RetrogeneDB ID: retro_atau_19

Retrocopy location

• Organism: Tausch goatgrass (Aegilops tauschii)
• Coordinates: Scaffold45489:197180..198251(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: F775_12603
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: F775_31142
• Aliases: None
• Description: None

Sequence

>retro_atau_19
ATGGCGCTCAGCACCTGCGTCCTCCCTTCGTTCTCCCCCCAGGCCGCCGTCCTACGCCGTACGTCCACCGTCGCCAACGC
TGCTGCAGCCTCCCGGATTGGCGGCTTCCTCTCCAGCAAGCCCTACGCGCCGCCGCCCTGGGCGTCGGGCCTCTCCCACG
CCCCGTCCCACACCTTCACCCTCGGCCACTTCCCGACCCCGATCCACAGGTGGGACCTGCCCGAGCTCCCCAGAGACACC
GAGGTGTGGATCAAGCGGGACGACCTCGCCGGCATGCAGCTGAGCGGCAACAAGGCCCGGAAGCTCGAGTTCCTCGTGGC
GGACGCCGCCGCGCGGGGCGCCGACTGCGTCGTCACCGCCGGCGGCATCCAGAGCAACCACTGCCGGGCCACCGCCGTGG
CCGCCAAGTACGCCGGCCTCGACTCCTATCTGATACTCTGCACCTCCAAGCCCCTCGTGGACCGGGACCCTGGTCTCGTC
GGCAACCTGCTCGTCGAGAGGCTGCTGGGCGCGCACATCAACCTGGTCTCGCAGAGAGAATTTTTGAAGTTCGGGAGCGT
GGCTCTGACTGAACTGCTGGAGAAGAGGCTCCTGGAAGAAGGCCGGCGGCCGTACGTGATCCCTGCCGGCGGATCAAACG
CACTGGGGAACTGGGGATACATCGAAGCAGTCAGAGAGATTGAGGAACAGATTCAGTTATCTGGCGGCGATGTTCAGTTT
GACGACATTGTCGTCGCGTGCGGCAGCGGTGGGACAGTCGCCGGCCTCGCTTTGGGATCGCAGCTGAGTAGCCTGAAGGC
CAAAGTCCACGCCTTCTCTGTCTGCTATGGCCCTAAATACTTCTACGACTGTGTTCAAGGTCTGATCGATGAGCTTCAGT
CTGGTCTCAACTCACATGATATAGTCAGCATTGAAGATGCCAAGGGCTTGGGTTACGCCAGGAGCACGGCCGAGGAGCTT
AGGTTTGTGAAGGATGTCGCCGCGGCGACAGGCATCGTGCTCGATCCGGTCTACACCGGAAAGGCGGCGTACAGTATGGT
GAAGGACATGTCAGATAATCCAGGCAGCTGA

Alignment

ORF - retro_atau_19 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.23 %
• Parental protein coverage: 61.32 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LSGNKVRKLEFLLSDAVAQGADCVITVGGIQSNHCRATAVAAKYLNLDCYLILRTSKLLVDQDPGLVGNL
          LSGNK.RKLEFL..DA.A.GADCV.T.GGIQSNHCRATAVAAKY..LD.YLIL.TSK.LVD.DPGLVGNL
Retrocopy LSGNKARKLEFLVADAAARGADCVVTAGGIQSNHCRATAVAAKYAGLDSYLILCTSKPLVDRDPGLVGNL

Parental  LVERLLGAHIDLVSKEEYGKIGSVALADLLKKRLLEEGRKPYVIPVGGSNSLGTWGYIEAVRELEQQIQL
          LVERLLGAHI.LVS..E..K.GSVAL..LL.KRLLEEGR.PYVIP.GGSN.LG.WGYIEAVRE.E.QIQL
Retrocopy LVERLLGAHINLVSQREFLKFGSVALTELLEKRLLEEGRRPYVIPAGGSNALGNWGYIEAVREIEEQIQL

Parental  S-GDVQFDDIVVACGSGGTIAGLALGSKLSSLKAKVHAFSVCDDPEYFYDYVQGLIDGLQSGLDSHDIVS
          S.GDVQFDDIVVACGSGGT.AGLALGS.LSSLKAKVHAFSVC..P.YFYD.VQGLID.LQSGL.SHDIVS
Retrocopy SGGDVQFDDIVVACGSGGTVAGLALGSQLSSLKAKVHAFSVCYGPKYFYDCVQGLIDELQSGLNSHDIVS

Parental  IQNAKGLGYAMNTAEELKFVKDIATATGIVLDPVYSGKGAYAMLKDMADNP
          I..AKGLGYA..TAEEL.FVKD.A.ATGIVLDPVY.GK.AY.M.KDM.DNP
Retrocopy IEDAKGLGYARSTAEELRFVKDVAAATGIVLDPVYTGKAAYSMVKDMSDNP

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_19 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_31142	1 retrocopy	retro_atau_19 ,