RetrogeneDB ID: retro_atau_6

Retrocopy location

• Organism: Tausch goatgrass (Aegilops tauschii)
• Coordinates: Scaffold35380:27525..28455(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: F775_00973
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: F775_26048
• Aliases: None
• Description: None

Sequence

>retro_atau_6
ATGACCAGAGGGAGGCGCCGCGAGCACTACCAGTGGAACATGGACGTCTTCGGCGTGCCCGGCGTTCGCGCCGAGGCCGA
GCTTCTCCAGGCCATTGTGCTCCTCTTCGAGCGCCTCGGGGTCGCGTCCTCCGACGTGGGGATCAGGCTCTCCAGCCGGA
AGGTTCTGCAGGTGGTGCTCGACATGTACTCCGTGCCGCAGCACCTGTTCACCAAGGTCTGTGTGATTGTTGACAAGCTG
GGGAAGATGAGCAGAGACGAGATTGAGAAGGAATTGGTCTCCACTGGGCTGCCATGTGAAGCTGTGCAGGGCATCATTGA
TGTGCTTTCTCTGAAGTCACTGTCTGAGCTCGAACAGGTGCTGGGCTCTGGTGCTGCTGAAGCTGTTGCTGACCTGAAGA
AGCTCTTCTCCTTCGCCGAGCAGTATGGTTACGCCGATTGGATCTGTTTCGACGCGTCGGTTGTTCGCGGCCTTGCGTAC
TACACGGGGATCGTGTTCGAGGCTTTCGATAGGCAAGGGGAGCTGAGGGCGATCTGCGGTGGGGGGAGGTATGATAGGCT
GCTTTCAACATTTGGAAGTGAAGATGTGCCGGCCTGTGGGTTTGGGTTTGGGGACGCTGTTATCGTCGAACTGCTGAAAG
AGAAGGGTCTTCTGCCTCATCTGTCGCCCCAAATAGACGACATTGTCTTCCCATTGGATGATGAGCTTCAGGGACCAGCA
TCCTGTGTCGCATCCTCTCTGCGGAAGAATGGCAGATCTGTAGACCTTGTGCAAGACAAGCGTCTGAAATGGGTGTTTAA
ACATGCGGAGAGGGTAAATGCTAGCAGGCTGGTTCTGGTTGGGAAATCTGAGTGGGAGCGAGGCATGGTTCGTGTGAAGA
TTCTGTCTACCAAAGAGGAATTTGAGGTCAAGGCAGGCGAATTACAGTAA

Alignment

ORF - retro_atau_6 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.64 %
• Parental protein coverage: 64.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MTRGRRREHYQWNMDIFGMPKVRAEAELIQAIVLLFERLGITSSDVGIRLSSRKVLQAVLDMYSVPQHLF
          MTRGRRREHYQWNMD.FG.P.VRAEAEL.QAIVLLFERLG..SSDVGIRLSSRKVLQ.VLDMYSVPQHLF
Retrocopy MTRGRRREHYQWNMDVFGVPGVRAEAELLQAIVLLFERLGVASSDVGIRLSSRKVLQVVLDMYSVPQHLF

Parental  TQVCVIVDKLGKLSREEIEKELISTGLSSEAVQGIIEVLSLKSLSKLEEVLGSGV-EAVADLKKLFSLAE
          T.VCVIVDKLGK.SR.EIEKEL.STGL..EAVQGII.VLSLKSLS.LE.VLGSG..EAVADLKKLFS.AE
Retrocopy TKVCVIVDKLGKMSRDEIEKELVSTGLPCEAVQGIIDVLSLKSLSELEQVLGSGAAEAVADLKKLFSFAE

Parental  QYGYADWICFDASVVRGLAYYTGIVFEAFDREGELRAICGGGRYDRLLSTFGTEDVPACGFGFGDAVIVE
          QYGYADWICFDASVVRGLAYYTGIVFEAFDR.GELRAICGGGRYDRLLSTFG.EDVPACGFGFGDAVIVE
Retrocopy QYGYADWICFDASVVRGLAYYTGIVFEAFDRQGELRAICGGGRYDRLLSTFGSEDVPACGFGFGDAVIVE

Parental  LLKEKGLLPDLPRQIDDIVFPLDEELEGPASSVASSLRKKGRSVDLVEDKRLKWVFKHAERINASRLILV
          LLKEKGLLP.L..QIDDIVFPLD.EL.GPAS.VASSLRK.GRSVDLV.DKRLKWVFKHAER.NASRL.LV
Retrocopy LLKEKGLLPHLSPQIDDIVFPLDDELQGPASCVASSLRKNGRSVDLVQDKRLKWVFKHAERVNASRLVLV

Parental  GKSEWERGMVRVKILSTREEFEVKAGELQ
          GKSEWERGMVRVKILST.EEFEVKAGELQ
Retrocopy GKSEWERGMVRVKILSTKEEFEVKAGELQ

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_6 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_26048	1 retrocopy	retro_atau_6 ,