RetrogeneDB ID:

retro_mmus_963

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:12:88353312..88354029(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Cables2
Ensembl ID:ENSMUSG00000038990
Aliases:Cables2, ik3-2
Description:CDK5 and Abl enzyme substrate 2 [Source:MGI Symbol;Acc:MGI:2182335]


Retrocopy-Parental alignment summary:






>retro_mmus_963
GTGTCTTATGCAAAGTTCCTGTACCCTACTAACGCTCTGGTTATACACAAGAATGACAGCCATGGCTTGCTGCCCCAGCC
TCGGCCCAGCATCCCCAGGGCTCCACCAGGTTCAAGACACAAACCTGTGCCTACCAAGTCAACACCAGCTGCCACAGAAC
TAGGAAGCGATGGGGGAGATGCAGTGGAATACAATCCCAACCTCCTGGACGACCCACAGTGGCCGTGTGGAAAACATAAG
CATATACTCATCTTGACTTCATACATGACCACCGTTATAGAGTATGTGAAACCTGCAGACCTCAAGAAGGATATGAACGA
GACCTTCAGGGAGAAGTTCCCTCATATCAAACTGACATTGAGCAAAATTAGGAGTTTAAAACGGGAGATGCGGAACCTTT
CTGAAGAGTGCAGCTTGGAGCCTGTGACCGTGTCCGTGGCATATGTGTACTTTGAGAAGCTCGTACTGCAGGGCAAGCTC
AACAAACAGAACCGCAAACTGTGTGCTGGAGCCTGTGTTCTGTTGGCTGCCAAGATCAGCAGTGACCTCCGCAAGACTGA
AGTGAAGCAGCTTATTGACAAGCTGGAGGAAAGGTTCCGGTTCAACAGGAAAGACCTCATTGGCTTTGAGTTCACGGTGC
TCGTGGCTTTGGAACTGGCCCTGTACCTCTCCGAGAACCAAGAGTTACCTCACTACAGACGCCTCACCCAGCAGTTC

ORF - retro_mmus_963 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 96.23 %
Parental protein coverage: 50.21 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalVSYAKFLYPTNALVIHKNDSHGLLPQPRPSIPRAPPGSRHKPVPTKSTPAGTELGSDGGDAVEYNPNLLD
VSYAKFLYPTNALVIHKNDSHGLLPQPRPSIPRAPPGSRHKPVPTKSTPA.TELGSDGGDAVEYNPNLLD
RetrocopyVSYAKFLYPTNALVIHKNDSHGLLPQPRPSIPRAPPGSRHKPVPTKSTPAATELGSDGGDAVEYNPNLLD
ParentalDPQWPCGKHKRVLIFASYMTTVIEYVKPADLKKDMNETFREKFPHIKLTLSKIRSLKREMRNLSEECSLE
DPQWPCGKHK..LI..SYMTTVIEYVKPADLKKDMNETFREKFPHIKLTLSKIRSLKREMRNLSEECSLE
RetrocopyDPQWPCGKHKHILILTSYMTTVIEYVKPADLKKDMNETFREKFPHIKLTLSKIRSLKREMRNLSEECSLE
ParentalPVTVSMAYVYFEKLVLQGKLNKQNRKLCAGACVLLAAKISSDLRKSEVKQLIDKLEERFRFNRKDLIGFE
PVTVS.AYVYFEKLVLQGKLNKQNRKLCAGACVLLAAKISSDLRK.EVKQLIDKLEERFRFNRKDLIGFE
RetrocopyPVTVSVAYVYFEKLVLQGKLNKQNRKLCAGACVLLAAKISSDLRKTEVKQLIDKLEERFRFNRKDLIGFE
ParentalFTVLVALELALYLPENQVLPHYRRLTQQF
FTVLVALELALYL.ENQ.LPHYRRLTQQF
RetrocopyFTVLVALELALYLSENQELPHYRRLTQQF

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

(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 .05 RPM 32 .26 RPM
SRP007412_cerebellum 0 .30 RPM 38 .17 RPM
SRP007412_heart 0 .09 RPM 15 .38 RPM
SRP007412_kidney 0 .06 RPM 12 .92 RPM
SRP007412_liver 0 .08 RPM 26 .63 RPM
SRP007412_testis 0 .18 RPM 19 .90 RPM

ChIP-Seq - click to see more details

RNA Polymerase II actvity near the 5' end of retro_mmus_963 was not detected

EST - click to see more details

No EST(s) were mapped for retro_mmus_963 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_mmus_963 retrocopy 5' end.

Lab - click to see more details

retro_mmus_963 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_963 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Mus musculus ENSMUSG00000038990 1 retrocopy
retro_mmus_963 ,


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