RetrogeneDB ID: retro_taes_34

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 2B:113203965..113204979(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_2BL_F12DFCD3F
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_4BL_4CC0E0AAA
• Aliases: None
• Description: None

Sequence

>retro_taes_34
ATGGCCTCCTCAAGGTCTCTCAGCAGTCGCATCGGCGCAATGCTGGCCGGCGCGTTGCTCCTGCTGTTGTCTACGGCCTC
CGCCGTGGCTCAGCTGGACGTGGGCTTCTACAGCAAGACGTGCCCGCACGTGGAGGAGATCGTCCGGCAGGAGATGCTCG
GGATCCTCAAGGAGGCGCCCACGCTCGCCGGACCCTTCCTCCGCCTCCACTTCCACGACTGCTTCGTCCGGGGATGCGAC
GCCTCCGTGCTGATCGACTCCACCGACGTCGCCAATAGCCCAGCAGAGAAGGACGCGCCGCCCAACAAGAGCCTCCGCGG
CTTCGGCGCCGTGCAGCGCGTCAAGGACAGGCTCCAGTCCGCCTGCCCTAACACGGTGTCCTGCGCCGACGTGCTCGCCC
TCATGGCCCGCGACGCCGTCGTGCTCGCAGGAGGCCCCACGTGGCCCGTCGCGCTCGGCCGGAGGGACGGCCGCGTGTCC
ATCGCTAGCGAGACGAACCAGCTTCCCCCACCCACCTCCAACTTCACCCGCCTCTCCAAGATGTTCGCCGCCAAGGGCCT
CGACGCCAAGGATATCGTCGTGCTCTCCGGCGGCCACACGCTCGGCACCGCGCGCTGCGTCTCCTTCACGGACCGGCTGT
ACAACTTCTCCGGCGCCAATAACCCCGCCGACGTCGACCCAGCACTGGACGGCGCATACGTGGCCAGGCTGAGGTCCCAG
TGCCGGAGCCTCGCCGACAACACCACGCTCGCGGAGATGGACCCCGGCAGCTTCCTCACCTTCGACGCCGGCTACTACCG
CCTCGTGGCAAAGCGCAGAGGAATCCTACACTCCGACTCCGCGCTCCTGGAACACCCGACCACCAGGGCATACGTCGGGC
GCCAGGCCACCGGCCTCTTCGCCGCCGAGTTCTTCCGCGACTTCGCCGAGTCCATGGTCAAGATGGGCAACATCGGCGTG
CTCACCGGAGAACAGGGCGAGATCAGGAACAAGTGCTACGCCGTCAACAAATAA

Alignment

ORF - retro_taes_34 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.75 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASRAATMVA-LMLAAVAATCARAQLDEKFYSESCPSVEDVVRREMVRALSLAPSLAGPLLRMHFHDCFV
          ..SR...M.A...L.......A.AQLD..FYS..CP.VE..VR.EM...L..AP.LAGP.LR.HFHDCFV
Retrocopy LSSRIGAMLAGALLLLLSTASAVAQLDVGFYSKTCPHVEEIVRQEMLGILKEAPTLAGPFLRLHFHDCFV

Parental  RGCDGSVLLDS---ANKTAEKDAQPNQTLRGFGFVERVKAAVEKACPDTVSCADVLALIARDAVWLSKGP
          RGCD.SVL.DS...AN..AEKDA.PN..LRGFG.V.RVK.....ACP.TVSCADVLAL.ARDAV.L..GP
Retrocopy RGCDASVLIDSTDVANSPAEKDAPPNKSLRGFGAVQRVKDRLQSACPNTVSCADVLALMARDAVVLAGGP

Parental  FWTVPLGRRDGSVSISNETDALPPPTSNFTVLTQLFAAVNLDAKDLVVLSAGHTIGTSHCFSFSDRLYNF
          .W.V.LGRRDG.VSI..ET..LPPPTSNFT.L...FAA..LDAKD.VVLS.GHT.GT..C.SF.DRLYNF
Retrocopy TWPVALGRRDGRVSIASETNQLPPPTSNFTRLSKMFAAKGLDAKDIVVLSGGHTLGTARCVSFTDRLYNF

Parental  TGMENPSDIDPTLEPQYMMRLKSKCASLNDNTTLVEMDPGSFKTFDTDYFKLVSKRRGLFHSDGALLTDP
          .G..NP.D.DP.L...Y..RL.S.C.SL.DNTTL.EMDPGSF.TFD..Y..LV.KRRG..HSD.ALL..P
Retrocopy SGANNPADVDPALDGAYVARLRSQCRSLADNTTLAEMDPGSFLTFDAGYYRLVAKRRGILHSDSALLEHP

Parental  FTRAYVQRHATGAFKEEFFADFAASMIKMGNANPLTGSQGEIRKKCSVVNR
          .TRAYV.R.ATG.F..EFF.DFA.SM.KMGN...LTG.QGEIR.KC..VN.
Retrocopy TTRAYVGRQATGLFAAEFFRDFAESMVKMGNIGVLTGEQGEIRNKCYAVNK

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_34 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Hordeum vulgare	MLOC_71584	1 retrocopy	retro_hvul_29,
Oryza glaberrima	ORGLA05G0189300	1 retrocopy	retro_ogla_25,
Triticum aestivum	Traes_4BL_4CC0E0AAA	1 retrocopy	retro_taes_34 ,