RetrogeneDB ID: retro_taes_107

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 2B:301724535..301725531(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2AL_80D15B4FB
• Aliases: None
• Description: None

Sequence

>retro_taes_107
CTCATCGTCGGCCACGTCGTCGAGGTGGTTGACAAGGGCCACGCCGTCGTGACCACCAGCGCCAGGCCCTTCGCCTTCTG
CGTGCCCGTCCTCGGCGACGTGGACCGCGCGCTCCTCAAGCCATCGGCCAATGTTGCGTTGTCCATGTCGAACCTCGCGG
TCGTCCAAGTTCTGCCGGCGGACTCGGGCTGGACCGTGCCCCTCGTCAAGGCCACCGAGAGGCCGAGCGTCACCTACGCG
GACGTGGTCGGGTGCGACGAGCAGAAGCGGGAGGTGCTCGAGGCCGTCGAGCTGCCGCTGACGCACCCGGAGCTTTTCGC
CCGCGCCGGCGTGGAGGCGCCGCGCGGCGTGCTCCTGCACGGCCCACCGGGCACCGGCAAGACCATGCTGGCCAAAGCCG
TCGCGCATCACACGTCGGCGGCCTTCATCCGCGTGAGCGGCTCGGAGTTCGTGAACAGGCACCCGGGCGAGGGGCCCAGG
ATGGTGCGCGAGGTGTTCCAGGCGGCCCGCGACAACGCGCCGGCCATCATCTTCTTCGACGAAGTGGACGCCATCGCGGC
GGCGCGGACCGACTCCGACGACGCGTCGGCCGCCGACCGTGAGGTGTACAGGGTGCTGCTGGAGCTGCTCGCGCAGATGG
ACGGCTTCGACCAGTGCCCCGACGTGCGGGTGATCATGGCGACAAACCGCGCCGACGCGCTGGACCCGGCGCTGCTGCGG
CCGGGGCGCCTGGACCGCAGGGTGGAGTTCCCGCTGCCAGGGAGGGCGCAGAAGCGGCGGCTGTTCCAGGCGTGCACGGC
GGGGATGCCCCTTGACGGCGGCGTCGACCTAGAGGACCTGGTGGCCCGGCACGAGGAGATGAGCGCCGCGGACATCGACG
CCGTGTGCCGTGAGGCTGGCATGCGGGCCGTGCGCGACCGCCGGTGCGTGGTGACGCGCGAAGACTTCGAGGAGGGCTAC
CACGCCGTCGCCAAGCATATCGACCGCGGCGCTGAC

Alignment

ORF - retro_taes_107 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.04 %
• Parental protein coverage: 78.71 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LVIGQFMEMVDGNNGIVGSTTGS-NYYVRILSTINRELLKPSASVALHRHSNALVDVLPPEADSSISLLA
          L..G...E.VD.....V..........V..L....R.LLKPSA.VAL.....A.V.VLP........L..
Retrocopy LIVGHVVEVVDKGHAVVTTSARPFAFCVPVLGDVDRALLKPSANVALSMSNLAVVQVLPADSGWTVPLVK

Parental  SSEKPNVLYSDIGGCDIQKQEIREAVELPLTHHELYKQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHTTA
          ..E.P.V.Y.D..GCD.QK.E..EAVELPLTH.EL....G...PRGVLL.GPPGTGKTMLAKAVAHHT.A
Retrocopy ATERPSVTYADVVGCDEQKREVLEAVELPLTHPELFARAGVEAPRGVLLHGPPGTGKTMLAKAVAHHTSA

Parental  AFIRVVGSEFVQKYLGEGPRMVRDVFRLAKENAPAIIFIDEVDAIATARFDAQ--TGADREVQRILMELL
          AFIRV.GSEFV....GEGPRMVR.VF..A..NAPAIIF.DEVDAIA.AR.D......ADREV.R.L.ELL
Retrocopy AFIRVSGSEFVNRHPGEGPRMVREVFQAARDNAPAIIFFDEVDAIAAARTDSDDASAADREVYRVLLELL

Parental  NQMDGFDQTVNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLVFQVCTSKMNLSDEVDLEDY
          .QMDGFDQ...V.VIMATNRAD.LDPALLRPGRLDR..EFPLP.R.QKR..FQ.CT..M.L...VDLED.
Retrocopy AQMDGFDQCPDVRVIMATNRADALDPALLRPGRLDRRVEFPLPGRAQKRRLFQACTAGMPLDGGVDLEDL

Parental  VSRPDKISAADITAICQEAGMHAVRKNRYVILPKDFEKGYRTNVKKPDTDFD
          V.R....SAADI.A.C.EAGM.AVR..R.V....DFE.GY....K..D...D
Retrocopy VARHEEMSAADIDAVCREAGMRAVRDRRCVVTREDFEEGYHAVAKHIDRGAD

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_107 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 7 parental genes, and 8 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryza sativa indica	BGIOSGA008091	1 retrocopy	retro_oind_47,
Aegilops tauschii	F775_28952	1 retrocopy	retro_atau_13,
Oryza barthii	OBART02G14640	1 retrocopy	retro_obar_11,
Oryza punctata	OPUNC02G13140	1 retrocopy	retro_opun_13,
Oryza glaberrima	ORGLA02G0127200	1 retrocopy	retro_ogla_44,
Oryza sativa japonica	OS02G0325100	1 retrocopy	retro_osat_48,
Triticum aestivum	Traes_2AL_80D15B4FB	2 retrocopies	retro_taes_103, retro_taes_107 ,