RetrogeneDB ID: retro_taes_50

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_2BL_scaff_8036475:9433..10606(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_2BL_B2279E4B1
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2BL_38EEB8C0B
• Aliases: None
• Description: None

Sequence

>retro_taes_50
ATGGTGGAGACGGATGAGTACCACACAGACTCGGAAGGCGAAGGTGACCCGATGATGGAGATCGACATGGTGAAAGGGCC
AAGGCGGTTCCCATACCACGAGCTCGTGGAAGCGACGAGGAACTTTGCCGCGGAGGAGAAGCTTGGGCAAGGTGGCTTTG
GTGCGGTTTACCGAGGCTACCTGAGAGAGCCAGCTGGGCTTCCCGTGGCCATTAAGAGGTTCTCCAAGCATGATTCTTCC
CTGCAAGGAAAGAGGGAGTACAAGTCAGAGATCAAGGTGATAAGCAGGCTGCGCCACCGGAACCTCGTGCAGCTCCTCGG
CTGGAGCCATGGCCGCGAGGAACTCCTGCTGGTTTACGAGCTCATGCCCAACCGCAGCCTCGACATCCATCTCCATGGCA
AGCAGGGCACCTTCCTCACATGGCCGATGAGGATGAAGATAGTGATGGAGCTCGGGTCCGCGCTGCTCTACCTCCACGAG
GAGTGGGAGCAGTGCGTGCTGCACCGGGACATCAAGCCCAGCAACATGATGCTAGACGAGTCATTTGGAGCTAAGCTGGG
CGACTTCGGGCTCGCAAGGCTTGTCGACCATGCCGCCGGGACGCAGACTATGACCGCAGTCTCAGGGACTCCGGGCTACT
TGGACCCCCAGTGTGTCGTCACCGGCAGGGCCAGCGCCGAGTCAGACGTGTACAGCTTCGGCGTGGTTCTGCTGGAGGTG
GTGTGCGGCAGGAAGCCGATGAGCTTCACTGTGACCGATCAGGACCAGCAACAAAAGAACGGTGGCGTGTTCCGGTTGGT
TGAGTGGGTTTGGGGGCTGTACGGCCGGGGAGCCATTCTTGAGTCTGCCGACAAGCTGCTGAATGGTGAGTTAGACGTAG
CAGAGGTGGAGAGGGTGCTGGTCGTCGGGCTGTGGTGTGCACACCCGGACCCGAGCGCGCGGCCGACCATCAGAGAAGCC
ATGGCCAAGCTCCACTCCAAGGTCGACAAGCTGCCGGTGCTCCCCTCCAAGATGCCGGTGCCGACATATGCTCAGCCACC
GTTCGCCTTGGACATGGACGACGGGCTGTCAACGTTGCTGCCATCGTCCACCAGCACCAGCGTCCCACCGCACACCATTT
GTACGACAACCAGTTCTTCGGACGGACGTGGTAGCACCTCGACGACCAGTTAA

Alignment

ORF - retro_taes_50 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.6 %
• Parental protein coverage: 52.53 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IMETEEDYTDSEDEGEPMTEIEMGTRPRRFPYHELVDATRNFAAEEKLGQGGFGAVYQGYLREPAGLAVA
          ..ET.E..TDSE.EG.PM.EI.M...PRRFPYHELV.ATRNFAAEEKLGQGGFGAVY.GYLREPAGL.VA
Retrocopy MVETDEYHTDSEGEGDPMMEIDMVKGPRRFPYHELVEATRNFAAEEKLGQGGFGAVYRGYLREPAGLPVA

Parental  IKRLQ---SSIQGKKEYKSEIKVISRLRHRNLVQLIGWCHGRDKELLLVYELMPNRSLDIHLHGKQGTFL
          IKR.....SS.QGK.EYKSEIKVISRLRHRNLVQL.GW.HGR..ELLLVYELMPNRSLDIHLHGKQGTFL
Retrocopy IKRFSKHDSSLQGKREYKSEIKVISRLRHRNLVQLLGWSHGRE-ELLLVYELMPNRSLDIHLHGKQGTFL

Parental  TWPMRMRILLELGSALLYLHEEWEQCVLHRDIKPSNVMLDESFGAKLGDFGLARLVDHSAGMQTMTAIAG
          TWPMRM.I..ELGSALLYLHEEWEQCVLHRDIKPSN.MLDESFGAKLGDFGLARLVDH.AG.QTMTA..G
Retrocopy TWPMRMKIVMELGSALLYLHEEWEQCVLHRDIKPSNMMLDESFGAKLGDFGLARLVDHAAGTQTMTAVSG

Parental  TPGYLDPECVNTGKASADSDVYSFGVVLLEVACGRRPMS--PANQD-KQKNGGVFRLVEWVWGLYGRGSI
          TPGYLDP.CV.TG.ASA.SDVYSFGVVLLEV.CGR.PMS.....QD..QKNGGVFRLVEWVWGLYGRG.I
Retrocopy TPGYLDPQCVVTGRASAESDVYSFGVVLLEVVCGRKPMSFTVTDQDQQQKNGGVFRLVEWVWGLYGRGAI

Parental  LEATDERLNGDYNTAEVESVMVVGLWCAHPNPSARPSIRTALATLQPKVDQAYQLPVLPSKMPVPMY-EP
          LE..D..LNG....AEVE.V.VVGLWCAHP.PSARP.IR.A.A.L..KVD....LPVLPSKMPVP.Y..P
Retrocopy LESADKLLNGELDVAEVERVLVVGLWCAHPDPSARPTIREAMAKLHSKVD---KLPVLPSKMPVPTYAQP

Parental  LRPLSWANIIGTSSSSSHTVGMSSST---TWSSMPMDTSCTTTS
          ...L.......T...SS........T...T.SS.....S..TTS
Retrocopy PFALDMDDGLSTLLPSSTSTSVPPHTICTTTSSSDGRGSTSTTS

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_50 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_2BL_38EEB8C0B	1 retrocopy	retro_taes_50 ,