RetrogeneDB ID: retro_ecab_863

Retrocopy location

• Organism: Horse (Equus caballus)
• Coordinates: 5:71375919..71376198(-)
• Located in intron of: ENSECAG00000022721

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSECAG00000015686
• Aliases: None
• Description: None

Sequence

>retro_ecab_863
CAAGTAGAAGTCATAAAGCTGAAGAATACAACTAAACTGAAAAATACACTAGAGGGATTCAATAGCAAACTAGATGAAGC
AGAAGAAAGAATCAGTGAACTCAATGACAGGGCAGTGGAACTCACCCAATCAGAGCAGTGAAAAGAAAAAAGAATGAAAA
AAAGTAAAGTTAGTTTAAGGGACTTATGGAACAACATCAAGCAGACTAACATTCACATTAAAGGGGTCCCAGAAGAAGAA
AAAGAGAAATGGGCAAACAACTTGTTTGAAGAGATAGTG

Alignment

ORF - retro_ecab_863 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.26 %
• Parental protein coverage: 55.29 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QIEVTELKNTIPELTNTLEGFNSRLDEAEERISELNDRA-ELTQSEQQKEKRMKNTDNSLRELWDNIKHA
          Q.EV..LKNT...L.NTLEGFNS.LDEAEERISELNDRA.ELTQSEQ...........SLR.LW.NIK..
Retrocopy QVEVIKLKNTT-KLKNTLEGFNSKLDEAEERISELNDRAVELTQSEQXXXXXXXXXXXSLRDLWNNIKQT

Parental  NIRIIGVPEGEERDKGAENLFVEII
          NI.I.GVPE.EE..K.A.NLF.EI.
Retrocopy NIHIKGVPE-EEKEKWANNLFEEIV

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	0.00 RPM	0.00 RPM
SRP021940_embryo	0.00 RPM	0.00 RPM
SRP021940_placental_villous	0.00 RPM	0.00 RPM
SRP021940_synovial_membrane	0.00 RPM	0.00 RPM
SRP021940_testis	0.00 RPM	0.00 RPM

ChIP-Seq

Equus caballus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_ecab_863 retrocopy.

TSS

Equus caballus was not studied using FANTOM5 data.

Lab

retro_ecab_863 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_ecab_863 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 1 parental gene, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Equus caballus	ENSECAG00000015686	14 retrocopies	retro_ecab_1030, retro_ecab_1031, retro_ecab_1111, retro_ecab_1127, retro_ecab_207, retro_ecab_208, retro_ecab_326, retro_ecab_487, retro_ecab_491, retro_ecab_518, retro_ecab_607, retro_ecab_625, retro_ecab_863 , retro_ecab_881,