RetrogeneDB ID:

retro_btau_1632

Retrocopy
location
Organism:Cow (Bos taurus)
Coordinates:8:2286806..2288759(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:BT.24470
Ensembl ID:ENSBTAG00000021677
Aliases:None
Description:E3 ubiquitin-protein ligase TRIM37 [Source:RefSeq peptide;Acc:NP_001103652]


Retrocopy-Parental alignment summary:






>retro_btau_1632
ATGGATGAACAGAGTGTGGAGAGCATTGCTGAGGTGTTCCGATGCTTCATTTGCATGGAGAAACTGCGGGATGCGCGCTT
GTGTCCTCATTGCTCCAAGCTCTGTTGTCTCAGCTGTATTAGGCGCTGGCTGACAGAGCAAAGAGCCCAGTGTCCTCATT
GCCGTGCTCCACTCCAGTTACGAGAACTAGTAAACTGTCGTTGGGCAGAAGAAGTAACACAGCAACTTGATACTCTTCAA
CTCTGCAGTCTCACCAAACATGAAGAAAATGAAAAGGACAAGTGTGAAAATCACCATGAAAAACTTAGTGTATTTTGCTG
GACTTGTAAGAAGTGTATCTGCCACCAGTGTGCGCTTTAGGGAGGAATGCATAGCAGACATACCTTTAAACCTTTGGCGG
AAATTTATGAGCAGCATGTTACTAAAGTGAACGAAAAAGTAGACAAACTTCGTCGACGTCTCATGGAACTGATCAGCTTA
GTTCAAGAAGTGGAAAGAAATGTAGAAGCTGTTAGAAATGCAAAAGATGAGCGTGTTCGGGAAATTAGAAATGCAGTGGA
GATGATGATTGCACGATTAGACACACAGCTGAAGAATAAGCTAATAACACTGATGGGTCAGAAGACATCTTTGACACAAG
AAACAGAACTGTTGGAATCCTTAGTTCAGGAAGTAGAGCATCAGTTGCGGTCTTGTAGTAAGAGTGAGTTGATATCTAAG
AGCTCAGAGATCCTCATGATGTTTCAACAAGTTCATCGAAAGCCTATGGCATCCTTTGTTACCACTCCTGTTCCACCAGA
CTTTACGAGTGAATTGGTACCATCTTATGATTCAGCTACTTTTGTTTTAGAGAATTTCAGTACTTTGCGACGGAGAGCAG
ATCCTGTTTACAGTCCGCCTCTTCAAGTTTCAGGACTTTGTTGGAGGTTAAAAGTTTACCCAGATGGAAATGGAGTTGTT
CGTGGTTACTACTTATCTGTGTTTCTGGAACTTTCAGCTGGCTTGCCAGAAACTTCCAAATATGAATATCGTGTAGAGAT
GGTTCATCAATCCTGCAATGATCCTACCAAAAATATCATTCGAGAATTTGCATCTGACTTTGAAGTTGGAGAATGCTGGG
GTTATAATAGATTTTTCCGTTTGGACTTACTTGCAAATGAAGGATACTTGAATCGACAGAATGATACAGTGATTTTAAGG
TTTCAGGTTCGTTCACCAACTTTCTTTCAAAAATGCCGGGACCAGCATTGGTATATCACTCAATTGGAAGCTGCACAAAC
TAGCTATATCCAACAGATAAATAACCTTAAAGAGAGACTTACTATTGAGTTGTCTCGAACTCAGAAATCAAGAGATTTGT
CACCACCAGATAATCATCTTAGCCCCCAAAATGATGACACTCCTGAGACACGAGCTAAGAAGTCTGGATCATGCGCTAAC
GTGCTTCTCCAGGATGGTCCTACCACAGCTTCTGTACGAGAGGTCAAGGAGGATGAAGAAGATGAGGAGAAGATTCAGAA
TGAAGATTGTCATCATGAGCTTTCCGATGGAGACCTGGACCTGGATCTCGTTGGGGAAGATGAAGCGAATCAGCTCGATG
GCAGCAGCTCTTCTGCCAGTTCCACAGCCACAAGCAACACTGAAGAGAATGACATTGACGAGGAGACGATGTCTGGAGAG
AATGATGTGGAATACAACAACATGGAATTGGAAGAGGGAGAACTCATGGAAGATGCAGCTGCAGCAGGACCTCCAGGTGG
TAACCATGGCTATGTGGGTGCCAGTAGCAGAATGTCAAGAAGAGCACACTTGTGCTCTGCTGCTACCAGTAGTTTATTAG
ACATCGATCCTTTAATTTTAATACATCTCTTGGACCTTAAGGACCGGAGCAGTATGGAAAATTTGTGGGGCTTACAGCCT
CGGCCCCCTGCTTCACTTCAGCCCACAGCCACA

ORF - retro_btau_1632 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 98.62 %
Parental protein coverage: 67.74 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMDEQSVESIAEVFRCFICMEKLRDARLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWAE
MDEQSVESIAEVFRCFICMEKLRDARLCPHCSKLCC.SCIRRWLTEQRAQCPHCRAPLQLRELVNCRWAE
RetrocopyMDEQSVESIAEVFRCFICMEKLRDARLCPHCSKLCCLSCIRRWLTEQRAQCPHCRAPLQLRELVNCRWAE
ParentalEVTQQLDTLQLCSLTKHEENEKDKCENHHEKLSVFCWTCKKCICHQCALWGGMHSGHTFKPLAEIYEQHV
EVTQQLDTLQLCSLTKHEENEKDKCENHHEKLSVFCWTCKKCICHQCAL.GGMHS.HTFKPLAEIYEQHV
RetrocopyEVTQQLDTLQLCSLTKHEENEKDKCENHHEKLSVFCWTCKKCICHQCAL*GGMHSRHTFKPLAEIYEQHV
ParentalTKVNEEVAKLRRRLMELISLVQEVERNVEAVRNAKDERVREIRNAVEMMIARLDTQLKNKLITLMGQKTS
TKVNE.V.KLRRRLMELISLVQEVERNVEAVRNAKDERVREIRNAVEMMIARLDTQLKNKLITLMGQKTS
RetrocopyTKVNEKVDKLRRRLMELISLVQEVERNVEAVRNAKDERVREIRNAVEMMIARLDTQLKNKLITLMGQKTS
ParentalLTQETELLESLVQEVEHQLRSCSKSELISKSSEILMMFQQVHRKPMASFVTTPVPPDFTSELVPSYDSAT
LTQETELLESLVQEVEHQLRSCSKSELISKSSEILMMFQQVHRKPMASFVTTPVPPDFTSELVPSYDSAT
RetrocopyLTQETELLESLVQEVEHQLRSCSKSELISKSSEILMMFQQVHRKPMASFVTTPVPPDFTSELVPSYDSAT
ParentalFVLENFSTLRQRADPVYSPPLQVSGLCWRLKVYPDGNGVVRGYYLSVFLELSAGLPETSKYEYRVEMVHQ
FVLENFSTLR.RADPVYSPPLQVSGLCWRLKVYPDGNGVVRGYYLSVFLELSAGLPETSKYEYRVEMVHQ
RetrocopyFVLENFSTLRRRADPVYSPPLQVSGLCWRLKVYPDGNGVVRGYYLSVFLELSAGLPETSKYEYRVEMVHQ
ParentalSCNDPTKNIIREFASDFEVGECWGYNRFFRLDLLANEGYLNRQNDTVILRFQVRSPTFFQKCRDQHWYIT
SCNDPTKNIIREFASDFEVGECWGYNRFFRLDLLANEGYLNRQNDTVILRFQVRSPTFFQKCRDQHWYIT
RetrocopySCNDPTKNIIREFASDFEVGECWGYNRFFRLDLLANEGYLNRQNDTVILRFQVRSPTFFQKCRDQHWYIT
ParentalQLEAAQTSYIQQINNLKERLTIELSRTQKSRDLSPPDNHLSPQNDDTPETRAKKSGSCADVLLQDGPTTA
QLEAAQTSYIQQINNLKERLTIELSRTQKSRDLSPPDNHLSPQNDDTPETRAKKSGSCA.VLLQDGPTTA
RetrocopyQLEAAQTSYIQQINNLKERLTIELSRTQKSRDLSPPDNHLSPQNDDTPETRAKKSGSCANVLLQDGPTTA
ParentalSVREVKEDEEDEEKIQNEDYHHELSDGDLDLDLVGEDEANQLDGSSSSASSTATSNTEENDIDEETMSGE
SVREVKEDEEDEEKIQNED.HHELSDGDLDLDLVGEDEANQLDGSSSSASSTATSNTEENDIDEETMSGE
RetrocopySVREVKEDEEDEEKIQNEDCHHELSDGDLDLDLVGEDEANQLDGSSSSASSTATSNTEENDIDEETMSGE
ParentalNDVEYNNMELEEGELMEDAAAAGPPGGNHGYVGASSRMSRRAHLCSAATSSLLDIDPLILIHLLDLKDRS
NDVEYNNMELEEGELMEDAAAAGPPGGNHGYVGASSRMSRRAHLCSAATSSLLDIDPLILIHLLDLKDRS
RetrocopyNDVEYNNMELEEGELMEDAAAAGPPGGNHGYVGASSRMSRRAHLCSAATSSLLDIDPLILIHLLDLKDRS
ParentalSMENLWGLQPRPPASLQPTAS
SMENLWGLQPRPPASLQPTA.
RetrocopySMENLWGLQPRPPASLQPTAT

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
ERP005899_liver 0 .00 RPM 3 .10 RPM
ERP005899_muscle 0 .00 RPM 11 .67 RPM
SRP017611_brain 0 .87 RPM 45 .36 RPM
SRP017611_kidney 0 .41 RPM 9 .78 RPM
SRP017611_liver 0 .15 RPM 2 .64 RPM
SRP030211_testis 0 .72 RPM 201 .23 RPM

ChIP-Seq - click to see more details

Bos taurus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_btau_1632 retrocopy.

TSS - click to see more details

Bos taurus was not studied using FANTOM5 data.

Lab - click to see more details

retro_btau_1632 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_btau_1632 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
Bos taurus ENSBTAG00000021677 1 retrocopy
retro_btau_1632 ,


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