RetrogeneDB ID: retro_taes_168

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_1DL_scaff_2246803:1239..2592(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_6AS_A34A8593D
• Aliases: None
• Description: None

Sequence

>retro_taes_168
GTGGAAAACCCAGCAACATTGGAGCCTGTGGGCTATGTTCCGGACGCTAACGAAAAAGAGGCAAAGGCTGCTGTGGATGC
AGCTCAAGCTGCTTTTCTGACTTGGTCGAAAACGAGTGCATACCATAGGGCGGAATTACTTGAGAAGTGGTATACAATCA
TTGAGAACAGGCTGGATGAAATCGCAACGATCATGACCCTGGAACAAGGAAAGCCATTGGCAGAGGCAAAAGGTGAAATG
AAGTATGCCTCAAGTTTCGTGAAATGGTACGCTGAAGAAGCAAAGCGCAACTATGGGGAAATCATACCAGCCTCCGTTGC
ATCAAAGCGTATTTTAGTGCAAAAGCAGGCAGTCGGTGTCATTGCTGCCATTACCCCGTGGAATTTTCCTGCTGCCATGA
TCACGAGAAAAGTGGCGCCTGCTCTTGCTGCGGGATGTACCGTGGTCATCAAACCCGCGGAACAAACGCCTTTGACCGCT
TTGCTATTGGTTGAAAGTGCTCATGAAGCGGGCATTCCGGCTGGTGTAATAAATATTGTAACTACACAAAAACCGGGAGA
TGTATCAGACGTGTGGATGAATGATTCACGTGTTAAGAAGATCACATTTACCGGCTCCACTCCAGTAGGGAAACATCTAA
TGAAAAAGGCGGCAGAAACAGTGAAAAAAGTCTCGCTTGAACTCGGTGGATTGGCTCCGTTCATCATTGCTGAGGATGCG
AATATCGAAGAAGCAGTAAATGGTTTGATTCAATCGAAATTCAGGAATGCTGGACAAACATGTATTTGTGCGAACAGGAT
ATTCGTCCATGAGACAATTGAACAGCCGTTTTTACAAGCTTTCGAAGAAGCCGTTTTAACTTTGAAGGTTGGAAATGGAA
TGGAAGGAGCCGATCTTGGTCCATTGATAGATGGAGCTGCAGTTAAAAAGGTTCGGCTTCAATTGGAGGATGCTGCAAGT
AAGGGCGCCACAATCCATAACACTTCAAAAGTCGATGAAAAACAAGGCCATTTCATAGCACCAGCCATACTTTCCAATGT
AACCGATGATATGCTGTGCATGCAGGAAGAAACGTTTGGGCCAATTGCGCCAGTCAGTACATTCAAAACCGATCAAGAAG
CGATAGATCGAGCCAATAACACGAATTTTGGCTTGGCAGCCTATGTGTATACCGAGTCACTTAATAAGGCGGTTGCCTAC
TCGGATGCTCTTGAATATGGGATTGTCGGTATTAATGACAGTGCCCCATCCACTGCCCAAGCGCCATTTGGAGGCATGAA
GGAAAGCGGTATAGGCAGGGAAGGGGGACACTACGGCATGGATGAATATTTAGAAGTGAAGTATGTCTCCATG

Alignment

ORF - retro_taes_168 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.2 %
• Parental protein coverage: 85.74 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VQNPATGEVLANVACMGNRETADAITSANTTFYTWSKLTASERSKALRKWHDLLMSHKEELALLMTLEQG
          V.NPAT.E....V......E...A...A...F.TWSK..A..R...L.KW.........E.A..MTLEQG
Retrocopy VENPATLEPVGYVPDANEKEAKAAVDAAQAAFLTWSKTSAYHRAELLEKWYTIIENRLDEIATIMTLEQG

Parental  KPMKEALGEVNYGASFIEFFAEEAKRVYGDIIPPTLADRRLLVLKQPIGVVGAITPWNFPLAMITRKVGP
          KP..EA.GE..Y..SF....AEEAKR.YG.IIP...A..R.LV.KQ..GV..AITPWNFP.AMITRKV.P
Retrocopy KPLAEAKGEMKYASSFVKWYAEEAKRNYGEIIPASVASKRILVQKQAVGVIAAITPWNFPAAMITRKVAP

Parental  ALACGCTVVVKPSEFTPLTALAAADLALQAGIPAGALNVVMGNAP-EIGDELMQSTQVRKITFTGSTAVG
          ALA.GCTVV.KP.E.TPLTAL.....A..AGIPAG..N.V....P....D..M....V.KITFTGST.VG
Retrocopy ALAAGCTVVIKPAEQTPLTALLLVESAHEAGIPAGVINIVTTQKPGDVSDVWMNDSRVKKITFTGSTPVG

Parental  KKLMAGSANTVKKVSLELGGNAPCIVFDDADIDVAVKGSLAAKFRNSGQTCVCANRILVQEGIYEKFASA
          K.LM...A.TVKKVSLELGG.AP.I...DA.I..AV.G....KFRN.GQTC.CANRI.V.E.I...F..A
Retrocopy KHLMKKAAETVKKVSLELGGLAPFIIAEDANIEEAVNGLIQSKFRNAGQTCICANRIFVHETIEQPFLQA

Parental  FVKAVQSLQVGNGLEESTSQGPLINEAAVEKVEKFVGDATSKGANIMLGGKRHSLGMSFYEPTVVGNVSN
          F..AV..L.VGNG..E....GPLI..AAV.KV.....DA.SKGA.I....K.......F..P....NV..
Retrocopy FEEAVLTLKVGNGM-EGADLGPLIDGAAVKKVRLQLEDAASKGATIHNTSKVDEKQGHFIAPAILSNVTD

Parental  DMLLFREEVFGPVAPLIPFKTEEEAIHLANDTNAGLAAYMFTKSIARSWRVSGALEYGLVGVNEGLISTE
          DML...EE.FGP.AP...FKT..EAI..AN.TN.GLAAY..T.S.......S.ALEYG.VG.N....ST.
Retrocopy DMLCMQEETFGPIAPVSTFKTDQEAIDRANNTNFGLAAYVYTESLNKAVAYSDALEYGIVGINDSAPSTA

Parental  VAPFGGVKQSGLGREGSKYGMDDYLEIKYVCM
          .APFGG.K.SG.GREG..YGMD.YLE.KYV.M
Retrocopy QAPFGGMKESGIGREGGHYGMDEYLEVKYVSM

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_168 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_6AS_A34A8593D	3 retrocopies	retro_taes_168 , retro_taes_192, retro_taes_209,