RetrogeneDB ID: retro_taes_195

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4AL_scaff_7124125:16219..17308(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_5BL_DA5693099
• Aliases: None
• Description: None

Sequence

>retro_taes_195
ATCAACGACAACATTGTGGAAGATTTTACTAAAAGAGGTATTGACGATCTCATCAAGGGCCTTATTGACACTCCTCTAGA
TGCCAAAGTTACCTTCTTGGATGACCCACTTAGAGTTCTTCGGGCAATTCGATTTGCCGCTAGATTCAACTTTACGTTAT
CCGATAGGTTGAAAGAAGCTGCTTCGGACGAAAAGGTGAAGTTGGAACTTGCTTGCAAGATCAGCAAAGAACGTGTTGGG
AAGGAGATTGATCTTATGATGTCAGGTGAACACCCAGTCGATGCAATGTCTTACATTCGTGATCTGGGGCTATTTCATAT
TGTATTTGCTTTACCCAAAAATTGCAGCCCTCCAGTTTTTGACAATTGTGATCGGTGTTGTGTTTCACACATTGAATCAG
CTTGGAACTTTGCAATTTCAGTGCACGGCGGTGTTTCTCATCGCATGCTGCTGGATGAACAGGAAAAGCTTTACCTCTAT
AGTGCACTCTTTTTTTCCCTCCGAAAGATGTTCTACTTGATTAAAACATCTAAGAAGAGTGCTGTCACTAGCTATATTAT
TCAGGAATCATTAAAGCTGCCAGCATGTGTTGCTAAATCGGTTCTCGATGTGCATGTTGCCAGTGGAAAGTTTGCTGATC
TAGTGCTCCTCTTTGAATCAAATGTCGCTTCGCGAGCTGTCAGGGAGGAGGTGAAAGATGTATATCATGATATACCAATG
GACATATGGAAGCGTGTTTATGCAGGAGTCGTACTTAATGAAATAAAGGACTTATGGCAGGTGGCACTTGCTATATCCAT
CATCTTTTCTCCAGAAATTGAAAATGCTGGCGGCACAATGAGCCAGCAGCAGGATGAGCTGCATCGGAGAAAAGAGCAGT
ACACGAGAGTTGAGTGTTCCATAACTGATCTAGGTCTCAGTGAGGTGTGGAAATTGGAGCCGTTGGTCAATGGCAAGATC
ATAATGCAAATTATGCAGAAGTCAGAAAGTCCACTGATCGGAGAATGGAAAAGGCGTGTGTTCAAGTGGCAGCTTGCGCA
TCCTGAAGGAAGCAGGGATGACTGCGTCGATTGGTTGACAGGATCGCAA

Alignment

ORF - retro_taes_195 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.61 %
• Parental protein coverage: 61.89 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  INTKSVEDLTGRGLEDLKKGLIDTPLPAKSTFLDDPLRVLRAIRFAARFSFTLAEDLKEAASDEKVKSEL
          IN...VED.T.RG..DL.KGLIDTPL.AK.TFLDDPLRVLRAIRFAARF.FTL...LKEAASDEKVK.EL
Retrocopy INDNIVEDFTKRGIDDLIKGLIDTPLDAKVTFLDDPLRVLRAIRFAARFNFTLSDRLKEAASDEKVKLEL

Parental  GSKISRERIGHEVDLMMSDKHPVNALRYIRDLGLFYVVFAFPEKLEPPALDKHDWLCVSHLEAAWNLAHS
          ..KIS.ER.G.E.DLMMS..HPV.A..YIRDLGLF..VFA.P....PP..D..D..CVSH.E.AWN.A.S
Retrocopy ACKISKERVGKEIDLMMSGEHPVDAMSYIRDLGLFHIVFALPKNCSPPVFDNCDRCCVSHIESAWNFAIS

Parental  IGRSVFSGGSDSKSQDEQQRLCLYSALFTPVRNMFYMDKKSKKVPVVSYIIRDSLKLKASDADTIVNIHV
          .......G.S.....DEQ..L.LYSAL....R.MFY..K.SKK..V.SYII..SLKL.A..A......HV
Retrocopy V----HGGVSHRMLLDEQEKLYLYSALXXXLRKMFYLIKTSKKSAVTSYIIQESLKLPACVAKSVLDVHV

Parental  ASEKFAELILLLESNENLETVKEKLDDEYLEIPTDLVKHVFAGLILREIKGFWRVALFISILVYPEVGNA
          AS.KFA.L.LL.ESN.....V.E...D.Y..IP.D..K.V.AG..L.EIK..W.VAL.ISI...PE..NA
Retrocopy ASGKFADLVLLFESNVASRAVREEVKDVYHDIPMDIWKRVYAGVVLNEIKDLWQVALAISIIFSPEIENA

Parental  SDSLG-KQDELDKRKERYISVERSITNLDLDGVWKMKPLLDGKAIMGVMQVKSGGPLIGKWQQRLVKWQL
          .......QDEL..RKE.Y..VE.SIT.L.L..VWK..PL..GK.IM..MQ.KS..PLIG.W..R..KWQL
Retrocopy GGTMSQQQDELHRRKEQYTRVECSITDLGLSEVWKLEPLVNGKIIMQIMQ-KSESPLIGEWKRRVFKWQL

Parental  AHPQGSMEECMEWMKQSE
          AHP.GS...C..W...S.
Retrocopy AHPEGSRDDCVDWLTGSQ

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_195 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 2 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_2BS_4304B3EDD	2 retrocopies	retro_taes_193, retro_taes_196,
Triticum aestivum	Traes_5BL_DA5693099	4 retrocopies	retro_taes_167, retro_taes_194, retro_taes_195 , retro_taes_197,