RetrogeneDB ID: retro_ecab_100

Retrocopy location

• Organism: Horse (Equus caballus)
• Coordinates: 11:50206903..50207332(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSECAG00000002695
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: BIRC5
• Ensembl ID: ENSECAG00000008466
• Aliases: None
• Description: baculoviral IAP repeat containing 5 [Source:HGNC Symbol;Acc:593]

Sequence

>retro_ecab_100
ATGGGTGCCCCGTTGTTGCCCCCGGCCTGGCAGCTCTCCCTCAAGGACCACCGCGTCTCTACCTTCAAGAACTGGCCCTT
CTTGGAGGGCTGCGCCTGTACCCCGGAGTGGATGGCGGTGGCCGGCTCCATCCACTGTCCCACTGAGAATGAGCCCAACT
TCGCGCAGGGTTTCTTCTGCTTTAAGGAGCTGCAAGGCTGGGAGCCAGACGAGGACCCCGTAGAGGAGCATGAAAAGCAT
TCATCCGGCTGTGCTTTCCTGTCTGTCAAGAAGCGGTTTGAAGAATTAACCCTCAGTGAATTTTTGAAACTGGACAAAGA
AAGAGCCAAGAACAAAGTTGCAAAGGAAACCAACAGTAACCAGAAAGAATTTGAAGAAACTGCAAAGAAGGTTCATTATG
CCATTGAGCAGCTGGCTGCCTTGGAGTGA

Alignment

ORF - retro_ecab_100 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.03 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGAPSLPPAWQLYLKDHRVSTFKNWPFLEGCACTPERMAAAGFIHCPTENEPDLAQCFFCFKELEGWEPD
          MGAP.LPPAWQL.LKDHRVSTFKNWPFLEGCACTPE.MA.AG.IHCPTENEP..AQ.FFCFKEL.GWEPD
Retrocopy MGAPLLPPAWQLSLKDHRVSTFKNWPFLEGCACTPEWMAVAGSIHCPTENEPNFAQGFFCFKELQGWEPD

Parental  DDPIEEHKKHSSGCAFLSVKKQFEELTLSEFLKLDKERAKNKIAKETNNKQKEFEETAKKVRYAIEQLAA
          .DP.EEH.KHSSGCAFLSVKK.FEELTLSEFLKLDKERAKNK.AKETN..QKEFEETAKKV.YAIEQLAA
Retrocopy EDPVEEHEKHSSGCAFLSVKKRFEELTLSEFLKLDKERAKNKVAKETNSNQKEFEETAKKVHYAIEQLAA

Parental  LE
          LE
Retrocopy LE

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
SRP021940_articular_cartilage	0.00 RPM	0.00 RPM
SRP021940_cerebellum	0.05 RPM	0.31 RPM
SRP021940_embryo	0.26 RPM	16.65 RPM
SRP021940_placental_villous	0.00 RPM	0.82 RPM
SRP021940_synovial_membrane	0.00 RPM	2.50 RPM
SRP021940_testis	0.00 RPM	75.84 RPM

ChIP-Seq

Equus caballus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ecab_100 retrocopy.

TSS

Equus caballus was not studied using FANTOM5 data.

Lab

retro_ecab_100 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ecab_100 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000013573	1 retrocopy	retro_btau_1347,
Cavia porcellus	ENSCPOG00000027390	1 retrocopy	retro_cpor_1355,
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,