RetrogeneDB ID: retro_btau_767

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 19:47725148..47725649(+)
• Located in intron of: ENSBTAG00000015739

Retrocopy information

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

Parental gene information

• Parental gene symbol: DTD1
• Ensembl ID: ENSBTAG00000008964
• Aliases: DTD1, DUE-B
• Description: D-tyrosyl-tRNA(Tyr) deacylase 1 [Source:UniProtKB/Swiss-Prot;Acc:Q2T9V8]

Sequence

>retro_btau_767
GAACTGGGGCATGTGGTCCGGAAGATCTTAAACCTGTGTGTGTTTGAGGATGAAAGTGGGAAGCACTGGTCGAAGAGCAT
GATGGACAAGCAATAGGATGTGCTGTGCCAGTCCTCTCTGCAGTGCGTCCTCAAGGGCAACAAGCCCGACTTCCACCTGG
CCATGCCCACAGGGCAGGCTGAGGCCTTTTACAAGGGCTTCCTGGAGCCGCTGTACAAGGCGGAGAGGCCAGAGCTCATC
AAAGGTGGCAAGTTCAGCGCCTGCCTGGAAGTCCACATTCAGAACGACGGGCCTGTGACCATGGAACTGGAATCTCCGGC
CCCTGGTGCTGTCGCCTCTGATCCAGAACACCTGTCGAAGCTTGAAAAGCAACAACAGAGGACAGAAAAAGCCAGAGCCA
AAGGGCCTTCCGGATCAAGCAAGAAGAGAAGTGCTCCCTGCAAGGAAGACCACAAAGCCGGCAGCGGGGCAGAGGGGGAC
ATGTCCTCTGAGCGGGAGCCC

Alignment

ORF - retro_btau_767 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.29 %
• Parental protein coverage: 80.86 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ELEHMVRKILNLRVFEDESGKHWSKSVMDKQYEVLCVSQFTLQCVLKGNKPDFHLAMPAEQAESFYKGFL
          EL.H.VRKILNL.VFEDESGKHWSKS.MDKQ..VLC..Q..LQCVLKGNKPDFHLAMP..QAE.FYKGFL
Retrocopy ELGHVVRKILNLCVFEDESGKHWSKSMMDKQ*DVLC--QSSLQCVLKGNKPDFHLAMPTGQAEAFYKGFL

Parental  EQLRKAYRPELVKDGKFGAYMQVHIQNDGPVTIELESPAPGAAASDPKQLSKLEKQQQRKEKTRAKGPSE
          E.L.KA.RPEL.K.GKF.A...VHIQNDGPVT.ELESPAPGA.ASDP..LSKLEKQQQR.EK.RAKGPS.
Retrocopy EPLYKAERPELIKGGKFSACLEVHIQNDGPVTMELESPAPGAVASDPEHLSKLEKQQQRTEKARAKGPSG

Parental  SSKERSAPRKEDRSASSGAEGDVSSEREP
          SSK.RSAP.KED..A.SGAEGD.SSEREP
Retrocopy SSKKRSAPCKEDHKAGSGAEGDMSSEREP

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	5.91 RPM
ERP005899_muscle	0.00 RPM	23.02 RPM
SRP017611_brain	0.00 RPM	15.81 RPM
SRP017611_kidney	0.06 RPM	21.46 RPM
SRP017611_liver	0.00 RPM	7.78 RPM
SRP030211_testis	0.01 RPM	45.18 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_767 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_767 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_767 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	ENSBTAG00000008964	1 retrocopy	retro_btau_767 ,
Macropus eugenii	ENSMEUG00000009170	2 retrocopies	retro_meug_137, retro_meug_1809,
Macaca mulatta	ENSMMUG00000012880	1 retrocopy	retro_mmul_217,
Monodelphis domestica	ENSMODG00000005696	1 retrocopy	retro_mdom_509,
Mus musculus	ENSMUSG00000027430	1 retrocopy	retro_mmus_2774,
Oryctolagus cuniculus	ENSOCUG00000010988	1 retrocopy	retro_ocun_1357,
Tupaia belangeri	ENSTBEG00000000242	1 retrocopy	retro_tbel_3434,