RetrogeneDB ID:

retro_hsap_433

Retrocopy
location
Organism:Human (Homo sapiens)
Coordinates:1:111390701..111391562(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSG00000237415
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:NRBF2
Ensembl ID:ENSG00000148572
Aliases:NRBF2, COPR1, COPR2, NRBF-2
Description:nuclear receptor binding factor 2 [Source:HGNC Symbol;Acc:19692]


Retrocopy-Parental alignment summary:






>retro_hsap_433
ATGAAAGTAATGGAAGGACCCCTCAACCTGGCTCATTAACAGAGCAGACGAGCAGACCATTTATTAGCTGCAGGCAAATA
CGAAGAGGCTATTTCTTGTCACAAAAAGGCTGCAGTGTATCTTTCTGAAGCCATGAAGCTGACACAGTCTAAGCAGGCTC
ATCTTTCACTGGAATTGCAAATGGATAGCCATATGAAATAGCTCCTCCTCATCCAAGAGAGATGGAAAAGGGCCCAGCGT
GAAGAAAGATTGAAAGCCCAGCAGAACACAGACAAGGATGTAGCTGCCCATTTTCAGGCATCTCACAAACCCTCTGCAGA
GGATGCAGAGGGCCAGAGTCCCCTTTCTCAGAAGTACAGCCCTTCCACAGAGAAATGCCTGCCTGAGATTCAGGGGATCT
TTGACAGGGATCCAGACACACTACTTTATTTACTTCAGCAAAAGAGTGAGCCAGAAGAGCCATGTATTGGAAGCAAAGCC
CCCAAAGATGATAAAACAATTATAGAGGAGCAGGCAACCAAAATTGCAGATTTGAAGAGGCATGTGGAATTCCTTGTGGC
TGAGAATAAAAGATTAAGGAAAGAAAATAAACAACTGAAGGCTGAAAAGGCCAGACTTCTAAAAGGTCCAATAGAAAAGG
AGCTGGATGTAGATGCTGATTTTGTAGAAACGTCAGAGTTATGGAGCTTGCCACCACATTCAGAAACTGCTACAGCCTCC
TCAACCTGGAAGAAGTTTGCAGCAAACACCGGGAAAGCCAAGGACATTCCAATCCCCAATCTTCCTCCCTTGGATTTTCC
ATCTCCAGAACTTCCTCTTATGGAGCTCTCTGAGGATATTCTGAAAGGATTTATGAATAAT

ORF - retro_hsap_433 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 95.12 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMEVMEGPLNLAHQQSRRADRLLAAGKYEEAISCHKKAAAYLSEAMKLTQSEQAHLSLELQRDSHMKQLLL
M.VMEGPLNLAH.QSRRAD.LLAAGKYEEAISCHKKAA.YLSEAMKLTQS.QAHLSLELQ.DSHMK.LLL
RetrocopyMKVMEGPLNLAH*QSRRADHLLAAGKYEEAISCHKKAAVYLSEAMKLTQSKQAHLSLELQMDSHMK*LLL
ParentalIQERWKRAQREERLKAQQNTDKDAAAHLQTSHKPSAEDAEGQSPLSQKYSPSTEKCLPEIQGIFDRDPDT
IQERWKRAQREERLKAQQNTDKD.AAH.Q.SHKPSAEDAEGQSPLSQKYSPSTEKCLPEIQGIFDRDPDT
RetrocopyIQERWKRAQREERLKAQQNTDKDVAAHFQASHKPSAEDAEGQSPLSQKYSPSTEKCLPEIQGIFDRDPDT
ParentalLLYLLQQKSEPAEPCIGSKAPKDDKTIIEEQATKIADLKRHVEFLVAENERLRKENKQLKAEKARLLKGP
LLYLLQQKSEP.EPCIGSKAPKDDKTIIEEQATKIADLKRHVEFLVAEN.RLRKENKQLKAEKARLLKGP
RetrocopyLLYLLQQKSEPEEPCIGSKAPKDDKTIIEEQATKIADLKRHVEFLVAENKRLRKENKQLKAEKARLLKGP
ParentalIEKELDVDADFVETSELWSLPPHAETATASSTWQKFAANTGKAKDIPIPNLPPLDFPSPELPLMELSEDI
IEKELDVDADFVETSELWSLPPH.ETATASSTW.KFAANTGKAKDIPIPNLPPLDFPSPELPLMELSEDI
RetrocopyIEKELDVDADFVETSELWSLPPHSETATASSTWKKFAANTGKAKDIPIPNLPPLDFPSPELPLMELSEDI
ParentalLKGFMNN
LKGFMNN
RetrocopyLKGFMNN

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
bodymap2_adipose 0 .06 RPM 22 .12 RPM
bodymap2_adrenal 0 .00 RPM 16 .76 RPM
bodymap2_brain 0 .02 RPM 19 .41 RPM
bodymap2_breast 0 .02 RPM 22 .22 RPM
bodymap2_colon 0 .00 RPM 15 .00 RPM
bodymap2_heart 0 .00 RPM 7 .40 RPM
bodymap2_kidney 0 .00 RPM 13 .69 RPM
bodymap2_liver 0 .00 RPM 29 .85 RPM
bodymap2_lung 0 .00 RPM 19 .73 RPM
bodymap2_lymph_node 0 .00 RPM 25 .67 RPM
bodymap2_ovary 0 .08 RPM 17 .10 RPM
bodymap2_prostate 0 .00 RPM 18 .22 RPM
bodymap2_skeletal_muscle 0 .00 RPM 24 .03 RPM
bodymap2_testis 0 .00 RPM 21 .79 RPM
bodymap2_thyroid 0 .00 RPM 17 .04 RPM
bodymap2_white_blood_cells 0 .00 RPM 83 .63 RPM

ChIP-Seq - click to see more details

RNA Polymerase II actvity near the 5' end of retro_hsap_433 was not detected