RetrogeneDB ID: retro_taes_175

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_2BL_scaff_8001441:21433..22408(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_7DS_309E71F44
• Aliases: None
• Description: None

Sequence

>retro_taes_175
AAAAAACCCGTCCGCGTCGCCGTTACAGGGGCCGCCGGCCAGATCGGCTACGCGCTGCTGTTTCGCATTGCCTCTGGCGA
AATGCTGGGCAAGGACCAGCCTGTGATCCTGCAACTGCTGGAAGTGCCGGTCGAAGGCCCGCAAAAAGCGCTCAAGGGCG
TGATGATGGAGCTCGACGACTGCGCCTTCCCACTGCTTGTGGAGATGACGGCTCACGGCGACCCGATGACCGCCTTCAAG
GACGCCGACTACGCGCTGCTGGTCGGCTCGCGCCCCCGTGGCCCCGGCATGGAACGTGCCGAGCTGCTGGCCGTCAACGG
CGCCATTTTCACGGCCCAGGGCAAAGCCCTGAACGCCGTGGCCAGCCGCAAGGTCAAGGTGCTGGTGGTCGGCAACCCGG
CCAACACCAATGCCTACATCGCGATGAAAAGCGCGCCCGACCTGCCGCGCAAGAACTTCACCGCCATGCTGCGCCTGGAC
CACAACCGCGCCGCCAGCCAACTCGCCGCCAAAACCGGCAAGGCCGTGGCCGACATCGAAAAACTCACGGTCTGGGGCAA
CCACTCGCCCACGATGTACGCCGACTACCGTTTCGCCACCATCAATGGCGAAAGCGTCGCGAAAATGATCAACGACCAGG
AATGGAACGCCAACACCTTCCTGCCCACCGTCGGCAAGCGCGGCGCGGCCATCATTGAGGCGCGCGGTTCCTCCTCGGCC
GCTTCAGCCGCCAACGCCGCCATCGACCACATGCGCGACTGGGCGCTGGGCACGAATGGCAAGTGGGTCACCATGGGCAT
TCCATCGGACGGCCAGTACGGCATTCCGAAAGACACGATGTTCGGCTTTCCCGTTACTTGCGAAAACGGCGAATACAAAC
TGGTCGAAGGCCTGGAGATCGACGCTTTCAGCCAGGAACGTATCAACAAGACGCTGGACGAACTCAAGGGCGAGCAGGAC
GGCGTCAAGCACCTG

Alignment

ORF - retro_taes_175 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.3 %
• Parental protein coverage: 76.35 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KKLVNVSVSGAAGMISNHLLFKLASGEVFGQDQPIALKLLGS--ERSLQALEGVAMELEDSLYPLLREVS
          KK.V.V.V.GAAG.I...LLF..ASGE..G.DQP..L.LL....E....AL.GV.MEL.D...PLL.E..
Retrocopy KKPVRVAVTGAAGQIGYALLFRIASGEMLGKDQPVILQLLEVPVEGPQKALKGVMMELDDCAFPLLVEMT

Parental  IGIDPYVIFEDADWALLIGAKPRGPGVERAALLDINGQIFAEQGKALNAVASRNVKVIVVGNPCNTNALI
          ...DP...F.DAD.ALL.G..PRGPG.ERA.LL..NG.IF..QGKALNAVASR.VKV.VVGNP.NTNA.I
Retrocopy AHGDPMTAFKDADYALLVGSRPRGPGMERAELLAVNGAIFTAQGKALNAVASRKVKVLVVGNPANTNAYI

Parental  CLKNAPNLPAKNFHALTRLDENRAKCQLALKAGVFYDKISNMTIWGNHSTTQVPDFLNAKINGRPVKEVI
          ..K.AP.LP.KNF.A..RLD.NRA..QLA.K.G.....I...T.WGNHS.T...D...A.ING..V...I
Retrocopy AMKSAPDLPRKNFTAMLRLDHNRAASQLAAKTGKAVADIEKLTVWGNHSPTMYADYRFATINGESVAKMI

Parental  KDTKWLEEDFTITVQKRGGVLIQKWGRSSAASTAVSIVDAMRSLVTPTPEGDWFSTGVYTTGNPYGIAED
          .D..W....F..TV.KRG...I...G.SSAAS.A....D.MR.....T..G.W...G....G..YGI..D
Retrocopy NDQEWNANTFLPTVGKRGAAIIEARGSSSAASAANAAIDHMRDWALGT-NGKWVTMGIPSDGQ-YGIPKD

Parental  IVFSMPCRSKGDGDYELVKDVAMDDFLWGRIKKSEAELIAEKRCVAHL
          ..F..P......G.Y.LV.....D.F...RI.K...EL..E...V.HL
Retrocopy TMFGFPVTCE-NGEYKLVEGLEIDAFSQERINKTLDELKGEQDGVKHL

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_175 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_7DS_309E71F44	1 retrocopy	retro_taes_175 ,