RetrogeneDB ID: retro_taes_116

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 3A:4034008..4034767(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_5DS_2145F8A9E
• Aliases: None
• Description: None

Sequence

>retro_taes_116
GATCAATCTGATGAGAATCTGGGCAGGGAGGTTAGAGAGGTTGAAGCTGATGGGTTGGATGGTAAGGAAGCAGAGGAGCT
TCAAGAGATTCAGGAGCAGGTGGATGAAATTGTTGCTGATGAATTGGATGGCAAACCTATAGATAATTTGGATCCAAACG
CAAGCCAGGAAAGTGCTGAGATCATTAATGATCTGGACAGTGAAGATGTGAAGAATCCTAACCAAAATTCAGTGAAGAGC
TGCGTCGAGAATGAGGTCACACCAAATGCCACCAAAGGTGTGAAGAATTCCGATGAAAGCTCTCTTCCCATCAATAGCCC
GGAGATCACCCATGAAGAACATATCGGGCACGGCCATGACAGTGACCAATAGACCTCATCAACACAGATGACAGCGCATC
AGTCACAGATCTCAGAGCAACTGAAAGTGGATACCATGACCGAAACAGCAACAGTGGAGAATGTGTCGAAACAGAAACTG
CCGGCACAAGAGCGGGTCGCGCCCATCAACTCACCCGCATGTCTTTCACTGCCAGCTCTGTTTAAACCAGCAGAGAAGAA
GAGACCAGCGAACACGGGGTGGAATGAGACAGGGATGAAGCTTGGACAAGATGGCGGCAGCAAGAAGGCAGCAGCAAAGG
GTGTAGCCGTGGTGACCATGGATCGTAGAGCTGCTTCAATGGCCATTCTCGCCATCATCTTTGCAGTGACCATTGGAGTA
AACGTCATCGTGTGCTTGTATTCCACTTTGCAAGCGGCA

Alignment

ORF - retro_taes_116 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.55 %
• Parental protein coverage: 73.14 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DQSDENLSMEVREVEADGLDGKEAEELHEIQEQVDEIVADELDSEPTDNFDPNASKERAEIVNDTDSEDE
          DQSDENL..EVREVEADGLDGKEAEEL.EIQEQVDEIVADELD..P.DN.DPNAS.E.AEI.ND.DSED.
Retrocopy DQSDENLGREVREVEADGLDGKEAEELQEIQEQVDEIVADELDGKPIDNLDPNASQESAEIINDLDSEDV

Parental  KNPDQNSVNSCVENEIAPNATQGVKNSDESTLTINSPEVAHEEHIGQGHDDDQETASTQMTAHQSQISEQ
          KNP.QNSV.SCVENE..PNAT.GVKNSDES.L.INSPE..HEEHIG.GHD.DQ.T.STQMTAHQSQISEQ
Retrocopy KNPNQNSVKSCVENEVTPNATKGVKNSDESSLPINSPEITHEEHIGHGHDSDQ*TSSTQMTAHQSQISEQ

Parental  LKVDTMTETATVENVSKHEEQKPPAQELVAPIDSPACPSLPALFKPAEKKRPANTGWNETGMKLGQDGGS
          LKVDTMTETATVENVSK...QK.PAQE.VAPI.SPAC.SLPALFKPAEKKRPANTGWNETGMKLGQDGGS
Retrocopy LKVDTMTETATVENVSK---QKLPAQERVAPINSPACLSLPALFKPAEKKRPANTGWNETGMKLGQDGGS

Parental  KKAAAKGVAVVTMDRRAASMAILAIIFAVTIGANVVMRLYSTLRAA
          KKAAAKGVAVVTMDRRAASMAILAIIFAVTIG.NV...LYSTL.AA
Retrocopy KKAAAKGVAVVTMDRRAASMAILAIIFAVTIGVNVIVCLYSTLQAA

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Triticum aestivum was not studied using RNA-Seq expression data.

ChIP-Seq

Triticum aestivum was not studied using ChIP-Seq data.

EST

Triticum aestivum was not studied using EST data.

TSS

Triticum aestivum was not studied using FANTOM5 data.

Lab

retro_taes_116 was not experimentally validated.

Homology

Retrocopy orthology:

Triticum aestivum 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_5DS_2145F8A9E	5 retrocopies	retro_taes_102, retro_taes_115, retro_taes_116 , retro_taes_185, retro_taes_186,