RetrogeneDB ID: retro_taes_185

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_2BS_scaff_5242777:0..897(+)
• 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_185
GTCGGGGGCGCGATCGCCGGTGCCGCCGTCGTCGCGTGGCGGCGCCACGGTGACGGAAAGGGCGCCAAGAAGGACCGCTG
CAGCAAGGAGGACGACGTTCTGGATGGCGGGGTCGTGGAGAAGGAGCAACAGAAGTCTGATCAATCTGATGAGAATCTGG
GCAGGGAGGTTAGAGAGGTTGAAGCTGATGGGTTGGATGGTAAGGAAGTAGAGGAGCTTCAAGAGATTCAGGAGCAGGTG
GATGAAATTCTTGCTGATGAATTGGATAGCAAACCTACAGATAATTTGGATCCAAACGCAAGCCAGGAAAGTGCCGAGAT
CATTAATGATCCGGACAGTGAAGATATGAAGAATCCTGACCAAAATTCAGTGAAGAGCTGCGTCGAGAATGAGGTCACAC
CAAATGCCACCGAAGGTGTGAAGAATTCCGATGAAAGCTTTCTTCCCATCAATAGCCCGGAGATCACCCATGAAGAACAT
ATCGGGCACGGCCATGGCGGTGATCAACAGACCTCATCAACACAGATGACAGCGCATCAGTCACAGATCTCAGAGCAACT
GAAAGTGGATACCATGACCGAAACAGCAACGGTGGAGAATGTGTCGAAGCAGAAACCGCCTGCACAAGAGCGGGTCGCGC
CCATCAACTCACCCGCATGTCCTTCACTGCCAGCTCTGTTTAAACCAGCAGAGAAGAAGAGACCAGCGAACACGGGGTGG
AATGAGACAGGGATGAAGCTTGGACAAGATGGCGGCAGCAAGAAGGCAGCAGCAAAGGGTGTAGCCGTGGTGACCATGGA
TCGTAGAGCTGCTTCAATGGCCATTCTCGCCATCATCTTTGCAGTGACCATTGGAGTAAACGTCGTCGTGCGCTTGTACT
CCACTTTGCGAGCGGCA

Alignment

ORF - retro_taes_185 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.75 %
• Parental protein coverage: 86.29 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VGGAIVGAAVVAWRRRGDGKGAKKDRRGKEDDVLDGGVVENEQQKSDQSDENLSMEVREVEADGLDGKEA
          VGGAI.GAAVVAWRR.GDGKGAKKDR..KEDDVLDGGVVE.EQQKSDQSDENL..EVREVEADGLDGKE.
Retrocopy VGGAIAGAAVVAWRRHGDGKGAKKDRCSKEDDVLDGGVVEKEQQKSDQSDENLGREVREVEADGLDGKEV

Parental  EELHEIQEQVDEIVADELDSEPTDNFDPNASKERAEIVNDTDSEDEKNPDQNSVNSCVENEIAPNATQGV
          EEL.EIQEQVDEI.ADELDS.PTDN.DPNAS.E.AEI.ND.DSED.KNPDQNSV.SCVENE..PNAT.GV
Retrocopy EELQEIQEQVDEILADELDSKPTDNLDPNASQESAEIINDPDSEDMKNPDQNSVKSCVENEVTPNATEGV

Parental  KNSDESTLTINSPEVAHEEHIGQGHDDDQETASTQMTAHQSQISEQLKVDTMTETATVENVSKHEEQKPP
          KNSDES.L.INSPE..HEEHIG.GH..DQ.T.STQMTAHQSQISEQLKVDTMTETATVENVSK...QKPP
Retrocopy KNSDESFLPINSPEITHEEHIGHGHGGDQQTSSTQMTAHQSQISEQLKVDTMTETATVENVSK---QKPP

Parental  AQELVAPIDSPACPSLPALFKPAEKKRPANTGWNETGMKLGQDGGSKKAAAKGVAVVTMDRRAASMAILA
          AQE.VAPI.SPACPSLPALFKPAEKKRPANTGWNETGMKLGQDGGSKKAAAKGVAVVTMDRRAASMAILA
Retrocopy AQERVAPINSPACPSLPALFKPAEKKRPANTGWNETGMKLGQDGGSKKAAAKGVAVVTMDRRAASMAILA

Parental  IIFAVTIGANVVMRLYSTLRAA
          IIFAVTIG.NVV.RLYSTLRAA
Retrocopy IIFAVTIGVNVVVRLYSTLRAA

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_185 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,