RetrogeneDB ID: retro_atau_46

Retrocopy location

• Organism: Tausch goatgrass (Aegilops tauschii)
• Coordinates: Scaffold306:54580..55666(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: F775_26510
• Aliases: None
• Description: None

Sequence

>retro_atau_46
ATGGCAATGCGGAGGCTGCTTCAGGGGGTCGTTCTGCCGCGGACGACGGGCCGGTGTGTTGGGGCGTCCTCCTTCTCCAC
GTCCACGGAGGCCATCCGCGCAACCCTCTTCCCCGGCGATGGCATCGGGCCGGAGATCGCCGAGTCGGTGAAGCAGGTGA
TCAATGTTGCAGGCGTGCCAATAGAGTGGGAAGAGCATTACGTCGGCACGGAGGTTGATCCCAGGACACAGAGCTTCTTG
ACATGGGAAAGCCTGGAGTCCGTGCGGAGGAACAAAGTTGGCTTGAAAGGCCCCATGGCCACACCCATCGGAAAAGGCCA
CCGCTCTCTGAATCTCACGCTGAGGAAGGAGCTCGGGCTCTACGCCAATGTCAGGCCTTGCAACAGCCTCCCGGGGTACA
AGACCAGATACGATGATGTGAACCTGGTGACAATCCGCGAAAACACTGAAGGGGAGTACAGCGGCCTCGAGCATCAGGTC
GTGAAGGGCGTCGTTGAAAGCCTGAAGATCATCACCCGCCAGGCGAGCCTGAGGGTCGCGGAGTACGCCTTCCACTACGC
CAAGGCCAATGGCAGGGAGAGGGTCTCGGCGATACACAAGGCCAACATCATGAGGAAGACAGACGGGCTTTTCCTACAGT
GCTGCCGCGAGGTGGCCGCCAAGTACCCTGAGATCAAGTACGAGGAGGTCGTCATCGACAACTGCTGCATGGAGCTCGTC
AAGGACCCTGGCACGTATGATGTGCTGGTCATGCCGAACCTGTACGGCGACATTATCAGCGATCTGTCCGCTGGTTTGAT
TGGAGGCTTGGGCTTGACTCCCAGCTGCAACATTGGTGAAGGCGGCATTTGTCTCGCGGAGGCCGTTCATGGCTCTGCGC
CTGATATCTCCGGCAAGAACCTTGCAAACCCGACTGCTCTTATGCTGAGTGCTGTCATGATGTTGCGCCACCTCCGTTTC
AACGACCAGGCAGACCGCATCCACAATGCCATCCTCCGCACCATCGCCGACGGCAAGTACAGAACCGCTGATCTTGGTGG
CAAGTCATCGACGTCAGACTACACAAAAGCAGTTTGCGGTCATATC

Alignment

ORF - retro_atau_46 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.09 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MALRRLLQGIVLPRTTGRHVGASFSTEAGETIRATLFPGDGIGPEIAESVKQVFNVAGVPIEWEEHYVGT
          MA.RRLLQG.VLPRTTGR.VGAS......E.IRATLFPGDGIGPEIAESVKQV.NVAGVPIEWEEHYVGT
Retrocopy MAMRRLLQGVVLPRTTGRCVGASSFSTSTEAIRATLFPGDGIGPEIAESVKQVINVAGVPIEWEEHYVGT

Parental  EVDPRTESFLTWESLESVRRNKVGLKGPMATPIGKGHRSLNLTLRKELGLYANVRPCNSLPGYKTRYDDV
          EVDPRT.SFLTWESLESVRRNKVGLKGPMATPIGKGHRSLNLTLRKELGLYANVRPCNSLPGYKTRYDDV
Retrocopy EVDPRTQSFLTWESLESVRRNKVGLKGPMATPIGKGHRSLNLTLRKELGLYANVRPCNSLPGYKTRYDDV

Parental  NLVTIRENTEGEYSGLEHQVVRGVVESLKIITRQASLRVAEYAFHYAKANGRERVSAIHKANIMRKTDGL
          NLVTIRENTEGEYSGLEHQVV.GVVESLKIITRQASLRVAEYAFHYAKANGRERVSAIHKANIMRKTDGL
Retrocopy NLVTIRENTEGEYSGLEHQVVKGVVESLKIITRQASLRVAEYAFHYAKANGRERVSAIHKANIMRKTDGL

Parental  FLKCCREVAEKYPEITYEEVIIDNCCMTLVKNPGTFDVLVMPNLYGDIISDLCAGLIGGLGLTPSCNIGE
          FL.CCREVA.KYPEI.YEEV.IDNCCM.LVK.PGT.DVLVMPNLYGDIISDL.AGLIGGLGLTPSCNIGE
Retrocopy FLQCCREVAAKYPEIKYEEVVIDNCCMELVKDPGTYDVLVMPNLYGDIISDLSAGLIGGLGLTPSCNIGE

Parental  GGICLAEAVHGSAPDISGKNLANPTALMLSAVMMLRHLQFNDQADRIHNAILQTIAEGKYRTADLGGKSS
          GGICLAEAVHGSAPDISGKNLANPTALMLSAVMMLRHL.FNDQADRIHNAIL.TIA.GKYRTADLGGKSS
Retrocopy GGICLAEAVHGSAPDISGKNLANPTALMLSAVMMLRHLRFNDQADRIHNAILRTIADGKYRTADLGGKSS

Parental  TSDYTKAVCDHI
          TSDYTKAVC.HI
Retrocopy TSDYTKAVCGHI

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_46 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Aegilops tauschii	F775_26510	1 retrocopy	retro_atau_46 ,
Hordeum vulgare	MLOC_16373	1 retrocopy	retro_hvul_7,