RetrogeneDB ID: retro_taes_63

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_5AS_scaff_1552196:2311..3907(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_5AS_0193BC91B
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_6AL_70042AA23
• Aliases: None
• Description: None

Sequence

>retro_taes_63
ATGGAGGAGATCGGGAAAGAAGGGAAGCGTAAGAGGAAGGAGGAAAAGGGGAAGAAGGAGAAGAAAAGGCACAAAGGCAA
GGCAGGCGGGATTCTGACAAACAAGCTCTTCTCAGAGCTCGCCATCTCTGAGCTCACTGCCAAGGCCATCGGAGAGATGA
ACTACACCCACCTCACCCAGATTCAAGCCAGATCAATACCGCACCTGATGCTAGGGAGCGATGTGCTGGGTTCAGCCAGG
ACTGGCTCAGGGAAGACACTCGCTTTCCTTATTCCGGCCATCGAGCTGCTACACAAGGCGCGCTTCACGCCGAGGAATGG
TACCGGAGTTATCGTGGTTTGTCCGACAAGGGAGCTCGCTATGCAGACGCACAATGTCGCCAAGGAGCTAATGAAGCATC
ACTCGCAAACTCTTGGATATGTGATTGGTGGCACTTACATGAGAAGCGAGGCCAACCAGCTCGTGGAAGGGATCAATCTG
TTGGTCGCGACGCCGGGCAGGCTTTTGGACCATCTGAGAAGTACCGGTGGTTTCAACTACAAAGGGCTACAATGCCTTAT
AATCGATGAAGCTGACCGCATACTTGAGCAGAATTTCGAGGAGGACATGAAGCAAATATTCAAGCGCCTACCTCGGGACA
GGCAAACTGTTCTCTTTTCTGCTACACAGACTAAAAGGGTTGAAGATTTTGCGAATCTTACGTTTGGGAAAAATGAAGAA
AGGCAACGAAAACTTGTTTATGTTGGAGTTGATGATTCTGAATTGAAGCCTACCGTTGAGGGCTTGCAGCAGGGCTACTG
TGTCATCCCAAGCGAGGAAAGGCTTCTGGTTCTGTATGCTTTCCTAAGAAGGATGCGGCTGAAGCAGAAGGTGAAGGTCA
TGGTGTTCTTTTCATCGTGTAGCTCTGTCAAATTCCACGCAGAATTGCTGAATTTCCTTGGGATAGAGTGTTATGATATC
CATGGGCAACTGAAGCAGCAGAAACGCACTAGTACATTCTTCCGATTTTCCAAGGAGGAAAAGGGCATCTTATTATGCAC
TAACGTGGCAGCACGCGGGCTTGATATTCCTGATGTGGACTACATTGTGCAATTCGATCCTCCAGATGACCCAAAGGACT
ACATTCACAGAGTCGGTCGTACTGCCCGAGGTGATAAAGGCAAAGGACATGCATTGTTGTTCTTACTACCAGAAGAGATG
AAGTTGCTCATTTACCTACGGGCGTCCAATATTTCTCTGACTGAACATAAGTTCAATGGAAAACATGTGCCAAAACTGCA
ACCTCAACTTGAGAAGATTGTTGCTGAGAATTACTTCCTAAAGCAGTCGGCGAAGGAAGCCTACAGGTCCTACCTTTTGG
CATACAACTCACACTCTATGAAGGACATTTTTGGTGTCCATCACCTTGATCTCAAGAAAGTTGCGGCATCTTTCTGTTTT
AATAACCCTCCTAAAGTGAATCTGAACCTGGAGAGTAGTGCATCGAAACACCGAAAGATGAGGAAAGTGGACGGTGGAAA
GAGGCATGGAATTAGCCCTTCAAACCCCTATGGAAGGAGAGGTGGCGATGATCGAAGGCAGTTTGTAAGATTCTAG

Alignment

ORF - retro_taes_63 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.67 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MNYTHLTQIQARSIPHLMVGDDVLGSARTGSGKTLAFLIPAIKLLHNARFTPRNGTVVIVVCPTRELAIQ
          MNYTHLTQIQARSIPHLM.G.DVLGSARTGSGKTLAFLIPAI.LLH.ARFTPRNGT.VIVVCPTRELA.Q
Retrocopy MNYTHLTQIQARSIPHLMLGSDVLGSARTGSGKTLAFLIPAIELLHKARFTPRNGTGVIVVCPTRELAMQ

Parental  THDVAKKLMKYHSQTLGYVIGGTNMRSEANQLVKGVNLLVATPGRLLDHLKSTGGFNYKGLKCLIIDEAD
          TH.VAK.LMK.HSQTLGYVIGGT.MRSEANQLV.G.NLLVATPGRLLDHL.STGGFNYKGL.CLIIDEAD
Retrocopy THNVAKELMKHHSQTLGYVIGGTYMRSEANQLVEGINLLVATPGRLLDHLRSTGGFNYKGLQCLIIDEAD

Parental  RILEQNFEEDMKQIFKRLPQNKQTVLFSATQTQRVEDFANFTFGKKEERQRKLVYVGVDDSELKPTVDGL
          RILEQNFEEDMKQIFKRLP...QTVLFSATQT.RVEDFAN.TFGK.EERQRKLVYVGVDDSELKPTV.GL
Retrocopy RILEQNFEEDMKQIFKRLPRDRQTVLFSATQTKRVEDFANLTFGKNEERQRKLVYVGVDDSELKPTVEGL

Parental  QQGYCVIPSEKRFLVLYTFLRKMQVMKQKVKVMVFFSSCSSVKFHAEFLNFIGIECHEIHGQLKQQKRTT
          QQGYCVIPSE.R.LVLY.FLR.M...KQKVKVMVFFSSCSSVKFHAE.LNF.GIEC..IHGQLKQQKRT.
Retrocopy QQGYCVIPSEERLLVLYAFLRRMR-LKQKVKVMVFFSSCSSVKFHAELLNFLGIECYDIHGQLKQQKRTS

Parental  TFFQFSKEESGILLCTNVAARGLDIPNVDYIVQYDPPDDPKDYIHRVGRTARGDKGQGRAFLFLLPEELK
          TFF.FSKEE.GILLCTNVAARGLDIP.VDYIVQ.DPPDDPKDYIHRVGRTARGDKG.G.A.LFLLPEE.K
Retrocopy TFFRFSKEEKGILLCTNVAARGLDIPDVDYIVQFDPPDDPKDYIHRVGRTARGDKGKGHALLFLLPEEMK

Parental  LLIYLHASNISLTEYEFSEKHVPKSQSKLEKIVAGNYFLNQSAKEAYRSYLLAYNSHSMKDIFDVHQLDL
          LLIYL.ASNISLTE..F..KHVPK.Q..LEKIVA.NYFL.QSAKEAYRSYLLAYNSHSMKDIF.VH.LDL
Retrocopy LLIYLRASNISLTEHKFNGKHVPKLQPQLEKIVAENYFLKQSAKEAYRSYLLAYNSHSMKDIFGVHHLDL

Parental  KKVAASFCFNSPPKVNLNLESSASRHRKMRKVDGRKRHELSPSNPYGRRGGCDHMDLARF
          KKVAASFCFN.PPKVNLNLESSAS.HRKMRKVDG.KRH..SPSNPYGRRGG.D.....RF
Retrocopy KKVAASFCFNNPPKVNLNLESSASKHRKMRKVDGGKRHGISPSNPYGRRGGDDRRQFVRF

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_63 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 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_6AL_70042AA23	1 retrocopy	retro_taes_63 ,