RetrogeneDB ID:

retro_btau_41

Retrocopy
location
Organism:Cow (Bos taurus)
Coordinates:7:41404241..41406959(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSBTAG00000039711
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSBTAG00000040411
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_btau_41
GTGTCACATTTGAAGACGAGGGGCACTGAGGATGAGGAATCAACTGAAAAGTATGAAAATATTCGAAATGCAGAATCTGT
GTGGCCAAAAGTGGAAGGTCTTCACAAGGATCATATGCAGGAGTCTAAGGTTGGTGAAACTTGTGATTGGGATAGCAAGG
TAGAAAATCAGATGGACAAGCCTGAGGGAAAAAGAATGAAGGAAGACAAAAGTGGCTTCAGGGAAAAGATTGGCAAAGCC
AGGAATACAGCAAATATAAAGACAGAACAGGAAGATGAGGCATCTGAGAAAAGCTTACATCTGAGCTCAAAATATGTTAC
ACACCAGACTGTCCCTATAGAACAGAAAAACAGTGAACAAGTCAAATGTGTGGAGAGCATTAATGGAAACTCTCATCCCA
GTCTACAGCAAAAAGCCAGTGCTGTTAAGAAATCACATAAATGTGATGACTGTGGGAAATCCTTCAAATATAATTCCCGA
CTTATTCAACATAAAATTATGCACACTGGTGAAAAACGCTATGAGTGCGATGACTGTGGAGGGACTTTCCGGAGCAGCTC
AAGCCTTCGAGTCCACAAGAGGATCCATACTGGGGAGAAGCCGTACAAGTGTGAGGAATGTGGGAAAGCCTACATGTCTT
ATTCCAGCCTTATAAACCACAAAAGCACCCATTCTGGAGAAAAGAACTGTAAGTGTGATGAGTGTGGAAAATCCTTCAAT
TATAGCTCAGTTTTGGATCAGCATAAGAGAATTCACACTGGGGAGAAGCCCTATGAGTGTGGTGAGTGTGGGAAAGCCTT
CAGGAACAGCTCTGGCCTTAGAGTCCACAAAAGGATCCACACAGGTGAGAAGCCCTATGAATGTGACATCTGTGGGAAAA
CCTTCAGTAATAGCTCTGGCCTTAGAGTCCACAAAAGGATTCATACAGGGGAGAAACCCTATGAATGTGATGAGTGTGGG
AAGGCCTTCATTACCTGCAGAACACTTCTAAATCATAAAAGCATCCACTTTGGAGATAAACCTTATAAATGTGATGAATG
TGAAAAATCATTTAATTATAGTTCTCTCCTCATTCAACATAAAGTTATCCACACTGGAGAGAAACCTTATGAATGTGATG
AATGTGGGAAGGCTTTCAGGAATAGTTCAGGCCTTATTGTGCATAAAAGGATCCACACAGGAGAGAAACCTTACAAATGT
GATGTCTGTGGCAAAGCATTCAGCTATAGCTCAGGCCTGGCAGTCCATAAAAGCATTCACCCTGGGAAGAAAGCCCATGA
ATGTAAGGAGTGTGGAAAATCATTCAGCTATAACTCACTTCTTCTTCAACACAGAACAATTCACACTGGAGAGAGACCTT
ATGTATGTGATGTCTGTGGAAAAACTTTCAGAAACAATTCAGGACTCAAAGTCCACAGGCGACTCCATACTGGGGAAAAA
CCATATAAGTGTGATGTGTGTGGAAAAGCCTATATCTCACGCTCTAGCCTTAAAAACCACAAAGGAATCCATCTTGGGGA
GAAGCCCTATAAATGTAGTTATTGTGAAAAATCCTTCAATTACAGCTCTGCCCTTGAACAACATAAAAGGATTCATACAA
GGGAGAAACCCTTTGGGTGTGATGAGTGTGGAAAAGCCTTCAGAAATAATTCAGGCCTTAAAGTCCATAAACGAATCCAC
ACTGGGGAGAGACCTTACAAATGTGAAGAATGTGGGAAGGCCTACATCTCACTTTCAAGCCTTATAAATCATAAAAGTGT
ACACCCTGGGGAAAAGCCCTATAAGTGTGATGAGTGTGAGAAAGCCTTTATCACATACCGAACCCTTATAAATCACAAAA
AAATTCATCTTGGGGAGAAGCCCTACAAATGCGATGTGTGTGAGAAATCTTTTAACTACACCTCACTTCTTTCTCAACAC
AGAAGGGTCCACACTAGAGAGAAACCTTATGAATGTGACAGATGTGAAAAGGTCTTCAGAAACAACTCGAGCCTTAAAGT
GCATAAAAGAATTCATACTGGTGAGAAGCCCTATAAATGTGATGTGTGTGGAAAAGCCTACATCTCACACTCAAGCCTTA
TCAACCATAAAAGTACCCACCCTGGCAAGACCCCCTACACATGTGATGAATGTGGGAAAGCTTTTTTCTCAAACAGAACT
CTTATAAGCCATAAAAGAGTCCATCTTGGGGAGAAACCCTTCAAATGTGTTGAATGTGGGAAGTCTTTCAGTTATAGCTC
ACTCCTTTCCCAACACAAGAGGATTCATACGGGGGAAAAACCCTATGTGTGTGATGGCTGTGGGAAGGCATTCAGGAACA
GCTCAGGCCTCACAGTGCATAAAAGGATACACACAGGTGAGAAACCCTATGGATGTGATGAGTGTGGGAAAGCATACATC
TCACACTCGAGTCTTATCAACCATAAAAGTGTCCATAGCGGGCAGCAGCCCTATAATTGTGAGTGTGGGAAATCCTTCAA
TTATAGATCAGTCCTTGACCAACACAAAAGGATCCACACTGGAAAGAAGCTATACCAATGTAACGAGTGTGGGAAGGCTT
TCAATATCAGATCAAATCTCACCAAGCATAAAAGAATCCATACTGGAGGGGAATATTTAAGTGTGACAAATATGGGAAGT
CATAGTGGCACATCACAGAAGAGAACTCATGAGGGAGGGAATGCTCTGGATGGGACCAGGATGAGCATGTCTCTGTAG

ORF - retro_btau_41 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 52.77 %
Parental protein coverage: 66.24 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalKAFHAKSALLTHQTIHTGQKPYKCDECGKAFCAKSVLSRHQTIHTGEKPYKCDECGKAFRLKSFLLSHQT
K..H..S...THQT....QK......C.......S..S..Q......K..KCD.CGK.F...S.L..H..
RetrocopyKSLHLSSKYVTHQTVPIEQKNSEQVKCVESINGNSHPSLQQKASAVKKSHKCDDCGKSFKYNSRLIQHKI
ParentalVHTGEKPYKCDECGKAFRLKSSLLRHQTIDTGQKPHKCDDCGKVFHAKSALLTHQTIHTGQKPYKCDECG
.HTGEK.Y.CD.CG..FR..SSL..H..I.TG.KP.KC..CGK.....S.L..H...H.G.K..KCDECG
RetrocopyMHTGEKRYECDDCGGTFRSSSSLRVHKRIHTGEKPYKCEECGKAYMSYSSLINHKSTHSGEKNCKCDECG
ParentalKAFCAKSVLARHQTIHTGEKPYKCDECGKAFRLKSILLSHQRVHTGEKPYKCGECGKAFADSSYFRRHQK
K.F...SVL..H..IHTGEKPY.C.ECGKAFR..S.L..H.R.HTGEKPY.C..CGK.F..SS..R.H..
RetrocopyKSFNYSSVLDQHKRIHTGEKPYECGECGKAFRNSSGLRVHKRIHTGEKPYECDICGKTFSNSSGLRVHKR
ParentalIHTGEKPYECDECGKAFRVKSILLSHQTVHTGEKPYKCDECGKAFTDRSHLRRHQKIHTGQKLFKCDICD
IHTGEKPYECDECGKAF.....LL.H...H.G.KPYKCDEC.K.F...S.L..H..IHTG.K...CD.C.
RetrocopyIHTGEKPYECDECGKAFITCRTLLNHKSIHFGDKPYKCDECEKSFNYSSLLIQHKVIHTGEKPYECDECG
ParentalKVFRRSKQLAGHQSVHSGEKPYKCDECGKAFRVKSILLIHQTVHTGEKPYKCDECGKAFTDRSHLRRHQK
K.FR.S..L..H...H.GEKPYKCD.CGKAF...S.L..H...H.G.K...C.ECGK.F...S.L..H..
RetrocopyKAFRNSSGLIVHKRIHTGEKPYKCDVCGKAFSYSSGLAVHKSIHPGKKAHECKECGKSFSYNSLLLQHRT
ParentalIHTGEKPYKCDECGKAFRVKSTLLRHQTVHTGEKPYKCDACGKVFRVKSFLLCHQTIHTGQKPYKCDECG
IHTGE.PY.CD.CGK.FR..S.L..H...HTGEKPYKCD.CGK.....S.L..H..IH.G.KPYKC..C.
RetrocopyIHTGERPYVCDVCGKTFRNNSGLKVHRRLHTGEKPYKCDVCGKAYISRSSLKNHKGIHLGEKPYKCSYCE
ParentalKAFRVNQPSQFLTHKRLHTGEKPYKCDECGKAFRRNLSNVSSHQTVHTGEKPYKCDECGKAFRVKSILLS
K.F..N..S....HKR.HT.EKP..CDECGKAFR.N.S....H...HTGE.PYKC.ECGKA....S.L..
RetrocopyKSF--NYSSALEQHKRIHTREKPFGCDECGKAFRNN-SGLKVHKRIHTGERPYKCEECGKAYISLSSLIN
ParentalHQTVHTGEKPYKCDECGKTFTHSSNLRRHQKIHTGQKLFKCDICDKVFSRSEQLAGHQSVHSGEKPYKCD
H..VH.GEKPYKCDEC.K.F.....L..H.KIH.G.K..KCD.C.K.F.....L..H..VH..EKPY.CD
RetrocopyHKSVHPGEKPYKCDECEKAFITYRTLINHKKIHLGEKPYKCDVCEKSFNYTSLLSQHRRVHTREKPYECD
ParentalECGKAFRVKSILLRHQTVHTGEKPYKCDECGKAFTHSSNLRRHQKIHTGQKLFKCDICDKVFSRSEHLAG
.C.K.FR..S.L..H...HTGEKPYKCD.CGKA....S.L..H...H.G.....CD.C.K.F.....L..
RetrocopyRCEKVFRNNSSLKVHKRIHTGEKPYKCDVCGKAYISHSSLINHKSTHPGKTPYTCDECGKAFFSNRTLIS
ParentalHQSVHSGAKPYKCDECDKAFRVKSILLIHQTVHTGEKPYKCEECGKAFTHSSNLRRHQKIHTGQKLFKCD
H..VH.G.KP.KC.EC.K.F...S.L..H...HTGEKPY.C..CGKAF..SS.L..H..IHTG.K...CD
RetrocopyHKRVHLGEKPFKCVECGKSFSYSSLLSQHKRIHTGEKPYVCDGCGKAFRNSSGLTVHKRIHTGEKPYGCD
ParentalICDKVFNRSEQLAGHQSVHSGEKPYKCDECGKAFRVKSILLRHQTVHTGEKPYKCDECGKAFRVKSTLLR
.C.K.......L..H.SVHSG..PY.C.ECGK.F...S.L..H...HTG.K.Y.C.ECGKAF...S.L..
RetrocopyECGKAYISHSSLINHKSVHSGQQPYNC-ECGKSFNYRSVLDQHKRIHTGKKLYQCNECGKAFNIRSNLTK
ParentalHQTVHTG
H...HTG
RetrocopyHKRIHTG

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 7 .28 RPM 6 .27 RPM
ERP005899_muscle 3 .80 RPM 17 .10 RPM
SRP017611_brain 10 .60 RPM 8 .22 RPM
SRP017611_kidney 8 .18 RPM 10 .73 RPM
SRP017611_liver 2 .27 RPM 4 .61 RPM
SRP030211_testis 6 .76 RPM 6 .32 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_41 retrocopy.

TSS - click to see more details

Bos taurus was not studied using FANTOM5 data.

Lab - click to see more details

retro_btau_41 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_btau_41 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 ENSBTAG00000040411 1 retrocopy
retro_btau_41 ,


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