RetrogeneDB ID: retro_btau_1533

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 7:41899551..41900666(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: METT10D
• Ensembl ID: ENSBTAG00000017440
• Aliases: METTL16, METT10D
• Description: methyltransferase-like protein 16 [Source:RefSeq peptide;Acc:NP_001179145]

Sequence

>retro_btau_1533
AATCAGTTGGACGCCAAGGGAGTAAATTCTTGAAATCCTCGAAGATCCCCACCCAGTTCCATAAATACAGGAGGAATCAC
AGAGATCATGCCAGAAGGAGGTGAATTAGAGTTTGTTAAAAGGACCATCCATGACAGTTTACAGCTTAAAAAAAGATTAA
GATGGTATAGCTGTGTGCTGGGAAAGAAATGCAGCCTGCCTCCTCTGAAGGAAGAACTTCGCATACAAGGGGTTCCTAAA
GTCACCTATACTGAATTCTGCTAGGGTCGGACAATGAGATGGGCTTTGGCTTGGAGTTTTTATGATGACGTAACAGTACC
ATCACAACCCAGTAAGTGAAGAAAACTAGAAAAGCCAAGGAAGCCCATTACGTTTGTAGTCCTGGGGTCTGTGATGAAAG
AATTAGCCCTCAAAGCGTCATCTCTGGTCCCTGAGATAGTGGAAGGCATCGTGGTTGTGACAACATGGATTGAAAAAATC
CTCACTGATCTAAAGGTCCAGCATAAATGAGTTCTTTGTGGAAAGGAGGAAATCAGCCTTTTCCTAATGGCCATAGAAAA
CTCCTGGATTCACTTAAGGAGGAAGAAAAGAGACTGAGTGAGACAACTGAGAGAAGTGCCCCTAGCTCCCAAGGATGTGA
TTGAAGCCTTGGAAGAGAAAAAGTCTCCCCCTCAGAGTCTGGCAGTAGCCAGGATGTTGCCCAGGGCCCCCAGGAGAGTG
ACCTGGGGGGCCCTGCTCCACCGGAAGGTGAGTCTGCCACTGTGAGGGGCCACGGCCCCAGCCAGGACTCGCTTTCCCAG
GAGGAAAACCGAGAACCCACGGAGGATGAAAGGAGTGAGGAAAAGGGGAGCATGGAGGTTCTGGAAGGTTGTAAAGGCTC
TAGTAATGGAGCCCAGGACCATGAGGCTCCTGAGCCCTTCAGCAGCCCAGTATCTGAAAAAGGGAACCATCTCCAAGGAG
TGGCTGGACGTTACTTATTCAAGTGTCTGATAAACGTTAAGAAGGAGGTAGATGACACCTTAGTTGAAATGCCCTGGGTT
GAAGGCCAGAACAGGGATTTGATGAACCAGCTTTGTACTTATATACATAACCAAATTTTCAGACTTGTTGCTAGT

Alignment

ORF - retro_btau_1533 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.96 %
• Parental protein coverage: 66.31 %
• Number of stop codons detected: 5
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  NQLEAKGVNSRNPRRPPPSSVNTGGITEIMAEGGELEFVKRIIHDSLQLKKRLRWYSCMLGKKCSLAPLK
          NQL.AKGVNS.NPRR.PPSS.NTGGITEIM.EGGELEFVKR.IHDSLQLKKRLRWYSC.LGKKCSL.PLK
Retrocopy NQLDAKGVNS*NPRRSPPSSINTGGITEIMPEGGELEFVKRTIHDSLQLKKRLRWYSCVLGKKCSLPPLK

Parental  EELRIQGVPKVTYTEFCQGRTMRWALAWSFYDDVTVPSPPSKRRKLEKPRKPITFVVLGPVMKELALKAS
          EELRIQGVPKVTYTEFC.GRTMRWALAWSFYDDVTVPS.PSK.RKLEKPRKPITFVVLG.VMKELALKAS
Retrocopy EELRIQGVPKVTYTEFC*GRTMRWALAWSFYDDVTVPSQPSK*RKLEKPRKPITFVVLGSVMKELALKAS

Parental  SLGPETVEGIVVVTTWIEKILTDLKVQHKRVPCGKEEISLFLTAIENSWIHLRRKKRDRVRQLREVPLAP
          SL.PE.VEGIVVVTTWIEKILTDLKVQHK.V.CGKEEISLFL.AIENSWIHLRRKKRD.VRQLREVPLAP
Retrocopy SLVPEIVEGIVVVTTWIEKILTDLKVQHK*VLCGKEEISLFLMAIENSWIHLRRKKRD*VRQLREVPLAP

Parental  KDVIEALEEKKPPPR-ESGSSQDVAQGPQESALGGPAPPEGESATVGGHGPSQDLLSQEENPEPTEDERS
          KDVIEALEEKK.PP..ESGSSQDVAQGPQES.LGGPAPPEGESATV.GHGPSQD.LSQEEN.EPTEDERS
Retrocopy KDVIEALEEKKSPPQ<ESGSSQDVAQGPQESDLGGPAPPEGESATVRGHGPSQDSLSQEENREPTEDERS

Parental  EEKGDMEVLEGCKGSSNGAQDHEAPEPFSSPASEKGNHLQGVAGRYLFKCLINVKKEVDDALVEMHWVEG
          EEKG.MEVLEGCKGSSNGAQDHEAPEPFSSP.SEKGNHLQGVAGRYLFKCLINVKKEVDD.LVEM.WVEG
Retrocopy EEKGSMEVLEGCKGSSNGAQDHEAPEPFSSPVSEKGNHLQGVAGRYLFKCLINVKKEVDDTLVEMPWVEG

Parental  QNRDLMNQLCTYIRNQIFRLVAS
          QNRDLMNQLCTYI.NQIFRLVAS
Retrocopy QNRDLMNQLCTYIHNQIFRLVAS

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	3.53 RPM
ERP005899_muscle	0.00 RPM	13.62 RPM
SRP017611_brain	0.00 RPM	10.73 RPM
SRP017611_kidney	0.00 RPM	10.43 RPM
SRP017611_liver	0.00 RPM	4.00 RPM
SRP030211_testis	0.01 RPM	11.00 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_1533 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_1533 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_1533 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000017440	2 retrocopies	retro_btau_1159, retro_btau_1533 ,
Myotis lucifugus	ENSMLUG00000003531	2 retrocopies	retro_mluc_1130, retro_mluc_1625,
Monodelphis domestica	ENSMODG00000010765	2 retrocopies	retro_mdom_305, retro_mdom_339,
Otolemur garnettii	ENSOGAG00000004504	1 retrocopy	retro_ogar_491,
Ictidomys tridecemlineatus	ENSSTOG00000011876	1 retrocopy	retro_itri_1568,