RetrogeneDB ID: retro_atau_57

Retrocopy location

• Organism: Tausch goatgrass (Aegilops tauschii)
• Coordinates: Scaffold46148:60555..61590(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: F775_06068
• Aliases: None
• Description: None

Sequence

>retro_atau_57
AAGGTGAAGTTCTGCGGCGTCATACAGTACGCCAACCTCGTCGGCATCACCATTGGCTACACCATCGCCGCCTCCATCAG
CTTTCATGCCATCACGAGGGCCAACTGCTTCCACAACAAGGGGCACCACGACGCGTGCCATAGCTCCAGCACGCCCTACA
TGATCGGCTTCGGCGCCGCGCGGATGGTCTTCTCTCAGATACCCAACTTCGATCAGATACGGTGGCTCTCCGTCGTCGCC
TCCGTCATGTCCTTCACCTACTCCGGCATCGGGCTCGGGCTCGGAATCGCCCAGACCGATGACAACGGCGGCTTCCGAGG
CACCCTCACTGGCATCGCCATCGCGGGCGTCACCGTGATGCAGAAGCTGTGGCGCATCCTGCAGGCGCTGGGCAACATCA
CCTTCGCCTACACCATCAAGTCGCCACCGCCGTCGGAGGCGGCCGTGATGAAGAAGGCCACGGCGCTGAGCGTGGCCACC
ACCACAGCGTTCTACGTCATGTGCGGGTGCATGGGCTACGCGGCCTTCGGCAACGACGCGCCGGACAACCTCCTCACCGG
ATTTGGCTTCTACGAGCCCTTCTGGCTGGTGGACGTCGCCAACGGCGCCATCGTCGTGCACCTCGTCGGCGCCTACCAGG
TCTTCTGCCAGCCCATCTTCGCCTTCGTCGAGCGCTGGGCCGCCGCCAGATGGCCGGAGAGCGGTTTCGTCACGCGGGAA
CTTGGGGTCGGGCCGTTCGCGCTGAGCGCGCTCCGGCTTGTCTGGCGCTCGGGGTTCGTGTGCCTGACCACCTTGGTCGT
CATGGCAATGCCATCCTTCGGCGCCATCGTGGGGCTCATGGGCGCGCTCTCGTTCTGGCCGCTCACCGTCTACTTCCCCG
TGGAGATGTACATGAAGCAGCGCGCCGTGGCGCGCGGGGGCGCGAGGTGGCTCTGCCTCAAGGCGCTCACCGGCACCTGC
CTCGTCGTGTCGGTGGCCGCCACCGTGGGATCAATCGCCGGCATGGTCGGCGCATTCAAGGTGTTCCGCCCTTTC

Alignment

ORF - retro_atau_57 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.52 %
• Parental protein coverage: 85.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QVWFCGLCQYVNLVGTAIGYTITASISAAALYKADCFHKNGHSADCGVYTTMYMAVFGISQIVFSQLPNL
          .V.FCG..QY.NLVG..IGYTI.ASIS..A...A.CFH..GH...C....T.YM..FG....VFSQ.PN.
Retrocopy KVKFCGVIQYANLVGITIGYTIAASISFHAITRANCFHNKGHHDACHSSSTPYMIGFGAARMVFSQIPNF

Parental  HEIAWLSILAAVMSFSYSAIGVGLALAQTISGPTGKTTMGGTEI-GVDVTNSAQKIWLTLQALGNIAFAY
          ..I.WLS..A.VMSF.YS.IG.GL..AQT........T..G..I.GV.V....QK.W..LQALGNI....
Retrocopy DQIRWLSVVASVMSFTYSGIGLGLGIAQTDDNGGFRGTLTGIAIAGVTVM---QKLWRILQALGNIT--F

Parental  SYSMDTVKAPPAENKTMRRANLLGVSTTTAFYMLCGCLGYAAFGNAAPGNMLTGFGFYEPFWLIDFANIC
          .Y.......PP.E...M..A..L.V.TTTAFY..CGC.GYAAFGN.AP.N.LTGFGFYEPFWL.D.AN..
Retrocopy AYTIKS--PPPSEAAVMKKATALSVATTTAFYVMCGCMGYAAFGNDAPDNLLTGFGFYEPFWLVDVANGA

Parental  IVVHLIGAYQLYCQPIYAAVESWAAARWPGSDFVVRQYHPFAGGNFSVSMFKLVWRTAFVAVSTVLAILM
          IVVHL.GAYQ..CQPI.A.VE.WAAARWP.S.FV.R.......G.F..S...LVWR..FV...T.....M
Retrocopy IVVHLVGAYQVFCQPIFAFVERWAAARWPESGFVTRE---LGVGPFALSALRLVWRSGFVCLTTLVVMAM

Parental  PFFNAILGLLGALAFWPLTVYFPVEMYKRQSKVERFSKKWVVLQSLSFTCFAVTAAVTVASVQGITQSLN
          P.F.AI.GL.GAL.FWPLTVYFPVEMY..Q..V.R....W..L..L..TC..V..A.TV.S..G......
Retrocopy PSFGAIVGLMGALSFWPLTVYFPVEMYMKQRAVARGGARWLCLKALTGTCLVVSVAATVGSIAGMVGAFK

Parental  NYVPF
          ...PF
Retrocopy VFRPF

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_57 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_06068	1 retrocopy	retro_atau_57 ,