RetrogeneDB ID: retro_taes_56

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_2264283:4..598(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_B31725105
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2AL_1B2CC9926
• Aliases: None
• Description: None

Sequence

>retro_taes_56
ATGGGTATATCTCGTGACTCAATCCACAAGAGGCGTGCCACTGGAGGCAAGCAGAAGGGATGGAGGAAGAAGCGAAAGTA
TGAGATGGGAAGGCAGCCAGCCAACACTAAGTTGTCCAGCAACAAGACGGTCAGAAGAATCCGTGTCCGTGGAGGTAACG
TCAAGTGGCGTGCGTTGAGGCTCGACACTGGTAACTACTCTTGGGGAAGTGAAGCTGTTACTCGCAAGACCAGAGTTCTT
GATGTGGTCTACAATGCCTCCAACAACGAGTTGGTCCGTACCAAGACACTAGTGAAGAGCGCCATTGTTCAGGTGGATGC
TGCTCCTTTCAAGCAGTGGTACCTCCAGCACTATGGTGTTGAGGTTGGTCGCAAGAAGAAGACTGCTCCTTCTGCTGCCA
AGAAGGAAGGAGAGGATGGTGAAGAGGCTGCTCCAGCTGCTGCTGCTGCTCCTGAGGAGGTGAAGAAGAGCAACCACGTC
CAGAGAAAGATTGAGAGCCGTCAAGAAGGTCGTAGCCTTGATTCCCACATCGAGGACCAGTTTGCAAGTGGTCGTTTGCT
GGCATGCATCTCATCAAGGCCTGGCCAGTGCGGA

Alignment

ORF - retro_taes_56 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.44 %
• Parental protein coverage: 86.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MHKRRATGGKQKAWRKKRKYELGRQPANTKLSSNKTVRRVRVRGGNVKWRALRLDTGNFSWGSEAVTRKT
          .HKRRATGGKQK.WRKKRKYE.GRQPANTKLSSNKTVRR.RVRGGNVKWRALRLDTGN.SWGSEAVTRKT
Retrocopy IHKRRATGGKQKGWRKKRKYEMGRQPANTKLSSNKTVRRIRVRGGNVKWRALRLDTGNYSWGSEAVTRKT

Parental  RLLDVVYNSSNNELVRTQTLVKNAIVQVDAAPFKQWYLTHYGVEIGRKKKAAAAAKKEPAEVLFLGQE-A
          R.LDVVYN.SNNELVRT.TLVK.AIVQVDAAPFKQWYL.HYGVE.GRKKK.A..A.K...E....G.E.A
Retrocopy RVLDVVYNASNNELVRTKTLVKSAIVQVDAAPFKQWYLQHYGVEVGRKKKTAPSAAKKEGED---GEEAA

Parental  EVAAAATEEAKKSNNVQRKLEKRQQGRTLDSHIEEQFSGGRLLACISSRPGQCG
          ..AAAA.EE.KKSN.VQRK.E.RQ.GR.LDSHIE.QF..GRLLACISSRPGQCG
Retrocopy PAAAAAPEEVKKSNHVQRKIESRQEGRSLDSHIEDQFASGRLLACISSRPGQCG

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_56 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_2AL_1B2CC9926	1 retrocopy	retro_taes_56 ,