RetrogeneDB ID: retro_btau_827

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 2:75388613..75389315(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BT.28437
• Ensembl ID: ENSBTAG00000017483
• Aliases: None
• Description: serpin B6 [Source:RefSeq peptide;Acc:NP_777214]

Sequence

>retro_btau_827
TTAAGTAAAAGTGGAATCAGAGGTGAATGTGTCCACCAGGATTTCCAGTTGCTTCATCAAAGTTCCCATGACTAACGCAC
AGTACCTGCTTAGAACTGCCAAAAGGCTCTTTGGAAAAATGCCTTATTATTTCCTCTCATCTTTCAAAGATTGCTGCTGC
AAATTCTACCAATCAGAGATGGAAGAATCTGACCTTAGCAAGTTTACAGAGGAGTTCAGAAAACATAGACATACCTGGCT
CGCCAAGAAATAAAAAGTGAAATTATAGAGTTGTCATCCACAAATTCAGTTAATTCAGGGACTAATCTGATTCCTATGAA
AGCCATCTAATTCACAGGAAACTAGGGTCATCAGTTTAATAAATTTCAAACCAAGGAAAAACCATTGAAAGTCTTCAAGA
ATGAAGGCAATTTTGTGTAAGTGATGTTTGAGGAATCTACCTTTGAAAGGACATATATAGAAGAACTATTTACCAAGAAT
TTGGTGCTTCTCTTAATTGGCAAGAAGCTGAATAGGTATAACATGCTTCCAGAGAAAAAGACCAATTGTGAAGGGGTGGA
AAAATAACTTACTTATGAGAAATTCATAGAACTGATAAAATCAGACATGATGGATGAAGAAGAGATGGAAGACTTCCTCC
TTAGACTTAAGCTAGAGAAGAAACATGACATGGAGGATGCTCTTCACATCCTGGGAAGGACC

Alignment

ORF - retro_btau_827 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.74 %
• Parental protein coverage: 62.17 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  LNKSSGGGEDVHQGFQNLLSE-VNRTDTQYLLRTANRLFGEKTYDFLSSFKDSCRIFYQAEMEELDFLSA
          L.KS...GE.VHQ.FQ.LL...V..T..QYLLRTA.RLFG...Y.FLSSFKD.C..FYQ.EMEE.D....
Retrocopy LSKSGIRGECVHQDFQ-LLHQ>VPMTNAQYLLRTAKRLFGKMPYYFLSSFKDCCCKFYQSEMEESDLSKF

Parental  TEESRKHINTWVAEK-TEGKIRDLLPANSVNAMTRLVLVNAIYFKGNWDTQFNKEHTKERPFRVSKNMEK
          TEE.RKH..TW.A.K.....I..L...NSVN..T.L....AI.F.GN...QFNK..TKE.P..V.KN...
Retrocopy TEEFRKHRHTWLAKK<IKSEIIELSSTNSVNSGTNLIPMKAI*FTGN*GHQFNKFQTKEKPLKVFKNEGN

Parental  PVQMMFKKSTFKSTYIGEISTQILVLPYVGKELNMVILLPSESTDLNTVEKALTYEKFVTWTKLDVMDED
          .V..MF..STF..TYI.E..T..LVL...GK.LN....LP...T....VEK.LTYEKF....K.D.MDE.
Retrocopy FV*VMFEESTFERTYIEELFTKNLVLLLIGKKLNRYNMLPEKKTNCEGVEK*LTYEKFIELIKSDMMDEE

Parental  EVEVFLPRFTLEESYDMECVLRDLGVT
          E.E.FL.R..LE...DME..L..LG.T
Retrocopy EMEDFLLRLKLEKKHDMEDALHILGRT

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	0.29 RPM
ERP005899_muscle	0.00 RPM	6.39 RPM
SRP017611_brain	0.00 RPM	0.37 RPM
SRP017611_kidney	0.00 RPM	2.07 RPM
SRP017611_liver	0.00 RPM	0.60 RPM
SRP030211_testis	0.15 RPM	22.52 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_827 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_827 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_827 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 9 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000017483	1 retrocopy	retro_btau_827 ,
Echinops telfairi	ENSETEG00000012630	1 retrocopy	retro_etel_1134,
Microcebus murinus	ENSMICG00000001981	1 retrocopy	retro_mmur_403,
Myotis lucifugus	ENSMLUG00000008803	1 retrocopy	retro_mluc_1610,
Monodelphis domestica	ENSMODG00000005468	2 retrocopies	retro_mdom_510, retro_mdom_602,
Mustela putorius furo	ENSMPUG00000000448	1 retrocopy	retro_mputfur_1037,
Mus musculus	ENSMUSG00000060147	2 retrocopies	retro_mmus_3191, retro_mmus_3192,
Pteropus vampyrus	ENSPVAG00000010001	1 retrocopy	retro_pvam_1243,
Tursiops truncatus	ENSTTRG00000003879	2 retrocopies	retro_ttru_1224, retro_ttru_1837,