RetrogeneDB ID: retro_taes_125

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 3B:601547091..601548249(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_1BL_B0F4F6E5C
• Aliases: None
• Description: None

Sequence

>retro_taes_125
GAGAGGTTCGTCTACGCCGTCGACATGATACTGCGCCAGCGCCGCGGCGGCGCGGTCGAGCAGCTCGTGCTGAGGTTCGC
CGTCGAGTACCTTGGGTAGTTGTCTCGCCGCCTGGACGACTGGCTTCGCCGCGCGGCCTCGGCGCGGACCAAGAGCTTGA
CATTCGACGTGTCGCGACGGCCTGACCAGGGGTACGGCCTATACCGGTACGAGTTCCCCTTGCAATCGCTCGTGGGTGGA
GGCGGCGGCGTGTCCGGCCTGCAGAACCTTCACCTCTCCTGCGTATCGCTCAAAGCTCCGCCCTCCTCCCGGCGCATGGC
TTTTCCGAAGCTTCAAAGGCTCGGTCTGCGCTCGTCCGTCGTGTCCGCTGGTGATCTGCGAGATGTGCTGTCGAACTGCC
CTAATCTGGAATGGCTGGATCTGTATAGGGTCCAGCTGAACGACGAGCTCAAGTTGGAGACGCCATTGCCCCGCCTGCTA
TACCTCAGAGTGTCAAACTGCGGCGTGACCAAGATTCAACTCAACGCCAACAGGCTCACAACGTTCATATTCCAGGGGCA
TCCACTGGCTACCATCGACCTCCGCCAATCTTCAGGGCTTCGCGATGTTAATATCCACTGCTGCCAAATAACACTGCAGC
AGGCTCTCGGCTCTCTGCCCTCTGCGTTCCCCATGGTGCAACAACTGTCACTGTGCTGTTTTTGTATACTACCAGAGTTC
CCCTGGCGGCTGGAGAAAACCTCCATCTTTTCCCATCTGAGGCATCTTCAGTTGATCTTAAACATCGGCCATAAACACGC
CGACGATACCCTCTCCATCGTGCATTTTCTGCGGGCTGCGCCGCTGCTTGAGGAGCTGGACATTTTCTTCGTGTCATGTT
GCATGGATGGTGGCCAAGGACCTCTAAGGAACTTGCCCCAGGGTCAACTCGAATACAAGTGCTTGAAGAGCTTGACAGTT
CGCCAGTTCAGAGCTGAAAAGAGTCAAGTAGAGCTTCTGGTACACATTGTGAAAAATGCCCCTGCTCTAGAAATCTTGAC
TGTAGACCCGAGAAGACAGCTCATTCCAGCAAACTTTTGTCAAGCTTCGGAAGCTGAGAAAGAAAATCTCTCTAAAATCC
GCCGTATGGCCACAACATTCGTCGGTGGGAAACTTTCA

Alignment

ORF - retro_taes_125 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.55 %
• Parental protein coverage: 67.5 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QQFVNIVNTILYQHQGKTIERFELRLTVDVLAQLFDQLDDWVRYAVSSRTKNLILHVSLTPLDVFHYKRY
          ..FV..V..IL.Q..G...E...LR..V..L..L...LDDW.R.A.S.RTK.L...VS..P.......RY
Retrocopy ERFVYAVDMILRQRRGGAVEQLVLRFAVEYLG*LSRRLDDWLRRAASARTKSLTFDVSRRPDQGYGLYRY

Parental  VFPVQLLDAG----SCLQHIQLAHVLLKVP--SQFVGFPNLRRLGLYSTRVSASDMQCMVSNCPNIEWLD
          .FP.Q.L..G....S.LQ...L..V.LK.P..S....FP.L.RLGL.S..VSA.D.....SNCPN.EWLD
Retrocopy EFPLQSLVGGGGGVSGLQNLHLSCVSLKAPPSSRRMAFPKLQRLGLRSSVVSAGDLRDVLSNCPNLEWLD

Parental  LFMVHLNDELKVDRPLSCLLYLRLSDCRVTTIELNAPKLQTFIFQGR-LVPIHLGESSELHNIVIHSYTL
          L..V.LNDELK...PL..LLYLR.S.C.VT.I.LNA..L.TFIFQG..L..I.L..SS.L....IH....
Retrocopy LYRVQLNDELKLETPLPRLLYLRVSNCGVTKIQLNANRLTTFIFQGHPLATIDLRQSSGLRDVNIHCCQI

Parental  TLEQAICSFADAYPLVQRLTLCHTCALPKFPWRLDNTSSFSHLRYLQLLLNIFSEHANDILSIAYFLEAA
          TL.QA..S...A.P.VQ.L.LC..C.LP.FPWRL..TS.FSHLR.LQL.LNI...HA.D.LSI..FL.AA
Retrocopy TLQQALGSLPSAFPMVQQLSLCCFCILPEFPWRLEKTSIFSHLRHLQLILNIGHKHADDTLSIVHFLRAA

Parental  PFLQEFDLEFRSSCMDVVPGPLRIFPYGQDKYKYLTIFRVFEFRGEKSKVELIVHVVQNAPSLENLTIDP
          P.L.E.D..F.S.CMD...GPLR..P.GQ..YK.L....V..FR.EKS.VEL.VH.V.NAP.LE.LT.DP
Retrocopy PLLEELDIFFVSCCMDGGQGPLRNLPQGQLEYKCLKSLTVRQFRAEKSQVELLVHIVKNAPALEILTVDP

Parental  RRQHV-LDDSPASEAEEKRLSEIRHIAKSLIEYELN
          RRQ........ASEAE...LS.IR..A.......L.
Retrocopy RRQLIPANFCQASEAEKENLSKIRRMATTFVGGKLS

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_125 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_1BL_B0F4F6E5C	1 retrocopy	retro_taes_125 ,