RetrogeneDB ID: retro_taes_149

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 6A:135327857..135328748(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2BS_466607233
• Aliases: None
• Description: None

Sequence

>retro_taes_149
TGCATGGCGACGAACCCGATCGACCGGTGCTGGCGCTGCCGCAAGGACTGGGCGACGGACCGGCAGCGGATGGCCCGCTG
CGCCAAGGGGTTCGGCCGCGAGACCACCGGCGGCCTCAAGGGCAAGATCTACACCGTGACCGACCCCAACGACGATGACT
TCACCAACCCGCGGCCCGGGTCGCTCCGGTGGGGCGTGGTCCAGACGGAGCCGCTGTGGATCATCTTCGCCAGGGACATG
GTGATCAACGCCTCCCAGGAGATCATCATCCAGAGCGACAAGACCATCGACGGGCGCGGGGCGCAGGTGCACGTGGCCAA
CGGCGGCGGGCTCACCGTCCAGCACCAGAACAACGTCATCATCAACAACCTCCACGTGCACGGCATCAAGCACACGGACG
GCGGCAACGTGTCGATGACGGCAACCCACTCCACCATCCGCACCCGCGCCGACGGCGACGGCGTCTCCATCTTCAACGCC
ACCAAAGTGTGGGTGGACCACCTCTCCATGGATAATTGCGAGGACGGCATGGTTGACGTGGTGGCCATGTCCACGGCCGT
CACCATCTCCAACACCCACCTGGCCCACCACAACGACGTGATGCTCTTCGGCGCCGACGACAAGAAGCCGGAGGACAAGG
TGATGCAGGTCACCGTCGCCTTCAACCACTTCGGGAGAGGCCTGGTGCAGAGGATGCCTCGCTGCCGCTACGGCTTCTTC
CACGTCGTCAACAACGACTACACCAACTGGCTCATGTACGCCATCGGAGGCAGCAGCGCGCCCACCATCCTCAGCCAGGG
GAACCGCTACAGAGCACCACCCAACATGGCTGCCAAGGAGGTACGTCCTCTCCTCCTCACTCCTCACTCCATCTATGGAT
GGACCCACCGG

Alignment

ORF - retro_taes_149 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 58.72 %
• Parental protein coverage: 61.95 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  CGTGNPIDDCWRCDSDWHNNRQRLADCGIGFGRNAIGGRDGKIYVVTDAGDDDPVNPKKGTLRHAVIQDE
          C...NPID.CWRC..DW...RQR.A.C..GFGR...GG..GKIY.VTD..DDD..NP..G.LR..V.Q.E
Retrocopy CMATNPIDRCWRCRKDWATDRQRMARCAKGFGRETTGGLKGKIYTVTDPNDDDFTNPRPGSLRWGVVQTE

Parental  PLWIVFKRDMVITLSQELIMNSFKTIDGRGANVHIANGACITIQYVTNVIIHGLHIHDCRPTGNAMVRSS
          PLWI.F.RDMVI..SQE.I..S.KTIDGRGA.VH.ANG...T.Q...NVII..LH.H....T....V...
Retrocopy PLWIIFARDMVINASQEIIIQSDKTIDGRGAQVHVANGGGLTVQHQNNVIINNLHVHGIKHTDGGNVSMT

Parental  PSHYGWRTMADGDAVSIFGASHVWVDHCSLSNCADGLVDAIMGSTAITVSNNYFTHHNEVMLLGHSDSYL
          ..H...RT.ADGD.VSIF.A..VWVDH.S..NC.DG.VD....STA.T.SN....HHN.VML.G..D...
Retrocopy ATHSTIRTRADGDGVSIFNATKVWVDHLSMDNCEDGMVDVVAMSTAVTISNTHLAHHNDVMLFGADDKKP

Parental  KDKAMQVTIAFNHFGEGLIQRMPRCRHGYFHVVNNDYTHWEMYAIGGSAEPTINSQGNRYLAPTNPFAKE
          .DK.MQVT.AFNHFG.GL.QRMPRCR.G.FHVVNNDYT.W.MYAIGGS..PTI.SQGNRY.AP.N..AKE
Retrocopy EDKVMQVTVAFNHFGRGLVQRMPRCRYGFFHVVNNDYTNWLMYAIGGSSAPTILSQGNRYRAPPNMAAKE

Parental  VTKRVETAQTTWKAWNWR
          V.....T.......W..R
Retrocopy VRPLLLTPHSIY-GWTHR

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_149 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_2BS_466607233	2 retrocopies	retro_taes_149 , retro_taes_153,