RetrogeneDB ID: retro_sbic_30

Retrocopy location

• Organism: Sorghum (Sorghum bicolor)
• Coordinates: 6:62140035..62140380(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Sb06g034230
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Sb09g020710
• Aliases: None
• Description: None

Sequence

>retro_sbic_30
ATGGCTTCTTCCTTCGGCGAGGCCCCCGTCGGTGACGCCGGCAGCGGCGAGAAGATCTTCCGCACCAAGTGCGCGCAGTG
CCATACGGTGGAGCGAGGCGGCGCGCACAAGCAGGGGCCCAACCTGCACGGCCTCTTCGGCCGCCAGTCCGGCACCACCC
TCGGCTACGCCTACTCCACGGCCAATAAGAACATGGCCGTCGTCTGGGAGGAGACCACCCTGTACGACTACCTCCTCAAC
CCCAAGAAGTACATCCCGGGCACAAAGATGGTCTTCCCGGGGCTCAAGAAGCCCAAGGAGCGCACCGATCTCATCGCCTA
CCTCAAGGAATCCACGGCGGCTTAA

Alignment

ORF - retro_sbic_30 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.08 %
• Parental protein coverage: 99.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ASFSEAPPGNPKAGEKIFKTKCAQCHTVEKGAGHKQGPNLNGLFGRQSGTTAGYSYSAGNKNKAVVWEEN
          .SF.EAP.G....GEKIF.TKCAQCHTVE.G..HKQGPNL.GLFGRQSGTT.GY.YS..NKN.AVVWEE.
Retrocopy SSFGEAPVGDAGSGEKIFRTKCAQCHTVERGGAHKQGPNLHGLFGRQSGTTLGYAYSTANKNMAVVWEET

Parental  TLYDYLLNPKKYIPGTKMVFPGLKKPQERADLIAYLKEATA
          TLYDYLLNPKKYIPGTKMVFPGLKKP.ER.DLIAYLKE.TA
Retrocopy TLYDYLLNPKKYIPGTKMVFPGLKKPKERTDLIAYLKESTA

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Sorghum bicolor was not studied using RNA-Seq expression data.

ChIP-Seq

Sorghum bicolor was not studied using ChIP-Seq data.

EST

Sorghum bicolor was not studied using EST data.

TSS

Sorghum bicolor was not studied using FANTOM5 data.

Lab

retro_sbic_30 was not experimentally validated.

Homology

Retrocopy orthology:

Sorghum bicolor 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Zea mays	GRMZM2G010348	1 retrocopy	retro_zmay_19,
Sorghum bicolor	Sb09g020710	1 retrocopy	retro_sbic_30 ,