RetrogeneDB ID: retro_btau_428

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 11:22879199..22879634(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MPZL2
• Ensembl ID: ENSBTAG00000033510
• Aliases: MPZL2, EVA1
• Description: Myelin protein zero-like protein 2 [Source:UniProtKB/Swiss-Prot;Acc:Q5EAB0]

Sequence

>retro_btau_428
ATGTATGGCAAGAGCCCTACGCGTGCTGTGCTTTTTCTCCTTGGCACACAGTTCACAGCTCTTTGGCCAGTGGCAGCTGT
GGAAATTTACACTCCTTGTGTGCTGGAGGCTGTCAATGGGACAGATGTTCGATTAAACCACACCATCTCCTGCTTTGCCT
CTGTGGGTGATGCTCTCACGGTGACCTGGAATTCCCAGCCTTGATATGGAGGCCCTAAACAGTTTGCTTTCTACTACCAT
GTGGGACCCTTCAAACCCACGAGTGGGCGTTTTAAGGACTTCGTGGTCTGGGATGGGAACCCAGAGCGGTATGATGTCTC
CATCCTCCTCTGGAAGCTGTGGTTTGATGACAATGGGACACACACCTGTCAGGTGAAGAACCCACCTGATGTTGATGGGC
TGATCAGGGAGATCCAGCTCAGCATCATGCAGACT

Alignment

ORF - retro_btau_428 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.45 %
• Parental protein coverage: 67.44 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MYGKSPTRAVLFLLGLQLTALWPTAAVEIYTPRVLEAVNGTDVRLKCTFSSFAPVGDALTVTWNFRPRDG
          MYGKSPTRAVLFLLG.Q.TALWP.AAVEIYTP.VLEAVNGTDVRL..T.S.FA.VGDALTVTWN..P..G
Retrocopy MYGKSPTRAVLFLLGTQFTALWPVAAVEIYTPCVLEAVNGTDVRLNHTISCFASVGDALTVTWNSQP*YG

Parental  GPEQFVFYYHVDPFKPMSGRFKDRVAWDGNPERYDVSILLWKLQFDDNGTYTCQVKNPPDVDGLIGEIQL
          GP.QF.FYYHV.PFKP.SGRFKD.V.WDGNPERYDVSILLWKL.FDDNGT.TCQVKNPPDVDGLI.EIQL
Retrocopy GPKQFAFYYHVGPFKPTSGRFKDFVVWDGNPERYDVSILLWKLWFDDNGTHTCQVKNPPDVDGLIREIQL

Parental  SVVQT
          S..QT
Retrocopy SIMQT

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	6.27 RPM
ERP005899_muscle	0.05 RPM	21.01 RPM
SRP017611_brain	0.00 RPM	1.78 RPM
SRP017611_kidney	0.06 RPM	43.45 RPM
SRP017611_liver	0.00 RPM	3.10 RPM
SRP030211_testis	0.00 RPM	1.19 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_428 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_428 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_428 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	ENSBTAG00000033510	1 retrocopy	retro_btau_428 ,