RetrogeneDB ID: retro_atau_40

Retrocopy location

• Organism: Tausch goatgrass (Aegilops tauschii)
• Coordinates: Scaffold263676:2363..2789(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: F775_32747
• Aliases: None
• Description: None

Sequence

>retro_atau_40
TCGAGCATCGGGAGTGAAGGCATGAGCGAGAACCAAACGTACGATTCCTCCAGCATCAAGGTGCTGAAAGGACTGGACGC
CGTACGCAAACGTCCCGGGATGTACATCGGTGACACTGACGATGGTAGCGGTCTGCACCACATGGTGTTTGAGGTGGTCG
ATAACTCGATCGACGAAGCGCTAGCGGGCTACTGCAGCGAAATCACCATCACTATTCACCCGGATGAGTCGATCAGCGTG
CGTGACAACGGCCGTGGCATCCCGGTCGACATGCACAAGGAAGAAGGCGTCTCGGCAGCCGAGGTCATCATGACCGTGCT
GCACGCCGGCGGTAAGTTCGATGACAACAGCTACAAGGTGTCCGGCGGCCTGCACGGCGTGGGTGTCTCGGTGGTTAACG
CCCTCTCCAAGGAGCTGGTGCTGACC

Alignment

ORF - retro_atau_40 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.06 %
• Parental protein coverage: 59.35 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  STAASDAMQEKRVAGEYTAANVQVLEALDGVRKRPGMYIGSTGP-RGLHHLVYEILDNAVDEAQAGYATE
          S...S..M.E......Y......VL..LD.VRKRPGMYIG.T....GLHH.V.E..DN..DEA.AGY..E
Retrocopy SSIGSEGMSENQT---YDSSSIKVLKGLDAVRKRPGMYIGDTDDGSGLHHMVFEVVDNSIDEALAGYCSE

Parental  INVVFHDDNSVSVTDNGRGIPTDIHPQTKKSCVETVLTLMHAGGKFGGSTSSYSVAGGLHGVGLSVVNAL
          I....H.D.S.SV.DNGRGIP.D.H.....S..E...T..HAGGKF.....SY.V.GGLHGVG.SVVNAL
Retrocopy ITITIHPDESISVRDNGRGIPVDMHKEEGVSAAEVIMTVLHAGGKF--DDNSYKVSGGLHGVGVSVVNAL

Parental  SEVLAFT
          S..L..T
Retrocopy SKELVLT

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_40 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Aegilops tauschii	F775_32747	1 retrocopy	retro_atau_40 ,