RetrogeneDB ID: retro_btau_239

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 5:29176589..29177450(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSBTAG00000038893
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: BT.28037
• Ensembl ID: ENSBTAG00000002655
• Aliases: None
• Description: ZW10 interactor [Source:RefSeq peptide;Acc:NP_001035619]

Sequence

>retro_btau_239
ATGGGGGCTGCAGAGTCTGAAGTGGAGACTGCAGCCCGAGAGGTCCTGGCCAAGGTAGCAGACATCCTGGAGCCTGTTGG
TTTTCAGGAGGAAGCTGAACTGCCTGCCCAGATCCTGGCTGAGTTTGTGATGGACTCTCGGAAGAAAGACAAGCTCCTTT
GCAGCCAGCTTCAAGTAGTAGACTTCCTGCAGAATTTCTTGGTTCAGGAAGGCACTGCCCAGGACCAGAACCCCTTGGCT
TCTGAAGACACAAGCCGGCAGAAGGCACTTGAAGCCAAAGAGCAATGGAAAGAGCTGAAGGCCACATATCAAGAGCATGT
GGAGGTTATCACAAATTCCCTGACCGAGGCACTGCCCAAGGTGGAGGAGGCCCAAATAAAGCAGGCACAGCTCCAGGAGG
CCCTTAAACAGCTCCAGGCCAAGAAGCAAATGGCCATGGAAAAACTCAGAATAGCCCAGAAGCAGTGGCAGCTGGAACAG
GAGAAGCATTTGCAGAATCTGGCAGAGGCTTCGTCAGAAGTGAGGGAGCGTCAGACAGGAGCTCAACAGGAACTTCAACG
ACTATATCAGGAACTTGGAACCCTGAAGCAGCAGGCAGGGCAGGAGAAGGACAAGCGGCAGAGGCACCAGACCTTCCTCC
AGCTGCTATACACCCTGCAGGGTAAGCAGCTATTCAATGAAGCAGAGGCAGAGATACCACAGGAGTTGGATCTTCCTAAG
GATAAGCTCCAGCAGGTGACCCAGCCCCAGGAACAGAACACTCAGGACACCATGGGAAGAGAGGCTGACAACCCACAGCC
TGTTGGAGATGCAGGCTTACCATGGCTTCCTGGCAGACAGCAACATAAGGAAGAATCCTAG

Alignment

ORF - retro_btau_239 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 99.65 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGAAESEVETAAREVLAKVADILEPVGFQEEAELPAQILAEFVMDSRKKDKLLCSQLQVVDFLQNFLVQE
          MGAAESEVETAAREVLAKVADILEPVGFQEEAELPAQILAEFVMDSRKKDKLLCSQLQVVDFLQNFLVQE
Retrocopy MGAAESEVETAAREVLAKVADILEPVGFQEEAELPAQILAEFVMDSRKKDKLLCSQLQVVDFLQNFLVQE

Parental  GTAQDQNPLASEDTSRQKALEAKEQWKELKATYQEHVEVITNSLTEALPKVEEAQIKQAQLQEALKQLQA
          GTAQDQNPLASEDTSRQKALEAKEQWKELKATYQEHVEVITNSLTEALPKVEEAQIKQAQLQEALKQLQA
Retrocopy GTAQDQNPLASEDTSRQKALEAKEQWKELKATYQEHVEVITNSLTEALPKVEEAQIKQAQLQEALKQLQA

Parental  KKQMAMEKLRIAQKQWQLEQEKHLQNLAEASSEVRERQTGAQQELQRLYQELGTLKQQAGQEKDKLQRHQ
          KKQMAMEKLRIAQKQWQLEQEKHLQNLAEASSEVRERQTGAQQELQRLYQELGTLKQQAGQEKDK.QRHQ
Retrocopy KKQMAMEKLRIAQKQWQLEQEKHLQNLAEASSEVRERQTGAQQELQRLYQELGTLKQQAGQEKDKRQRHQ

Parental  TFLQLLYTLQGKQLFNEAEAEIPQELDLPKDKLQQVTQPQEQNTQDTMGREADNPQPVGDAGLPWLPGRQ
          TFLQLLYTLQGKQLFNEAEAEIPQELDLPKDKLQQVTQPQEQNTQDTMGREADNPQPVGDAGLPWLPGRQ
Retrocopy TFLQLLYTLQGKQLFNEAEAEIPQELDLPKDKLQQVTQPQEQNTQDTMGREADNPQPVGDAGLPWLPGRQ

Parental  QHKEES
          QHKEES
Retrocopy QHKEES

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	3.68 RPM
ERP005899_muscle	0.16 RPM	10.61 RPM
SRP017611_brain	0.00 RPM	3.47 RPM
SRP017611_kidney	0.12 RPM	2.79 RPM
SRP017611_liver	0.00 RPM	1.89 RPM
SRP030211_testis	0.15 RPM	20.05 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_239 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_239 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_239 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000002655	1 retrocopy	retro_btau_239 ,
Echinops telfairi	ENSETEG00000007793	1 retrocopy	retro_etel_261,
Mus musculus	ENSMUSG00000019923	3 retrocopies	retro_mmus_1488, retro_mmus_2611, retro_mmus_997,
Rattus norvegicus	ENSRNOG00000048682	2 retrocopies	retro_rnor_1211, retro_rnor_1306,
Tarsius syrichta	ENSTSYG00000010283	1 retrocopy	retro_tsyr_1005,
Tursiops truncatus	ENSTTRG00000002204	1 retrocopy	retro_ttru_1193,