RetrogeneDB ID: retro_taes_70

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 4A:212245714..212247289(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4AL_205E88570
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: TRAES3BF072500070CFD_g
• Aliases: None
• Description: None

Sequence

>retro_taes_70
ATGGCGTTCAACGACGACGAGAAGCCTCCTGCTTCTAACGCAGGTAACACCAAGGGTCTGGTGACCATCACCGAGCCCAA
GTTCAGCAAGGACGCGGCGGCCCTGTCGGCGGACGAGGTGACGGCGGTGGTAGAGCTGAAGGCCACCTCGTCGACGGCCG
TCCGGGAAGGGCTGGACCTGGTGGCGGTGCTGGACGTGAGCGGCAGCATGCAGGGCGACAAGCTCCAGAGCATGAAGATG
GCGATGCAGTTCGTCATCATGAAGCTCACCCCCGTCGACCGCCTCTCCGTCGTCTCCTTCTCCGGCTCCGCCACCAGGCA
CTGCCCGCTCCGCTCCGTCACGCAGCAAGCGCAGGCCGACCTCAAGGCCATCGTCGACGGCCTTGTCGCCAACGGCGGGA
CCAACATCAAGGCCGGCTTGGACACCGCCCTGGCCATCGTCGCCGGCCGGGCCACCACCAAAGCCCGCACGCCCAATGTC
TTCCTCATGTCCGACGGCCAGCAGAGCGACGGCGACGCCAGGCAAGTCGATCCCGGGAACGTGGCGGTCTACACGTTCGG
CTTCGGCAAGGACGCCGACCACGCCCTGCTCAGCGACGTCGCCAAGAAGTCCCCCGGCGGCACGTTCAACTCGGTGCCGG
ACGGCGGGAACGTGAGCGCGCCCTTCTCGCAGCTCCTCGGCGGGCTCCTCACCATCGTCGCGCAGGACGTGCAGCTCACG
CTCACGCCCAAGGCGGAAGATCCCACTGCCCCGGACCTGGACACCATGACGGTGGCGCCAGGGACCGACTACACGCAGAC
CACCGACGGCGACACGGGCGTCATCACCATCAAGTTCGGCACCCTCTTCAGCGGCGAGACCCGCAAGGTCGCCATCAACT
TCAAGCTCCTGGAGAGCACCTTGACGACGGCGTACGACGGATTGGTGGCGGAGGCCCAGCACAGCTACACCGTGCAGGGC
AGCTTGCAGGGGCAGACCCCGCAGGACGTGGTGATACCCCGCTCCCCGGACGCGCCCGCCGACCCGCCCACCAGCGGCAA
GGCGCAGGCGGTGCTGGCGGAGATGGCGCGTCGGCAGCACGCCGGCGCGATCGGCGAGGCGAGGCAGATGGCCGACGGGA
AGAACCTGGAGGAGGCGCGGTACAAGCTGGCGGACGCGCAGAACGCGCTGGAGGACATCGTGCTGAACGACGGCGAGAAG
CTGGTGGGCATGCTCCGCGCGGAGCTGCAGCAGCTGCTGGACCTGATGGAGACGCAGGAGCTGTACGAGGCGGAGGGGCG
GCCGTACGCGCTGGCCTCCGAGACGTCGCACGGCCGGCAGCGGTACGCGGCCAGGGGCGGCGACATGGACGCCGTGCGGC
TGTTCGCCACCCCGCGCATGGACACGTACCTGGAGCAGGCCAAGAAGTTCGAGGAGGACCCCACGGCGCCGCTGCCGTCC
GCCGACGACGACGCCAAGGAGGAGATGGCCGCCAACCCGCTCGCCGCCATCTCCGCGCCCATCGCCTTCTACATCAAGGT
GGCCATCCAGGCGCTGCAGGAGATCGAGAAGCTCGTCGCCCCGCCCACCAAATAG

Alignment

ORF - retro_taes_70 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.93 %
• Parental protein coverage: 99.43 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VVFNDDENPASTLNKGSTKGLVKIQKPAYSRDDVALTADEVTAVIELNAAPSAVVREGLDLVVVLDVSGS
          ..FNDDE.P....N.G.TKGLV.I..P..S.D..AL.ADEVTAV.EL.A..S..VREGLDLV.VLDVSGS
Retrocopy MAFNDDEKPPAS-NAGNTKGLVTITEPKFSKDAAALSADEVTAVVELKATSSTAVREGLDLVAVLDVSGS

Parental  MQGERLESMKQSMQFVIMKLTPVDRLSVVTFSSHAQRLCPLRSMTESAQKEVKAIIDGLKASGTTNIKSG
          MQG..L.SMK..MQFVIMKLTPVDRLSVV.FS..A.R.CPLRS.T..AQ...KAI.DGL.A.G.TNIK.G
Retrocopy MQGDKLQSMKMAMQFVIMKLTPVDRLSVVSFSGSATRHCPLRSVTQQAQADLKAIVDGLVANGGTNIKAG

Parental  LEIARQVVAERSTKKSRTANVFLMSDGVQSAGEATDVDLGSASVYTFGLGKDTDHKLLNAIAKKSPGGTF
          L..A...VA.R.T.K.RT.NVFLMSDG.QS.G.A..VD.G...VYTFG.GKD.DH.LL...AKKSPGGTF
Retrocopy LDTALAIVAGRATTKARTPNVFLMSDGQQSDGDARQVDPGNVAVYTFGFGKDADHALLSDVAKKSPGGTF

Parental  STVRDGANLTRPFSQMLGGLLTVVAQDVKLTLTPKTEE---DGLKAMVVPADTDYTQTTDSATGVITINF
          ..V.DG.N...PFSQ.LGGLLT.VAQDV.LTLTPK.E......L..M.V...TDYTQTTD..TGVITI.F
Retrocopy NSVPDGGNVSAPFSQLLGGLLTIVAQDVQLTLTPKAEDPTAPDLDTMTVAPGTDYTQTTDGDTGVITIKF

Parental  GTLFSGESRKVTVTMTLSDCAAGTTRHDAVLAEAQHSYTAQSVVHGLQTPENLKIYRTQN-PATVAGS-K
          GTLFSGE.RKV.....L......TT..D...AEAQHSYT.Q....G.QTP....I.R....PA....S.K
Retrocopy GTLFSGETRKVAINFKLLESTL-TTAYDGLVAEAQHSYTVQGSLQG-QTPQDVVIPRSPDAPADPPTSGK

Parental  ARWVLAELARRRQAQAIRDAMALAEAGDLDGARYKLVEAQNALEDLVLDDGQKLIDSLRAELAQLIKLMA
          A..VLAE.ARR..A.AI..A...A....L..ARYKL..AQNALED.VL.DG.KL...LRAEL.QL..LM.
Retrocopy AQAVLAEMARRQHAGAIGEARQMADGKNLEEARYKLADAQNALEDIVLNDGEKLVGMLRAELQQLLDLME

Parental  TKELYEAQGRPYALASDTSHARQRYADRGDETDAVRLFATARMDTYLKQAKQFDSDPTKPLPSAADDVKE
          T.ELYEA.GRPYALAS.TSH.RQRYA.RG...DAVRLFAT.RMDTYL.QAK.F..DPT.PLPSA.DD.KE
Retrocopy TQELYEAEGRPYALASETSHGRQRYAARGGDMDAVRLFATPRMDTYLEQAKKFEEDPTAPLPSADDDAKE

Parental  EIAANPMAAFSSELAVYLQKAIEALQAIEKMINPTT
          E.AANP.AA.S...A.Y...AI.ALQ.IEK...P.T
Retrocopy EMAANPLAAISAPIAFYIKVAIQALQEIEKLVAPPT

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_70 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Aegilops tauschii	F775_14124	1 retrocopy	retro_atau_23,
Triticum aestivum	TRAES3BF072500070CFD_g	1 retrocopy	retro_taes_70 ,