RetrogeneDB ID: retro_btau_325

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 10:5069880..5071195(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: FAM151A
• Ensembl ID: ENSBTAG00000019801
• Aliases: None
• Description: None

Sequence

>retro_btau_325
ATGGCCAACAGGAAAGGGTGCTGGAAGTGGGCCATTGTTGGCGGCATCAGTACAGTTCTAGTGTTTGCCATTGCAATGAT
CATGGGCTTCTCACTGCAGAAGCGCACCGTCCTGCCAGGCCATGCACAGGATGGGACCTGCTGCTCTGACGCAGACATGC
TGGGCTGCCTGCTAAGTTTGGGTCAGATTATCCAAAGGACGGCCTGCTGGTCACCTGGTACCATGCTGCCAACAGCAAAG
AGCAGATGAAGGCTGCCCTCAGCAACAGCATCACGGTCCTGGAATCAGACGTCACAATAGAAGGGCTTGACACAGTCAAC
GAGACAGGGGTCCCCATCACGGTGCACCCCCCAGCCATCTACAGTGACAATGCCTGAGAGCAGTGGCTGGAGGCTGTGCT
GACCTCTTCCGAGAAGGGCATCAAACTGGACTTCAAGAGCATCTAGGCTGTGGGCCCCACCCTGGACCTCCTGAGGCGGC
TGACAGAGGAGGGGAAAGTTCAAAGGCCTGTGTGGATCAATGCCAACATCCTGAGGGGTCCCAACATGGTCAAACCAATA
GAGATCAATGCCCCCACAGTTCCTGGCCTTGGTCCAGGAGAAGTATCTTGAGATAACCCTGTCTCCAGGCTGGACTACTG
TCTACCTGCCCTTGTTCCCAAATGGGACATATACCCAGACCATGGTGGAGAAGATGCAGGAGCTGGTGGGAGCAGTGCCA
CAGAAGGTGACCTTCTCCATGTGGGTTGTCATGGCCAGGGCCGCCTGGCCCCACTTCAGCCAGCTGCTGGGCCAATCTGA
CAGGTACAGCCTGACAATGAGGCAGTCCACCTCGGACCCCGTGACAGTGGATGACTTCCTCTATATCCAGGACAACACCA
CCACCCACCAAGTCTGCTATGACTTCTTTGAGCCTCTCCTGTCTCAATTCAAGTAGCTTGCCGTACCTCATGGAAGCAAA
GGTACTACACCAGGGGCAGCCTGACCCCTGCTCTCCAAACCCTGGAGGCCAGGGTCTGAGCGTGGAGTGACTGGTTCCTG
ACATCCAGGGCAAGGGAAGCAGAGCCACAGTGCGTCTCCCAGACTGAGAAGGCATGATCCTGCTGGACGTGGGCCTTCAG
GAGCCTGCAGCTGGGGATCCCGTGCCCATCATCCACGCCCCAGATGGCCATGCCCTGATGCCTGAGTCCTGCCTGCAGCA
GCTGGCCATGCGCCCTGGATGCTGGGGCCTGCATTTGCACATAACAGAGCCCACCACTCTGCAGCCATCCCTGGCCACAC
TGGCCACCCTGTGCGCCCTTGGCCACCTGTCTAGG

Alignment

ORF - retro_btau_325 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.25 %
• Parental protein coverage: 74.91 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MAN-KGCWKWAIVGGVIAVLVFATAMIMGFLLQKHTILPGCEQDGTCRSDADMLDYLLSLGQISQR-DGL
          MAN.KGCWKWAIVGG...VLVFA.AMIMGF.LQK.T.LPG..QDGTC.SDADML..LLSLGQI.QR.DGL
Retrocopy MANRKGCWKWAIVGGISTVLVFAIAMIMGFSLQKRTVLPGHAQDGTCCSDADMLGCLLSLGQIIQR<DGL

Parental  LVTWYHRANSKEQMKAALSSNVMVLEADITTEGLGTVNETGVPIMAHPPAIYSDNTLEQWLEAVLASSQK
          LVTWYH.ANSKEQMKAALS....VLE.D.T.EGL.TVNETGVPI..HPPAIYSDN..EQWLEAVL.SS.K
Retrocopy LVTWYHAANSKEQMKAALSNSITVLESDVTIEGLDTVNETGVPITVHPPAIYSDNA*EQWLEAVLTSSEK

Parental  GIKLDFKSIKAVGPSLDLLRRLTEEGKVRRPVWINADIQRGPNVGLSIEVNA-TQFLALVQEKYPEATLS
          GIKLDFKSI.AVGP.LDLLRRLTEEGKV.RPVWINA.I.RGPN....IE.NA..QFLALVQEKY.E.TLS
Retrocopy GIKLDFKSI*AVGPTLDLLRRLTEEGKVQRPVWINANILRGPNMVKPIEINA>PQFLALVQEKYLEITLS

Parental  PGWTTLYLPLFPDGTYTRAMVEKMQELVGAVPQKVTFPVRAVMVRAAWPHFSWLLGQSDRYSLTMWQSAS
          PGWTT.YLPLFP.GTYT..MVEKMQELVGAVPQKVTF....VM.RAAWPHFS.LLGQSDRYSLTM.QS.S
Retrocopy PGWTTVYLPLFPNGTYTQTMVEKMQELVGAVPQKVTFSMWVVMARAAWPHFSQLLGQSDRYSLTMRQSTS

Parental  DPVTVDDLLYIRDNAATHQVYYDLFEPLLSQFKQRAMNTSRKPS-YYTGGSLIPALQ-HPGDEGLSVEWL
          DPVTVDD.LYI.DN..THQV.YD.FEPLLSQFK..A.....K...Y..G.SL.PALQ..PG..GLSVE.L
Retrocopy DPVTVDDFLYIQDNTTTHQVCYDFFEPLLSQFK*LAVPHGSKGT<YTRG-SLTPALQ<NPGGQGLSVE*L

Parental  VPDIQGNGSTATVQLPDREGMILLDVGLQKPAAGDPVPLVRTPDGRALTLESCLQQLAMHPGRWGIHVHI
          VPDIQG.GS.ATV.LPD.EGMILLDVGLQ.PAAGDPVP....PDG.AL..ESCLQQLAM.PG.WG.H.HI
Retrocopy VPDIQGKGSRATVRLPD*EGMILLDVGLQEPAAGDPVPIIHAPDGHALMPESCLQQLAMRPGCWGLHLHI

Parental  AEPTALRPSLATLATLSALGHLSR
          .EPT.L.PSLATLATL.ALGHLSR
Retrocopy TEPTTLQPSLATLATLCALGHLSR

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	3.80 RPM
SRP017611_brain	0.00 RPM	7.77 RPM
SRP017611_kidney	0.00 RPM	234.36 RPM
SRP017611_liver	0.00 RPM	0.00 RPM
SRP030211_testis	2.55 RPM	4.52 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_325 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_325 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_325 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000019801	1 retrocopy	retro_btau_325 ,
Homo sapiens	ENSG00000162391	1 retrocopy	retro_hsap_2742,
Myotis lucifugus	ENSMLUG00000014446	1 retrocopy	retro_mluc_965,
Macaca mulatta	ENSMMUG00000013680	1 retrocopy	retro_mmul_1489,
Pongo abelii	ENSPPYG00000001314	1 retrocopy	retro_pabe_2276,