RetrogeneDB ID: retro_smoe_1

Retrocopy location

• Organism: Spikemoss (Selaginella moellendorffii)
• Coordinates: GL377568:3571661..3573512(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: SELMODRAFT_79421
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: SELMODRAFT_96029
• Aliases: None
• Description: None

Sequence

>retro_smoe_1
ATGAGAAGATCTTCCAGGCCGGATCTGGCTATCCAGTTCTTCGACTGGGCCGGAGAACAGGACGGATACAAACACGACGT
CCACTCTTACAACCATCTTTTGGATATCCTCGTCAAGAGTGGACACCATTTTCGAACAGGGAAAGTCTACAAGGATTTGC
TTCACAGTGGCTGCTCGCCAAACCTGGTGACTTTCAAGATTTTGATCCGCGGGAACTGCAAGGCAGGACAAGCGATGAGA
GCACTGGAGTTTCTCCGCGCGCTCGATGAGTTTTCAGTTGCTCCAGACGTTTACATCTTCAACGTTCTCATTCATGGCCT
ATTCAAGGACGGGAATCCGGATCAAGCAGTGAAGTTATTTGAGAATATGGAGAGCTCGAGAGTGAAGCCGGAAATCGTCA
CGTACAACACGGTTATAAGTGGCTTGTGCAAAAGTGGAAACCTGGAAAAAGCGAGAGAGCTGCTGGAGGAGATGATCCGG
AAAGGAGGGAAGAGTGCTCCCGACATTGTGACTTACAATACGCTGATCAACGCGTTCTACCGAGCTAGCAGGATCCGAGA
GGCGTGCGCGTTCCGAGAGAAGATGAAAGCCGCGGGGATCAACCCCGACGTGCTGACTTGCAACATACTCGTGAGCGGGA
TCTGCAAAGATGGCGACGTTGAAGAAGCTCTCGAGATCTTGGACGGCATGAAGCTCGCAGGCCCGGTTCCCGACGTGATC
ACGTACAACAGCATCATCCACGCGCTGTGTGTGGCCGGCAAGGTCGTCGAGGCAGCCGAGATTCTCAAAACCATGAGCTG
CAGCCCGGACTTGGTCACTTTCAATACCCTGCTCGATGGCTTCTGCAAGGCCGGCATGCTCCCGCGGGCTCTGGAAGTTT
TGGAAGAGATGTGCCGGGAGAACATCCTCCCGGACGTGATCACGTACACCATCCTCGTCAACGGGCTATGCCGGGTGGGA
CAAGTCCAAGTCGCGTTCTATCTCTTGGAAGAGATCGTACGCCAAGGCTACATTCCCGACGTGATCGCCTACACGAGCCT
GGTCGACGGCCTGTGCAAGTCGGGAGAGATTGAAGAGGCTCACAAGCTCGTCAAAGAGATGAGCGTCCGGGGATGTAGAA
CAGGAGTGGTGATGTACAGCAGCCTGGTGAGCGGCTACTGCAGGGCCGGGAACGTCCACAAGGCCAGGGAAATCCTCGCA
GAGATGGTCTCCATCAACATGGTTCCGCCGCTCTTCACGTACAACATCGTTCTCGGTGGGCTGATCAAGGACGGGAGCAT
CTCCAAGGCCGTGAGCTTGATCTCGGACTTGGTCGCTCGGGGCTACGTCCCCGACGTGGTGACTTACAACACTTTGATCG
ATGGGCTGTGCAAGGCGAACCGAGTGAGAGAAGCTTGCGACTTGGCGGACGAGATGGCGAGCCGGGGGTGTTTTCCAAAC
GACGTGACGCTGGGGAGCGTGGTTTTTGGGCTGTGCCGGGTGGGAAGAGTGGACGACGCGTGGAGCCTGGTCGTGGAGAT
GAGCAGGAAGAGGCACGCTCCAAACGTGGTGGTGTATACTTCGCTCATCGATGGCCTGTGCAAGAGCGACCGGATGGACG
ATGCTTGCATGGTGCTGGATGCGATGCGAGGCCAGGGCGTTGCGCTGGACGATTTCGCGTACAGGAAGCTGATCGTGAGC
ATGAGCCATGGGGGCCGGGTCGCCGAGGCGATGGCGATGTATGACGAGATGGTGGCGAGAGGCTTTCTCCCCGATGGCTC
CACATCCAAGACTTTGGAAGAGGCTGCTATGTCAAACTCTGTTTTTGAGTGGACGAACCTGGAAGAAAACGCTTGGAGCG
ATCGAGTATGA

Alignment

ORF - retro_smoe_1 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.99 %
• Parental protein coverage: 61.87 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MRRSSRPDLAIQFFDWAGEQDGYKHDVHSYNHLLDILVKSGHQFRTGKVYKDLLHSGCSPNLVTFKILIR
          MRRSSRPDLAIQFFDWAGEQDGYKHDVHSYNHLLDILVKSGH.FRTGKVYKDLLHSGCSPNLVTFKILIR
Retrocopy MRRSSRPDLAIQFFDWAGEQDGYKHDVHSYNHLLDILVKSGHHFRTGKVYKDLLHSGCSPNLVTFKILIR

Parental  GNCKAGQATRALEFLRALDEFSVAPDVYIFNFLIHGLFKDGNPDQAVKLFENMESSRVNPDIFTYNTVIS
          GNCKAGQA.RALEFLRALDEFSVAPDVYIFN.LIHGLFKDGNPDQAVKLFENMESSRV.P.I.TYNTVIS
Retrocopy GNCKAGQAMRALEFLRALDEFSVAPDVYIFNVLIHGLFKDGNPDQAVKLFENMESSRVKPEIVTYNTVIS

Parental  GLCKSGNLEKARELLEEMIRRGGKSAPDIVTYNTLINAGICKDGDVEEALEILDGMKLAGPAPDVITYNS
          GLCKSGNLEKARELLEEMIR.GGKSAPDIVTYNTLINA.........EA......MK.AG..PDV.T.N.
Retrocopy GLCKSGNLEKARELLEEMIRKGGKSAPDIVTYNTLINA-FYRASRIREACAFREKMKAAGINPDVLTCNI

Parental  IIHALCVAGRVVEAAEILKTMSCS---PDLVTFNTLLDGFCKAGMLPRALEVLEEMCRENILPDVITYTI
          .....C..G.V.EA.EIL..M......PD..T.N......C.AG....A.E.L..M......PD..T...
Retrocopy LVSGICKDGDVEEALEILDGMKLAGPVPDVITYNSIIHALCVAGKVVEAAEILKTM---SCSPDLVTFNT

Parental  LVNGLCRVGQVQVAFYLLEEIVRQGYIPDVIAYTSLVDGLCKSGEIEEAHKLVKEMSAREILAEMVS
          L..G.C..G....A...LEE..R....PDVI.YT.LV.GLC..G....A..L..E............
Retrocopy LLDGFCKAGMLPRALEVLEEMCRENILPDVITYTILVNGLCRVGQVQVAFYLLEEIVRQGYIPDVIA

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_1 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_96029	1 retrocopy	retro_smoe_1 ,