RetrogeneDB ID: retro_btau_1347

Retrocopy location

• Organism: Cow (Bos taurus)
• Coordinates: 4:47508244..47508671(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSBTAG00000019824
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: BIRC5
• Ensembl ID: ENSBTAG00000013573
• Aliases: None
• Description: Baculoviral IAP repeat-containing protein 5 [Source:UniProtKB/Swiss-Prot;Acc:Q6J1J1]

Sequence

>retro_btau_1347
ATGGGCACCCGGTGGTTGCCTCCGGCCTGGGAGCTCTACCTCAAGAACCACTGCATCTCCACATTTAAGAACTGGCCCTT
CTTAGAGGGCTGCGTCTGCATCTCGGAGCAGATGGCTGCCGGCAGGCTTCATCCACTGTCCCACTGAGAGCAAGCCTGAC
TTGGCTCAGTGTTTCTTCTGCTTCAAGGAGTTGGAAGGCTGGGAGCCAGATGACGACCCTATAGAAGAACATAAAAAGCA
TTCATCTGGTTGTGCTTTCCTTTCTGTCAAGAAGCAGTTTGAAGAATTAACCCTCAGTGAATTTTTGAAACTGGATAAAG
AAAGAATCAAGAACAAAATCGCAAAGGAAGCCAACAATAAACAGAAAGAATTTGAAGAAACTGCAAAGAAAGTCTGCTTT
GCCATAGAGCAGCTGGCTGCCTTGGAA

Alignment

ORF - retro_btau_1347 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.41 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MGAQSLPPAWQLYLKDHRVSTFKNWPFLEGCACTPERMAA-AGFIHCPTENEPDLAQCFFCFKELEGWEP
          MG...LPPAW.LYLK.H..STFKNWPFLEGC.C..E.MAA.AGFIHCPTE..PDLAQCFFCFKELEGWEP
Retrocopy MGTRWLPPAWELYLKNHCISTFKNWPFLEGCVCISEQMAA>AGFIHCPTESKPDLAQCFFCFKELEGWEP

Parental  DDDPIEEHKKHSSGCAFLSVKKQFEELTLSEFLKLDKERTKNKIAKETNNKQKEFEETAKKVRCAIEQLA
          DDDPIEEHKKHSSGCAFLSVKKQFEELTLSEFLKLDKER.KNKIAKE.NNKQKEFEETAKKV..AIEQLA
Retrocopy DDDPIEEHKKHSSGCAFLSVKKQFEELTLSEFLKLDKERIKNKIAKEANNKQKEFEETAKKVCFAIEQLA

Parental  ALE
          ALE
Retrocopy ALE

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	1.23 RPM
ERP005899_muscle	0.00 RPM	19.22 RPM
SRP017611_brain	0.00 RPM	1.64 RPM
SRP017611_kidney	0.00 RPM	1.90 RPM
SRP017611_liver	0.00 RPM	0.15 RPM
SRP030211_testis	0.03 RPM	107.46 RPM

ChIP-Seq

Bos taurus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_btau_1347 retrocopy.

TSS

Bos taurus was not studied using FANTOM5 data.

Lab

retro_btau_1347 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_btau_1347 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 5 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000013573	1 retrocopy	retro_btau_1347 ,
Equus caballus	ENSECAG00000008466	1 retrocopy	retro_ecab_100,
Myotis lucifugus	ENSMLUG00000006281	1 retrocopy	retro_mluc_254,
Macaca mulatta	ENSMMUG00000013767	1 retrocopy	retro_mmul_19,
Monodelphis domestica	ENSMODG00000001871	2 retrocopies	retro_mdom_307, retro_mdom_996,