RetrogeneDB ID: retro_btau_932

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 21:30236011..30237393(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: WEE2
• Ensembl ID: ENSBTAG00000004658
• Aliases: None
• Description: None

Sequence

>retro_btau_932
CCCCACCAGACAAGGGCAAGCCACCACTGTGAGAACCTCTTCACTCCCAAAGGCCAGGTGAGCCAGCCTATGCTTTCTTC
AACAGGGAAGCTCCCCTCCTGAAGCTCTAAGCATCTGAAGCTCACACCTGGCCCCTTCATTGGTGAAATGACCTCACTGG
CTCTGGTAAACATTAATCGCTTCACCCTGGAGTCTAGAAAACAATTCCTTAAATCCAATGGCAAGAGGAAAACCCAAGGT
GATCTAGAGGAAGCTGGTCCAGAGAAGAGAAGACAAGGTGAAACAAGTGTTCCCTGCCAAGAGACATGTTGGATGAGAAA
CCAACATGGCTTCCCACTATGAAAAAGATTTCTTGGAGGTAGAAAAAAATGGGATTGGGGAATTTGGAACAGTCTACAAG
TGCATTAAAAGGCTGGATGGATGTGTTTATGCAATAAAATGCTCCATGAAAACTTTGGGAGGATTATCAGATGAGAATTT
GGCTATGCATGAAGTTCATGCCCACGTGGTGCTGGGGCATCACTCCCATATGCTACCTTACTACTCTGCATGGGCACAAG
ATGACCACGTGATCATTCAGAATGAATACTGCAATGGTGGGAGCTTGCAGGCTGCTATATCTGAAAACGCAGTCTGGCAA
TCATTTCCAAGAGCCCAAACTCCAGGATATCCTTCTATAGATTTCCCTTGGGCTTCAGTACATCCACAACTCTGGCATGG
TGCACCTGGACATCAAACCTAGTAACAACTTCCTTTGTCATAAGATGCAAAGTGACTTTCTCATAGTCCCATAAAAAGGT
TGAAAATGAAGCTGATTGGTTTCTCTCTGCCAATGTGATGGATAGAATTGGTGACTTGGGTCATGTGATATCAATAAGTA
AATCCAAGTGGAAGAGGGACACAATCACTTCCTGGATAATGAGATTTTGCAAAAGAATTATCAGCACCTTCCTAAAGCAG
AAATTTTTGTCTTGGGATTGACCATTGTAGTGGCTGCAGAAGCAGAGTCATTACCCACCAATGGCACCATGAGGCATCAC
ATCCATGAGGGGAATCTTCTGGACATTTCTCAGGAGCTCTGCAAAGAATTTCACAAACTACTTAAGAACATGATCCACTC
CGATCCATCAGAGAGAACTTCTGCAGCAAAGGTCAAGTTCTCTGTCTCTCTCTGGGGGAAAACAGAAGAGCTTCAGCAGC
AGTTGAGCTTAGAAAGGTTCAAGAGAGTCACACGGGAAAGGGGACTGAAAGAAGCCCAGCTGGCCTGGTCCCTCAAGAAA
TGCCACGGAGTCCCAGGGGTCACTGGGACCCCCACAGGATCAAGAAGCACCATATGCCTGCTGGGAGGAAGGAGCTCCAA
ATCAAGTTTCACTGAGGCAGGC

Alignment

ORF - retro_btau_932 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.72 %
• Parental protein coverage: 81.98 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  PPDKSGPSHCESPFTPKGQVSQSMISSTGKPLPRSSKHLKLTPGPFIDEMTSLALVNINPFTPESYRKQF
          P.......HCE..FTPKGQVSQ.M.SSTGK....SSKHLKLTPGPFI.EMTSLALVNIN.FT.ES.RKQF
Retrocopy PHQTRASHHCENLFTPKGQVSQPMLSSTGKLPS*SSKHLKLTPGPFIGEMTSLALVNINRFTLES-RKQF

Parental  LKSNGKRKTRGDLEESSPGEGK-GE-QGLPAKRCVLRETNMASRYEKEFLEVEKIGVGDFGTVYKCIKRL
          LKSNGKRKT.GDLEE..P.....GE.Q..PAKR.V..ETNMAS.YEK.FLEVEK.G.G.FGTVYKCIKRL
Retrocopy LKSNGKRKTQGDLEEAGPEKRRQGE>QVFPAKRHVG*ETNMASHYEKDFLEVEKNGIGEFGTVYKCIKRL

Parental  DGCVYAIKRSTKPLGGLSDETLAMHEVYAHAVLGQHPHVVRYYSAWAEDDYMIIQNEYCNGGSLQAAVTE
          DGCVYAIK.S.K.LGGLSDE.LAMHEV.AH.VLG.H.H...YYSAWA.DD..IIQNEYCNGGSLQAA..E
Retrocopy DGCVYAIKCSMKTLGGLSDENLAMHEVHAHVVLGHHSHMLPYYSAWAQDDHVIIQNEYCNGGSLQAAISE

Parental  NTKSGSHFP-EPRLKDILLQISLGLKYIHSSGMVHLDIKPSNIFICHKMQSDSPVV-LEEAENEADWFFS
          N....S.FP.EP.L.DILL.ISLGL.YIH.SGMVHLDIKPSN.F.CHKMQSD...V.....ENEADWF.S
Retrocopy NAVWQS-FP>EPKLQDILL*ISLGLQYIHNSGMVHLDIKPSNNFLCHKMQSDFLIV>HKKVENEADWFLS

Parental  ADVMYKIGDLGHVTSISNPK-VEEGDSRFLANEILQENYQHLPKADIFALGLTIAVAAGAELLPTNGTEW
          A.VM..IGDLGHV.SIS..K.VEEG...FL.NEILQ.NYQHLPKA.IF.LGLTI.VAA.AE.LPTNGT..
Retrocopy ANVMDRIGDLGHVISISKSK<VEEGHNHFLDNEILQKNYQHLPKAEIFVLGLTIVVAAEAESLPTNGTMR

Parental  HHIREGNLPDIPQELSKEFHQLLESMIHPDPAERPSAAALAKSRVLCPSLGKTEELQHQLNLEKFKTATL
          HHI.EGNL.DI.QEL.KEFH.LL..MIH.DP.ER.SAA....S..L....GKTEELQ.QL.LE.FK..T.
Retrocopy HHIHEGNLLDISQELCKEFHKLLKNMIHSDPSERTSAAKVKFSVSL---WGKTEELQQQLSLERFKRVTR

Parental  QRELKEAQQAQSPKDGHSVPGVSDTPTGLRNAKCLVGGKSAKSSSFTSG
          .R.LKEAQ.A.S.K..H.VPGV..TPTG.R...CL.GG.S.KSS....G
Retrocopy ERGLKEAQLAWSLKKCHGVPGVTGTPTGSRSTICLLGGRSSKSSFTEAG

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
ERP005899_liver	0.00 RPM	0.00 RPM
ERP005899_muscle	0.00 RPM	0.00 RPM
SRP017611_brain	0.00 RPM	0.05 RPM
SRP017611_kidney	0.00 RPM	0.00 RPM
SRP017611_liver	0.00 RPM	0.00 RPM
SRP030211_testis	0.09 RPM	3.97 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_932 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_932 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_932 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000004658	1 retrocopy	retro_btau_932 ,
Callithrix jacchus	ENSCJAG00000013627	1 retrocopy	retro_cjac_936,
Dipodomys ordii	ENSDORG00000015156	1 retrocopy	retro_dord_559,
Gorilla gorilla	ENSGGOG00000009609	1 retrocopy	retro_ggor_705,
Ochotona princeps	ENSOPRG00000009103	2 retrocopies	retro_opri_358, retro_opri_841,
Pongo abelii	ENSPPYG00000018066	1 retrocopy	retro_pabe_684,
Pan troglodytes	ENSPTRG00000028383	1 retrocopy	retro_ptro_601,