RetrogeneDB ID: retro_btau_893

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 2:122290759..122291294(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM101B
• Ensembl ID: ENSBTAG00000006606
• Aliases: None
• Description: None

Sequence

>retro_btau_893
CCCCAGCCACTGGTTTCTCTCGGGGCCCAGGGCAGCAAGGAGCTTGAACCAGCCCCCAGGGCTCTGGCCCAATGCAGGAT
CCCCCCATGGCCCTGAACCCAGCTTCTCTCTCTCCAACCCCCCAGTCTCCAGCTGCTCGCCAAGGTTATGACCCCTGGCC
TTTGGCAAAGGAGTGGTGTTTGACCCCTTACCACCAATGGAAGTAAAGTACACATCCTCTATCAAGTACAACTCAGACTG
GCACTTCATCAACGATGTCCACCTGTCCTAGGACTTGGCGGTGGCCTCCTGCAGCCAGATCATCTCCTGGATTCCCAGTT
GCACATGGCACATCTGCAAGGCGAAGGTGCACTTCCAGCCCCACCACGAGCCTGCCCACTGCCTCAGTACCACCATCCTC
TATCTCAAGTACCCCAAGGCGTTCTACACCACCACCCTGGATGACAACTGCCACAACACCCTGAGGAGGCACCTGTCCAG
CATGGAGCTCGAAGTCAGGGAGTTTCTGGGCGGTGTTTACCTGTTGGAAGAGAGC

Alignment

ORF - retro_btau_893 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.78 %
• Parental protein coverage: 95.72 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PGGSATAGGSGPGEAGPA-PGTLEPDAAASRAAPNPASLPNPLGSGCSPRLCPLSFGEGVELDPLPPTEV
          P......G..G..E..PA.PG.L.P.A..........SL.NP..S.CSPRL.PL.FG.GV..DPLPP.EV
Retrocopy PQPLVSLGAQGSKELEPA>PG-LWPNAGSPHGPEPSFSLSNPPVSSCSPRL*PLAFGKGVVFDPLPPMEV

Parental  RYTSSVKYDSERHFIDDIQLPLGLAVASCSQTITCIPSSTWRNYKAEVRFEPRHKPTRFLSTTIVYPKYP
          .YTSS.KY.S..HFI.D..L...LAVASCSQ.I..IPS.TW...KA.V.F.P.H.P...LSTTI.Y.KYP
Retrocopy KYTSSIKYNSDWHFINDVHLS*DLAVASCSQIISWIPSCTWHICKAKVHFQPHHEPAHCLSTTILYLKYP

Parental  KTVYTTTLDYNCRKTLRRFLSSVELEATEFAGGDYLLEEN
          K..YTTTLD.NC..TLRR.LSS.ELE..EF.GG.YLLEE.
Retrocopy KAFYTTTLDDNCHNTLRRHLSSMELEVREFLGGVYLLEES

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	20.06 RPM
SRP017611_brain	0.00 RPM	2.06 RPM
SRP017611_kidney	0.06 RPM	0.77 RPM
SRP017611_liver	0.00 RPM	0.15 RPM
SRP030211_testis	0.20 RPM	0.26 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_893 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_893 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_893 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000006606	1 retrocopy	retro_btau_893 ,