RetrogeneDB ID: | retro_btau_32 | ||
Retrocopy location | Organism: | Cow (Bos taurus) | |
| Coordinates: | 4:41064512..41066816(+) | ||
| Located in intron of: | None | ||
Retrocopy information | Ensembl ID: | ENSBTAG00000047294 | |
| Aliases: | None | ||
| Status: | KNOWN_PROTEIN_CODING | ||
Parental gene information | Parental gene summary: | ||
| Parental gene symbol: | CUL1 | ||
| Ensembl ID: | ENSBTAG00000008736 | ||
| Aliases: | None | ||
| Description: | cullin-1 [Source:RefSeq peptide;Acc:NP_001180162] |
Retrocopy-Parental alignment summary:
>retro_btau_32
ATGTCATCGGACTGGAGCCAGAATCCCAGTGAACTGAATCATCTTGGCATTGACGAGCTCTGGGATAACATCAGAGCGGG
AATCCAGCAAGTGTATGCCAGACAAAGTATGGTGAAATCCAGATACATAGAACTCTACACTCTTCTTTATAACCACTGTT
TATATGTGTCCCCTCAAGCCCAGACTCAATCAAAAAAGGGGCAGAAGCTGAGGGAAGATAAGACTGTTGGCTTCGAATTA
TACAAACGAATTAAAGAATTTTTGAAGAATCACTTGACAAATCTTCCTAAGGATGGAGAAGATTTAATGGATATAGGAAT
ACTGAAGTTCTATACTCAACAATGGGAAGATTACCAGTTTTCGAGCAAAGTGCTGAATGGGATTTGTGCCCGCCTCAATA
AACATTTACTTAATAGCACAAATAACGAAGGACACAATGTTTGTGAAATATATTCTCTCGCAATGGTGACTTGGAGAGAT
TGTCTTTTCAGGCCATTGAATAAACAAGTAACAAATGCTGTTTTAAAACTGATTGAAAAGGAAAGAAATGGTGAATCCAT
CAATACAAGACTGATAAGTGGTGCTATCCAGTCTTACTTGGAACTGGGGGTGAATGAAGATAATCAGTTTGAGGAGAGCC
CTATGCTAACAGTGTACAAAGAAGCCTTTGAATCTCAGTTCTTGGCTGACACAGAGAGATATTATACCAGAAAGAGTACT
GAATTGTTGCAGCAGAACCCAGTTACTGAATATATGAAAAAGGTGGAGGCTCTTCTGCTGGAGGAGCGGCGGAGGGCCCG
GGTCTACCTTCACCAGAGCAGCAAGGGCAAGCTAGCCAGGAAATGCAGGCAGGTGCTCGTGGAGAAACACTTGGAGATTT
TCCTCACAGAATTCCAGAATTTACTGAACGCCAACAAAAGTGAAGATTTGGGTCGCATGTATAGGCTCATATATAGAATC
AAGAATGGCCTGGGAGAATTTAAAAAGATCCTGGAGACACACATTCATAATCAGGGTCTTTCAGCAATTGAGGAGTGTGG
AGAAGCTGCTTTAAATGACCCCAGAATGTATGTAGAGACAGTATTGAATATCCATAAAAAATACAATGCCCTGGTGATAT
CAGCATTCAGGAACCATGCTGACTTCGTGGCTGCACTGGACAAGGCATGCAGCGGCTTCATAAACAACAATGCAGTTACC
AAAATGGCTCAGTCATCCAGTAAATCCCCTGAGTTGCTGGCTCAATACTGTGATTCCTTGTTGAAGAAGAGTTCCAAGAA
CCCAGAAGAAGCAGAACTAGAAGACACACTTAACCACGTGATGACGGTCTTTAAGTATATGGATGACAAAGATGTGGTTC
AGAAGTTCTACACGAAAATGCTGGCCAAAAGGCTTGTCCATCAGAACAGTGCGAGTGACGATGCTGAAGCAAGCATGGTC
TCTAAGTTAAAGCAAGCTTGTGGTTTTGAGTATACCTCCAAACTTCAGCGGATGTTTCAAGACATTGGTGTAAGCAAAGC
TTTGAATGCGCAGTTCAAAAAGCACCTGATGGATTCAGAGCCTTTGGACTTAGATTTCAGTATTCACGTTCTGAGTTACG
GATGGTGGCCCTTTGAGGAATCTTGTACAGTTCTCTTGCCATCAGAGCTGGAACCATGTTATCGGCGCTTCACTGCATTT
TATGCCAGCTGTTACAGTGACAGAAAATTGTCATGGGCATATCAACTGTCTGAAGGAGAATTAGTAACAAACTACTTCAA
AAACAACTACACTTTGCGTGTATCTACATTTCAGATGGCCATCCTGCTCCAGTACAACACGGAAGATGCTTACACCATTC
AACAGCTGATGGACAGCACTCAGATCAAAATGGACATTGTGGCACAAGTCTTACAGATTTTATTGAAGTTTAAGTTACTG
GTTTTGGAAGACAAAAGTGCAAATGTTGACGAGGTGGAATTGAAGCCAGACACCTTAATAAAATTACATTTTGGTTATAA
AAGTAAGAAATTAAGGGTTAATATCAGCTTGCCAATGAAAATTGAACAGAAGCGGGAACAAGAAACCATGTACAAAAACA
TTGAGGAAGATCGCAAACTGCTGATCCAGGCGGCTATTGTGAGAATAATGAAAATGAGGAAGGTTGTAAAACACCAGCAG
TTACTCGGAGAAGTAGCGACTCAGTTGTCCTCAGTATTCAAGCCTCAGATCTCAGTGATTAAGAAATGTATTGACATTCT
GATCGAGAAAGAGTATTTGGAGCGAGTGGGTGATGAAAAGGACACCTACAGTTACCTGGCTTAA
ORF - retro_btau_32 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
| Percent Identity: | 80.48 % |
| Parental protein coverage: | 91.11 % |
| Number of stop codons detected: | 0 |
| Number of frameshifts detected: | 0 |
Retrocopy - Parental Gene Alignment:
| Parental | SKSKKGQTPGGAQFVGLELYKRLKEFLKNYLTNLLKDGEDLMDESVLKFYTQQWEDYRFSSKVLNGICAY |
| ..SKKGQ.......VG.ELYKR.KEFLKN.LTNL.KDGEDLMD...LKFYTQQWEDY.FSSKVLNGICA. | |
| Retrocopy | TQSKKGQKLREDKTVGFELYKRIKEFLKNHLTNLPKDGEDLMDIGILKFYTQQWEDYQFSSKVLNGICAR |
| Parental | LNRHWVRRECDEGRKGIYEIYSLALVTWRDCLFRPLNKQVTNAVLKLIEKERNGETINTRLISGVVQSYV |
| LN.H.......EG.....EIYSLA.VTWRDCLFRPLNKQVTNAVLKLIEKERNGE.INTRLISG..QSY. | |
| Retrocopy | LNKHLLNSTNNEGHN-VCEIYSLAMVTWRDCLFRPLNKQVTNAVLKLIEKERNGESINTRLISGAIQSYL |
| Parental | ELGLNEDDAFAKGPTLTVYKESFESQFLADTERFYTRESTEFLQQNPVTEYMKKAEARLLEEQRRVQVYL |
| ELG.NED..F...P.LTVYKE.FESQFLADTER.YTR.STE.LQQNPVTEYMKK.EA.LLEE.RR..VYL | |
| Retrocopy | ELGVNEDNQFEESPMLTVYKEAFESQFLADTERYYTRKSTELLQQNPVTEYMKKVEALLLEERRRARVYL |
| Parental | HESTQDELARKCEQVLIEKHLEIFHTEFQNLLDADKNEDLGRMYNLVSRIQDGLGELKKLLETHIHNQGL |
| H.S....LARKC.QVL.EKHLEIF.TEFQNLL.A.K.EDLGRMY.L..RI..GLGE.KK.LETHIHNQGL | |
| Retrocopy | HQSSKGKLARKCRQVLVEKHLEIFLTEFQNLLNANKSEDLGRMYRLIYRIKNGLGEFKKILETHIHNQGL |
| Parental | AAIEKCGEAALNDPKMYVQTVLDVHKKYNALVMSAFNNDAGFVAALDKACGRFINNNAVTKMAQSSSKSP |
| .AIE.CGEAALNDP.MYV.TVL..HKKYNALV.SAF.N.A.FVAALDKAC..FINNNAVTKMAQSSSKSP | |
| Retrocopy | SAIEECGEAALNDPRMYVETVLNIHKKYNALVISAFRNHADFVAALDKACSGFINNNAVTKMAQSSSKSP |
| Parental | ELLARYCDSLLKKSSKNPEEAELEDTLNQVMVVFKYIEDKDVFQKFYAKMLAKRLVHQNSASDDAEASMI |
| ELLA.YCDSLLKKSSKNPEEAELEDTLN.VM.VFKY..DKDV.QKFY.KMLAKRLVHQNSASDDAEASM. | |
| Retrocopy | ELLAQYCDSLLKKSSKNPEEAELEDTLNHVMTVFKYMDDKDVVQKFYTKMLAKRLVHQNSASDDAEASMV |
| Parental | SKLKQACGFEYTSKLQRMFQDIGVSKDLNEQFKKHLTNSEPLDLDFSIQVLSSGSWPFQQSCTFALPSEL |
| SKLKQACGFEYTSKLQRMFQDIGVSK.LN.QFKKHL..SEPLDLDFSI.VLS.G.WPF..SCT..LPSEL | |
| Retrocopy | SKLKQACGFEYTSKLQRMFQDIGVSKALNAQFKKHLMDSEPLDLDFSIHVLSYGWWPFEESCTVLLPSEL |
| Parental | ERSYQRFTAFYASRHSGRKLTWLYQLSKGELVTNCFKNRYTLQASTFQMAILLQYNTEDAYAVQQLTDST |
| E..Y.RFTAFYAS..S.RKL.W.YQLS.GELVTN.FKN.YTL..STFQMAILLQYNTEDAY..QQL.DST | |
| Retrocopy | EPCYRRFTAFYASCYSDRKLSWAYQLSEGELVTNYFKNNYTLRVSTFQMAILLQYNTEDAYTIQQLMDST |
| Parental | QIKMDILAQVLQILLKSKLLVLEDENANVDEVELKPDTLIKLYLGYKNKKLRVNINVPMKTEQKQEQETT |
| QIKMDI.AQVLQILLK.KLLVLED..ANVDEVELKPDTLIKL..GYK.KKLRVNI..PMK.EQK.EQET. | |
| Retrocopy | QIKMDIVAQVLQILLKFKLLVLEDKSANVDEVELKPDTLIKLHFGYKSKKLRVNISLPMKIEQKREQETM |
| Parental | HKNIEEDRKLLIQAAIVRIMKMRKVLKHQQLLGEVLTQLSSRFKPRVPVIKKCIDILIEKEYLERVDGEK |
| .KNIEEDRKLLIQAAIVRIMKMRKV.KHQQLLGEV.TQLSS.FKP...VIKKCIDILIEKEYLERV..EK | |
| Retrocopy | YKNIEEDRKLLIQAAIVRIMKMRKVVKHQQLLGEVATQLSSVFKPQISVIKKCIDILIEKEYLERVGDEK |
| Parental | DTYSYLA |
| DTYSYLA | |
| Retrocopy | DTYSYLA |
Legend:
| * | Stop codon |
| > | Forward frameshift by one nucleotide |
| < | Reverse frameshift by one nucleotide |
(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 | 21 .27 RPM |
| ERP005899_muscle | 0 .00 RPM | 28 .14 RPM |
| SRP017611_brain | 0 .00 RPM | 69 .75 RPM |
| SRP017611_kidney | 0 .00 RPM | 44 .45 RPM |
| SRP017611_liver | 0 .00 RPM | 21 .37 RPM |
| SRP030211_testis | 0 .01 RPM | 430 .68 RPM |
Bos taurus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_btau_32 retrocopy.
Bos taurus was not studied using FANTOM5 data.
retro_btau_32 was not experimentally validated.
Retrocopy orthology:
Retrocopy retro_btau_32 has 0 orthologous retrocopies within eutheria group .Parental genes homology:
Parental genes homology involve 3 parental genes, and 3 retrocopies.| Species | Parental gene accession | Retrocopies number | |
|---|---|---|---|
| Bos taurus | ENSBTAG00000008736 | 1 retrocopy |
retro_btau_32 ,
|
| Myotis lucifugus | ENSMLUG00000002479 | 1 retrocopy | |
| Otolemur garnettii | ENSOGAG00000014715 | 1 retrocopy |