RetrogeneDB ID:

retro_mmus_3282

Retrocopy
location
Organism:Mouse (Mus musculus)
Coordinates:9:61851703..61852617(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:Gnb2l1
Ensembl ID:ENSMUSG00000020372
Aliases:Gnb2l1, AL033335, GB-like, Gnb2-rs1, Rack1, p205
Description:guanine nucleotide binding protein (G protein), beta polypeptide 2 like 1 [Source:MGI Symbol;Acc:MGI:101849]


Retrocopy-Parental alignment summary:






>retro_mmus_3282
ATGATGGAGCAGATGACCCTTTATGGGATCCTCAAGGACCATAACAGTTGGATAGCACAGATGGACACCACCCCACAGCT
CCCAGATATGATCCTGTTCATGTCTCAAAACAAGGCCATCATCACGGGGAAGCCTTCCAGAGATAAGACCAAGTACCGTA
CACTACACTATGCTCTGCAAGGTCGCTCTTAGTTTGTTAGTGATGTCTCGTCTGATGGTCAGTTTGCTCTCTCAGGCTCC
TGGAATGGAATGCTGTGCTTCTTGGATCTCAAAATAGTCACCACCACAAGACAATTTGTAGGCCATACCAAGGATGCAGC
CTCCTCCTCTGACAACTGGCAGATTGTCTCTGGATCCTGAGACAAGACCATAAAATTTCAGAATACTCTCGGTTCCTACA
AGTACACTGTCTAGAATGAGAGTCGTTCAAAATGAGTGTCTTGTATCCACTTCTCTGAGAACATCAGCCACCCTATCATC
ACCTCCTATGGATGGGACAAGCTAGTCAGGTTGGCCCACTGCAAGCTGAACACCAACCACGTTGGCCACATGGCTATCTA
AAGACAATGATGGTCTCTCCAGATGGGTGCCGCTGTGTGTCTGGAGGCAAGGATGGCCAGGCTATCAATGAAGGCAAGCA
TCTTTATACACTACCAGTTCTCGGGGACATCATCTATGCCTTGTGATTCAGCCCCCAACCTCTATGGCTCTGTGCTGCCA
CTGGCCCCACTATCAAGATCCAGGACTTAGAGGGCAAAACCACAATAGATAGACTGAAGCAAGAGGTTACCAGCACCAGC
AGTAAGGCAGAGCCACCCCACCGTACCCCTCTGCTGTGGTCTGCTGAAGGTCAGACTGTTTGCTGGTGGTACACAGACAA
CCTTGTGTGAGTGTTGCAGGTGACTATTAGCACC

ORF - retro_mmus_3282 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 65.41 %
Parental protein coverage: 99.68 %
Number of stop codons detected: 6
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalMTEQMTLRGTLKGHNGWVTQIATTPQFPDMILSASRDKTIIMWKLTRDETNYGIPQRALRGHSHFVSDVV
M.EQMTL.G.LK.HN.W..Q..TTPQ.PDMIL..S..K.II..K..RD.T.Y.....AL.G.S.FVSDV.
RetrocopyMMEQMTLYGILKDHNSWIAQMDTTPQLPDMILFMSQNKAIITGKPSRDKTKYRTLHYALQGRS*FVSDV-
ParentalISSDGQFALSGSWDGTLRLWDLTTGTTTRRFVGHTKDVLSVAFSSDNRQIVSGSRDKTIKLWNTLGVCKY
.SSDGQFALSGSW.G.L...DL...TTTR.FVGHTKD..S...SSDN.QIVSGS.DKTIK..NTLG..KY
Retrocopy-SSDGQFALSGSWNGMLCFLDLKIVTTTRQFVGHTKDAAS---SSDNWQIVSGS*DKTIKFQNTLGSYKY
ParentalTVQDESHSEWVSCVRFSPNSSNPIIVSCGWDKLVKVWNLANCKLKTNHIGHT-GYLNTVTVSPDGSLCAS
TV..ES.S..VSC..FS.N.S.PII.S.GWDKLV....LA.CKL.TNH.GH..GYL.T..VSPDG..C.S
RetrocopyTV*NESRSK*VSCIHFSENISHPIITSYGWDKLVR---LAHCKLNTNHVGHM<GYLKTMMVSPDGCRCVS
ParentalGGKDGQAMLWDLNEGKHLYTLDG-GDIINALCFSPNRYWLCAATGPSIKIWDLEGKIIVDELKQEVISTS
GGKDGQA.....NEGKHLYTL...GDII.AL.FSP...WLCAATGP.IKI.DLEGK...D.LKQEV.STS
RetrocopyGGKDGQA----INEGKHLYTLPVLGDIIYAL*FSPQPLWLCAATGPTIKIQDLEGKTTIDRLKQEVTSTS
ParentalSKAEPPQCTSLAWSADGQTLFAGYTDNLVRVWQVTIGT
SKAEPP..T.L.WSA.GQT....YTDNLV.V.QVTI.T
RetrocopySKAEPPHRTPLLWSAEGQTVCWWYTDNLV*VLQVTIST

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 .00 RPM 125 .06 RPM
SRP007412_cerebellum 0 .00 RPM 123 .49 RPM
SRP007412_heart 0 .00 RPM 219 .78 RPM
SRP007412_kidney 0 .00 RPM 246 .61 RPM
SRP007412_liver 0 .00 RPM 214 .97 RPM
SRP007412_testis 0 .00 RPM 77 .07 RPM

ChIP-Seq - click to see more details

RNA Polymerase II activity near the 5' end of retro_mmus_3282 was not detected

EST - click to see more details

No EST(s) were mapped for retro_mmus_3282 retrocopy.

TSS - click to see more details

No TSS is located nearby retro_mmus_3282 retrocopy 5' end.

Lab - click to see more details

retro_mmus_3282 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmus_3282 has 0 orthologous retrocopies within eutheria group .

Parental genes homology:
Parental genes homology involve 26 parental genes, and 37 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000120081 retrocopy
retro_acar_185,
Ailuropoda melanoleuca ENSAMEG000000000041 retrocopy
retro_amel_1627,
Bos taurus ENSBTAG000000196481 retrocopy
retro_btau_1461,
Canis familiaris ENSCAFG000000248181 retrocopy
retro_cfam_1824,
Callithrix jacchus ENSCJAG000000187521 retrocopy
retro_cjac_2876,
Cavia porcellus ENSCPOG000000087241 retrocopy
retro_cpor_687,
Dipodomys ordii ENSDORG000000107351 retrocopy
retro_dord_117,
Equus caballus ENSECAG000000225673 retrocopies
retro_ecab_172, retro_ecab_218, retro_ecab_986,
Erinaceus europaeus ENSEEUG000000087291 retrocopy
retro_eeur_368,
Echinops telfairi ENSETEG000000160243 retrocopies
retro_etel_1135, retro_etel_114, retro_etel_2086,
Homo sapiens ENSG000002046281 retrocopy
retro_hsap_3226,
Gorilla gorilla ENSGGOG000000253671 retrocopy
retro_ggor_2194,
Macropus eugenii ENSMEUG000000110553 retrocopies
retro_meug_1095, retro_meug_1109, retro_meug_1532,
Myotis lucifugus ENSMLUG000000155071 retrocopy
retro_mluc_811,
Macaca mulatta ENSMMUG000000036041 retrocopy
retro_mmul_1956,
Monodelphis domestica ENSMODG000000040911 retrocopy
retro_mdom_1426,
Mustela putorius furoENSMPUG000000011482 retrocopies
retro_mputfur_1103, retro_mputfur_1111,
Mus musculus ENSMUSG00000020372 1 retrocopy
retro_mmus_3282 ,
Nomascus leucogenys ENSNLEG000000026041 retrocopy
retro_nleu_729,
Ornithorhynchus anatinus ENSOANG000000026001 retrocopy
retro_oana_127,
Otolemur garnettii ENSOGAG000000149242 retrocopies
retro_ogar_1257, retro_ogar_1591,
Pongo abelii ENSPPYG000000199391 retrocopy
retro_pabe_149,
Pan troglodytes ENSPTRG000000227341 retrocopy
retro_ptro_2178,
Rattus norvegicus ENSRNOG000000023903 retrocopies
retro_rnor_1831, retro_rnor_2130, retro_rnor_895,
Ictidomys tridecemlineatus ENSSTOG000000070631 retrocopy
retro_itri_1752,
Tupaia belangeri ENSTBEG000000146612 retrocopies
retro_tbel_3897, retro_tbel_3899,


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