage: 83.7 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalARMEVDADGNGAKIFAYAFDKNRGRGSGRLLHELLWERHRGGVAPGFQVVHLNAVTVDNRLDNLQLVPWG
ARMEVDADGNGAKIFAYAFDKNRG.GSGRLLHELLW..HRGGVAPGFQVV.LNAVTVDN.LDNL.LVPWG
RetrocopyARMEVDADGNGAKIFAYAFDKNRGKGSGRLLHELLWDWHRGGVAPGFQVVYLNAVTVDNHLDNLPLVPWG
ParentalWR-PKAEETSSKQREQSLYWLAIQQLPTDPIEEQFPVLNVTRYYNANGDVVEEEENSCTYYECHYPPCTV
WR.PK......K....SLYWLAIQQLPTDPIEE.FPVLNVT.YYNANGDVVEEEENSCTYYECH.PPC.V
RetrocopyWR>PKLKRPPAK----SLYWLAIQQLPTDPIEEHFPVLNVTQYYNANGDVVEEEENSCTYYECHSPPCMV
ParentalIEKQLREFNICGRCQVARYCGSQCQQKDWPAHKKHCRERKRPFQHELEPER
IEKQL.EFNICG.C.VA.YCG.QCQQKD.P.HKKHCRERK.PFQH.LEPER
RetrocopyIEKQL*EFNICGGCPVA*YCGFQCQQKDRPGHKKHCRERKCPFQHKLEPER

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 21 .56 RPM
SRP007412_cerebellum 0 .00 RPM 20 .10 RPM
SRP007412_heart 0 .03 RPM 12 .79 RPM
SRP007412_kidney 0 .04 RPM 10 .30 RPM
SRP007412_liver 0 .00 RPM 11 .41 RPM
SRP007412_testis 0 .00 RPM 44 .37 RPM
RNA Polymerase II actvity near the 5' end of retro_mmus_2466 was not detected
No EST(s) were mapped for retro_mmus_2466 retrocopy.
No TSS is located nearby retro_mmus_2466 retrocopy 5' end.
retro_mmus_2466 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_2466 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 12 parental genes, and 15 retrocopies.

Species Parental gene accession Retrocopies number
Dasypus novemcinctus ENSDNOG000000066442 retrocopies
Dipodomys ordii ENSDORG000000083601 retrocopy
Equus caballus ENSECAG000000124121 retrocopy
Echinops telfairi ENSETEG000000050231 retrocopy
Homo sapiens ENSG000001657241 retrocopy
Gorilla gorilla ENSGGOG000000068751 retrocopy
Macropus eugenii ENSMEUG000000117271 retrocopy
Macaca mulatta ENSMMUG000000196101 retrocopy
Monodelphis domestica ENSMODG000000171721 retrocopy
Mus musculus ENSMUSG00000026974 3 retrocopies
retro_mmus_1433, retro_mmus_2466 , retro_mmus_942,
Nomascus leucogenys ENSNLEG000000092361 retrocopy
Tursiops truncatus ENSTTRG000000108121 retrocopy



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