RetrogeneDB ID: retro_taes_122

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 3B:557053317..557054658(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: TRAES3BF034800030CFD_g
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_4DS_8ED58C477
• Aliases: None
• Description: None

Sequence

>retro_taes_122
ATTGTCACAGATGGGCTGCCTCCGAAGAAGACCAGCTTTGCTTCCTCAAATTCAAAGTACGGGTCGACGACGACGGAGTC
CTTCTCTCTCGACGGGTTCCATCCAGGCGATCCTGCAGCGGACGGCATCCTGCGCGCAATGGCGACGGCGGAGGAGCGGC
TGGAAGCATCGTCGGCGTTCGGCACGGCCCTGCTCGGCGACGGCGAGGAGAGCGTGGGGCGGTTCCTGTACCTGGAGGGG
ATGGAGTACCACCTGTGGAACACCTACGACGTCCATTTCTACGCCTCCTTCGCGCTGCTCTCCCTCTTCCCGGAGCTCGA
GCTGAGCCTCCAGCGCGACTTCGCCAGGGCCGTCCTCCACCACGACCCGCGCCCCATGCGCACCCTCGACGGCGCCACCG
TCCCCCGCAAGGTCCTCGGCGCCGTGCCGCACGACGTCGGCCTGCGCGACCCCTGGTTCCAGCTCAACGCCTACATGATC
CACGACCCGGCGCGCTGGAAGGACCTCAACCCCAAGTTCGTCCTCCAGGTGTACCGCGACGTCGCCGCCACCGGGGACGC
CGCGTTCGCGACGGCCGTGTGGCCCGCGGTGTACCTGGCCATGGCGTACATGCACCAGTTCGACCGTGACGGGGACGGCA
TGGTGGAGAACGAGGGCCGCCCCGACCAGACGTACGATTTTTGGTCAGTTTCCGGCGTCAGCGCCTACACCGGCGGTCTC
TGGGTCGCGGCCCTCCAGGCGGCGGCCGCCATGGCGCGCGTCGTCGGCGACCACGGCTCGGAGGGGTACTTCCTCGAGCG
GTACGGAAGGGCGCGGCGCGTGTACGACGGCGAGCTCTGGAACGGCGCCTACTTCGACTACGACAACAGCGGCGGCGCGA
CCAGCAAGTCCATAATGGCCGACCAGCTCGCCGGGCAGTGGTACGCGCGCGCGTGCGGGCTGGAGCCGATCGTGGAGGAG
GATAAAGCACGCAGCGCGCTGGGGACGGTGCTGGACTACAACGTGATGCGGGTGCAGGGCGGCGCGGTGGGGGCCGTGAA
CGGGATGCGGCCGGACGGCGCCGTGGACACGTCCTCCATACAGTCGAGGGAGGTGTGGCCCGGGGTCACCTACGCCGTGG
CCGCCGCCATGGTCCACGAGGGCATGCCGGAGGCGGCGTTCCGGACGGCGAAGGGCGCGCACGACGCTGGGTGGGGCAGG
GACGGGTTCGGGTACGCGTTCCAGATGCCGGAGGCGTGGACGGCCGACGGCGGCAGCGGGTACCGGTCGCTACACTACAT
GCGGCCTCTCTGCATCTGGGCGATGCAGTGGGCGCTGTCGCCGCCGGAGCTCCACAGGGAC

Alignment

ORF - retro_taes_122 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.69 %
• Parental protein coverage: 60.21 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IWTDGLPPIQSLTAIGGKKFSLDMSNGETDDDNEMNPQTNTATDILHQMASVLERIHASLASNSAIGTTL
          I.TDGLPP.....A....K...........D.....P....A..IL..MA...ER..AS....SA.GT.L
Retrocopy IVTDGLPPKKTSFASSNSKYGSTTTESFSLDG--FHPGDPAADGILRAMATAEERLEAS----SAFGTAL

Parental  L-QGEENIGQFLYLEGIEYYMWNTYDVHFYSSFSLIMLFPKLQLSVQRDFAAAVMMHDPEKLKLLHDGKL
          L..GEE..G.FLYLEG.EY..WNTYDVHFY.SF.L..LFP.L.LS.QRDFA.AV..HDP.....L.DG..
Retrocopy LGDGEESVGRFLYLEGMEYHLWNTYDVHFYASFALLSLFPELELSLQRDFARAVLHHDPRPMRTL-DGAT

Parental  AARKVLGAVPHDLGLYDPWFKVNAYTLHNTDRWKDLNPKFVLQVYRDVVATGDKSFARAVWPSVYMAMAY
          ..RKVLGAVPHD.GL.DPWF..NAY..H...RWKDLNPKFVLQVYRDV.ATGD..FA.AVWP.VY.AMAY
Retrocopy VPRKVLGAVPHDVGLRDPWFQLNAYMIHDPARWKDLNPKFVLQVYRDVAATGDAAFATAVWPAVYLAMAY

Parental  MEQFDKDKDGMIENEDFPDQTYDVWSMAGVSAYCGGLWVAALQAASALAHEVGDKASEKLFWNKYEKAKS
          M.QFD.D.DGM.ENE..PDQTYD.WS..GVSAY.GGLWVAALQAA.A.A..VGD..SE..F...Y..A..
Retrocopy MHQFDRDGDGMVENEGRPDQTYDFWSVSGVSAYTGGLWVAALQAAAAMARVVGDHGSEGYFLERYGRARR

Parental  VYDKKLWNGSYFNYDDAGTKASTSIHADQLAGQWYAKACGLSSIVDKDKSQSALEKIYTFNVMKFKDGNR
          VYD..LWNG.YF.YD..G...S.SI.ADQLAGQWYA.ACGL..IV..DK..SAL......NVM....G..
Retrocopy VYDGELWNGAYFDYDNSGGATSKSIMADQLAGQWYARACGLEPIVEEDKARSALGTVLDYNVMRVQGGAV

Parental  GAINGMWPDGTLDMSTMQSREIWPGVTYALAASMIQEGMVEEGFKTAEGVYHAAWSSEGLGYAFQTPESW
          GA.NGM.PDG..D.S..QSRE.WPGVTYA.AA.M..EGM.E..F.TA.G...A.W...G.GYAFQ.PE.W
Retrocopy GAVNGMRPDGAVDTSSIQSREVWPGVTYAVAAAMVHEGMPEAAFRTAKGAHDAGWGRDGFGYAFQMPEAW

Parental  NND--DEYRSLCYMRPLAIWAIQWALSNPKLHKE
          ..D....YRSL.YMRPL.IWA.QWALS.P.LH..
Retrocopy TADGGSGYRSLHYMRPLCIWAMQWALSPPELHRD

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_122 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_4DS_8ED58C477	1 retrocopy	retro_taes_122 ,