RetrogeneDB ID: retro_atau_24

Retrocopy location

• Organism: Tausch goatgrass (Aegilops tauschii)
• Coordinates: Scaffold22826:10110..10422(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: F775_05470
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: F775_28085
• Aliases: None
• Description: None

Sequence

>retro_atau_24
ATGGGGAAGCGGAAGTCGACGCGCGCGAAGACGGCGCCGCGGAAGAAGGCGGAGAAGCTGGACACGACCTTCTGCTGCCC
CTTCTGCAACCACCCCGGCAGCATCGACTGCAAGATCGACCTCAAGCACATGGTCGCCGAGGCCTCGTGCAACACGTGCA
GCGAGAGCTACTCCACCACGGCGCACGCCCTCACCGAGCCCGTCGACGTCTACGCCGAGTGGATCGACGAGTGCGAGAAG
GCCAACGCCGACCGGGACGAGGCCAGCAACGACGTCGTTCGGGAAGAGGTGGACGACGACGAGTACGCATGA

Alignment

ORF - retro_atau_24 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.62 %
• Parental protein coverage: 96.63 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGKRKSA-AKPPPKKRMDKLDTVFSCPFCNHGSSVECRIDMKNLIGEANCRICQESFSTTVNALTEPIDI
          MGKRKS..AK..P.K...KLDT.F.CPFCNH..S..C.ID.K....EA.C..C.ES.STT..ALTEP.D.
Retrocopy MGKRKSTRAKTAPRKKAEKLDTTFCCPFCNHPGSIDCKIDLKHMVAEASCNTCSESYSTTAHALTEPVDV

Parental  YSEWIDECERVNTVEDD
          Y.EWIDECE..N...D.
Retrocopy YAEWIDECEKANADRDE

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Aegilops tauschii was not studied using RNA-Seq expression data.

ChIP-Seq

Aegilops tauschii was not studied using ChIP-Seq data.

EST

Aegilops tauschii was not studied using EST data.

TSS

Aegilops tauschii was not studied using FANTOM5 data.

Lab

retro_atau_24 was not experimentally validated.

Homology

Retrocopy orthology:

Aegilops tauschii does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

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Parental genes homology:

Parental genes homology involve 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryza sativa indica	BGIOSGA007878	1 retrocopy	retro_oind_10,
Aegilops tauschii	F775_28085	1 retrocopy	retro_atau_24 ,
Oryza barthii	OBART07G23140	1 retrocopy	retro_obar_9,
Oryza glumaepatula	OGLUM07G23200	1 retrocopy	retro_oglu_13,
Oryza nivara	ONIVA07G23000	1 retrocopy	retro_oniv_49,
Oryza sativa japonica	OS07G0631100	1 retrocopy	retro_osat_82,
Sorghum bicolor	Sb10g003710	1 retrocopy	retro_sbic_12,
Setaria italica	Si007595m.g	2 retrocopies	retro_sita_49, retro_sita_50,