RetrogeneDB ID: retro_atau_8

Retrocopy location

• Organism: Tausch goatgrass (Aegilops tauschii)
• Coordinates: Scaffold62600:28057..28606(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: F775_32043
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: F775_23448
• Aliases: None
• Description: None

Sequence

>retro_atau_8
ATGGCCATCGCGTCCCCGCCGGGGGGAGGCGCCTTCGAGTTCCTCGTCAAGGCCGTGCCCGGCGCCACCGCGGAGAAGCT
CTGCGGCCTCCGCGACGGCGACGTGGTGGAGCTCGGCGCGGTCATGGGCAAGGGGTTCCCGATCGAGAGGGTGACCCCGG
CCGACGCCGCGGAGACGCTGCTCCTCTTCGCCACCGGGACCGGGATCAGCCCGATCCGCTCGCTCATCGAGTTCGGCTTC
GCGGCCAAGCAGCGAGCTGATGTGAGGCTCTACTATGGCGCCAGGAATCTGGAAACAATGGCGTATCAGGAGAGATTTGC
AGAGTGGGAGTCATCTGGGCTCAAGATTGTGCCGGTCCTGTCACGGCCAGATGATGGCTGGAAAGGTGAAAGGGGTTATG
TTCAGCGCGCGTTCTTGGAAGCCAAGAACATTGCCAATCCTACTTCCACTGGGGCTGTGCTATGCGGGCAAAGCCAAATG
ATCGAGGAGGTCACCTCGGCCCTTACAGCAGATGGCGTATCACAGGATAAAATCTTGAAGAACTTCTAG

Alignment

ORF - retro_atau_8 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.96 %
• Parental protein coverage: 66.93 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SFDFLVKRLPGTPSARLCDLQPGDLVPVGGSVVGRGFEVTRI--ADARD-VLVFATGSGISPIRSLIESG
          .F.FLVK..PG.....LC.L..GD.V..G..V.G.GF...R...ADA....L.FATG.GISPIRSLIE.G
Retrocopy AFEFLVKAVPGATAEKLCGLRDGDVVELG-AVMGKGFPIERVTPADAAETLLLFATGTGISPIRSLIEFG

Parental  FGENEKIDVSLFYGVRNLQRMAYQERFSDWESRGIKIIPVLSRPDEQWTGQRGYVQNAFSRAKKIINPSS
          F......DV.L.YG.RNL..MAYQERF..WES.G.KI.PVLSRPD..W.G.RGYVQ.AF..AK.I.NP.S
Retrocopy FAAKQRADVRLYYGARNLETMAYQERFAEWESSGLKIVPVLSRPDDGWKGERGYVQRAFLEAKNIANPTS

Parental  TGAILCGHKQMTEEITRSLVADGMPKDQILTNF
          TGA.LCG..QM.EE.T..L.ADG...D.IL.NF
Retrocopy TGAVLCGQSQMIEEVTSALTADGVSQDKILKNF

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_8 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_23448	1 retrocopy	retro_atau_8 ,