RetrogeneDB ID: retro_taes_22

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_1093149:1..871(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_5E720DFF7
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_7DL_961822B36
• Aliases: None
• Description: None

Sequence

>retro_taes_22
ATGACGTACATGTTTAAGTATGACAGTGTTCACGGTCAGTGGAAGCACAATGAGCTCAAGGTTAAGGATGAGAAGACACT
TCTCTTCGGTGAGAAGCCAGTCACTGTTTTCGGCATCAGGAACCCTGAGGATATCCCATGGGGTGAAGCCGGAGCTGACT
TTGTTGTTGAGTCTACTGGTGTCTTCACTGACAAGGACAAGGCTGCTGCTCACTTGAAGGGTGGTGCGAAGAAAGTTGTC
ATCTCTGCACCAAGCAAAGATGCTCCCATGTTCGTTGTTGGTGTCAATGAGCATGAGTACAAGTCTGATCTCAACATTGT
TTCCAACGCTAGTTGCACCACTAACTGCCTTGCTCCACTTGCCAAGGTTATCAACGACAGGTTTGGAATTGTCGAGGGAC
TTATGACCACCGTCCACTCTATCACTGCTACGCAGAAGACAGTTGATGGTCCATCAATGAAGGACTGGAGAGGTGGAAGA
GCCGCTTCCTTCAACATCATTCCCAGCAGCACCGGAGCTGCCAAGGCTGTCGGAAAGGTTCTTCCACAGCTCAACGGAAA
GCTGACCGGTATGTCCTTCCGTGTTCCCACCGTTGATGTTTCAGTTGTTGACCTCACGGTTAGACTCGAGAAAGCTGCAA
CCTACGATGAAATCAAGAAGGCTATCAAGGAGGAATCTGAGGGCAAGCTAAAGGGAATCCTTGGTTACACAGAGGATGAT
GTTGTCTCAACCGACTTCGTTGGTGACAACAGGTCGAGCATTTTTGACGCAAAGGCTGGAATCGCGTTGAGTGACAACTT
TGTGAAGCTGGTGTCGTGGTACGACAACGAATGGGGTTACAGTACCCGTGTGGTCGACTTGATCATTCAC

Alignment

ORF - retro_taes_22 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.28 %
• Parental protein coverage: 86.05 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MTYMFKYDTVHGHWKHSDIKLKDDKTLLFGEKPVTVFGVRNPEEIPWGEAGADYVVESTGVFTDKDKAAA
          MTYMFKYD.VHG.WKH...K.KD.KTLLFGEKPVTVFG.RNPE.IPWGEAGAD.VVESTGVFTDKDKAAA
Retrocopy MTYMFKYDSVHGQWKHNELKVKDEKTLLFGEKPVTVFGIRNPEDIPWGEAGADFVVESTGVFTDKDKAAA

Parental  HLKGGAKKVVISAPSKDAPMFVVGVNEDKYTSDVNIVSNASCTTNCLAPLAKIINDNFGIIEGLMTTVHA
          HLKGGAKKVVISAPSKDAPMFVVGVNE..Y.SD.NIVSNASCTTNCLAPLAK.IND.FGI.EGLMTTVH.
Retrocopy HLKGGAKKVVISAPSKDAPMFVVGVNEHEYKSDLNIVSNASCTTNCLAPLAKVINDRFGIVEGLMTTVHS

Parental  ITATQKTVDGPSSKDWRGGRAASFNIIPSSTGAAKAVGKVLPELNGKLTGMSFRVPTVDVSVVDLTVRTE
          ITATQKTVDGPS.KDWRGGRAASFNIIPSSTGAAKAVGKVLP.LNGKLTGMSFRVPTVDVSVVDLTVR.E
Retrocopy ITATQKTVDGPSMKDWRGGRAASFNIIPSSTGAAKAVGKVLPQLNGKLTGMSFRVPTVDVSVVDLTVRLE

Parental  KAASYDDIKKAIKAASEGKLKGIMGYVEEDLVSTDFVGDSRSSIFDAKAGIALNDHFVKLVSWYDNEWGY
          KAA.YD.IKKAIK..SEGKLKGI.GY.E.D.VSTDFVGD.RSSIFDAKAGIAL.D.FVKLVSWYDNEWGY
Retrocopy KAATYDEIKKAIKEESEGKLKGILGYTEDDVVSTDFVGDNRSSIFDAKAGIALSDNFVKLVSWYDNEWGY

Parental  SNRVVDLIRH
          S.RVVDLI.H
Retrocopy STRVVDLIIH

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_22 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_7DL_961822B36	2 retrocopies	retro_taes_22 , retro_taes_85,