RetrogeneDB ID: retro_smoe_2

Retrocopy location

• Organism: Spikemoss (Selaginella moellendorffii)
• Coordinates: GL377565:4299392..4299914(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: SELMODRAFT_74936
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: SELMODRAFT_423096
• Aliases: None
• Description: None

Sequence

>retro_smoe_2
ATGCATTTCTCCGAGAGTGATTGGATAGCATGCTGCGGCAGCTCCAAATTCGCCAAAGAGATGGCCAAGGTCAGGCCTTT
CAAGAATCTCACCAAGGCGATCGAGATGTCGCGGCAGATATGGTGGAATCAGGTGGATGTTCCTGGATGGCTAGAAGCTT
TTAGAGCTCATCTAAGGATTGGAGTGCTCAGCAGCAAGTCCACAATAGACTGGTGTGCCGAGGAGCAAGCTACAGCATTG
AGCAGTGCAAATGATCGAGCACTCAAGGATCTAGCCGAGTGGAATCAGCTCTACGAATCAAAAAAATTTGGCTTCGTGTT
CCTTGTTTGTGCAACTGGAAAGAGTAGCTCAGAAATTTTGCAGTTTCTCAAGGGACAAATCACAAATAGACTCTTGGTTG
AGCTCCAAGTTGCTGCAAACGAACAACAAAAGATCACAAAACTACAGTTGTCAAAGCTCGTCTCACAGAACACTGCTCCT
AGCGGTGACAAGAACACTTCCAAGTTGAGCCTTTTGGAGTAG

Alignment

ORF - retro_smoe_2 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.17 %
• Parental protein coverage: 50.74 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MHFSESDWIACCGSSKFAKEMAKVGPFKNLAEAIEMSRQIWWNQVDVPGWLEAFGAHPRIGALSSKSTTD
          MHFSESDWIACCGSSKFAKEMAKV.PFKNL..AIEMSRQIWWNQVDVPGWLEAF.AH.RIG.LSSKST.D
Retrocopy MHFSESDWIACCGSSKFAKEMAKVRPFKNLTKAIEMSRQIWWNQVDVPGWLEAFRAHLRIGVLSSKSTID

Parental  WCAEEQATALSSANDRALKDLAEWNRLYES-KFGFVFLVCATGKSSSEILQLLKGRITNRPLVELQVAAN
          WCAEEQATALSSANDRALKDLAEWN.LYES.KFGFVFLVCATGKSSSEILQ.LKG.ITNR.LVELQVAAN
Retrocopy WCAEEQATALSSANDRALKDLAEWNQLYESKKFGFVFLVCATGKSSSEILQFLKGQITNRLLVELQVAAN

Parental  EQQKITELRLSKLVSQNTAPGGDQNTSKLSLSE
          EQQKIT.L.LSKLVSQNTAP.GD.NTSKLSL.E
Retrocopy EQQKITKLQLSKLVSQNTAPSGDKNTSKLSLLE

Legend:

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

Expression

RNA-Seq

Selaginella moellendorffii was not studied using RNA-Seq expression data.

ChIP-Seq

Selaginella moellendorffii was not studied using ChIP-Seq data.

EST

Selaginella moellendorffii was not studied using EST data.

TSS

Selaginella moellendorffii was not studied using FANTOM5 data.

Lab

retro_smoe_2 was not experimentally validated.

Homology

Retrocopy orthology:

Selaginella moellendorffii 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
Selaginella moellendorffii	SELMODRAFT_423096	1 retrocopy	retro_smoe_2 ,