RetrogeneDB ID: retro_smoe_22

Retrocopy location

• Organism: Spikemoss (Selaginella moellendorffii)
• Coordinates: GL377609:766439..767348(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: SELMODRAFT_77859
• Aliases: None
• Description: None

Sequence

>retro_smoe_22
CTGATGGTGGCCACCTCGGTGGTGAACATGTACGGCAAGTGCGGTGACGTGGGCGCTGCCAGGCGGGCCTTTGACGCCAT
GCTGGAGCGTGACGTGGTGGCGTGGAACGCAATGGTGGCGGCATATTCGCACAACGGTCACGGCCACGAGGCCCTGGAGA
TCTTCCGTACAATGGATCTCGAGGGGGTGAACCCCAGCGAGAGCACGTTTGTCTCGGCCGTCGATGCGTGTACGGCGGTC
GCGGATCGGGCGGTGGGGAGGCTCTTGCACGGAGTTATCGTGGACAGCGGGTACAAACTCCACGGCAAAGTGCTCAACGC
ACTGGTGACTATGTACGGCAAGTGTGGAGATCTCGTACGGGCAAGGGCAATGTTTGATGGCTTGTCCACAGTAGATCCTA
TCCTGTGGAATGCGATGATCGGAGCATATGCCCAGTTTGGGCATATGCCCGACGCTCTGGAGCTCTTGAGGGAAATGCTC
CAGTGTGGAGCTTCTCCGACCACTGTGACTTTCACGAGCTCTCTGGTGGGTTGTAGCCGGAGTGGGTTCTTCGAGAAGTC
GAGGGAATTGTTTCTCGCAATGCAAGACTGTGGATTGGATCCCAATGGCGAGCACTTCCATTGCATGGTTGATCTCTTGT
GTCGCGCCGGGAAGCTCCGGGAGGCTCGGGATTTGATCGTTAGCATGCCATTTGAGGCGGATTTCCCTGCGTGGTCGGCT
CTTGTCAGTGCTTGTAGCGTTCATGGAGATTCCAAGCTTGGGAGAGAGGTGGCGAATGAAGTGATCTCTTTGGTTCCGGA
GGATTCGGGGCTTTATGTCTGTCTCTCCAAGGTCTTTTCCTCCGCGGGCATGCAAGATGAGGTGGCGAGACTAGAGCAAA
AGAGAATAGATCTTTTGCTCAAATCAAAG

Alignment

ORF - retro_smoe_22 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 64.14 %
• Parental protein coverage: 92.38 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVTYNAMVTAYSQNGHLQRAKALFDGMEQRDIVSWNAMLAAYAQSGHDTQTVDLFKSMDIDGVTPNHVSL
          .......V..Y...G....A...FD.M..RD.V.WNAM.AAY...GH.......F..MD..GV.P.....
Retrocopy LMVATSVVNMYGKCGDVGAARRAFDAMLERDVVAWNAMVAAYSHNGHGHEALEIFRTMDLEGVNPSESTF

Parental  ISALDACGRVGELRLADALYDAALTLGGYAAHLMVATSVVDMYGKCGDVAAARRAFDAMLERDVVAWNAM
          .SA.DAC..V...R....L........GY..H..V....V.MYGKCGD...AR..FD.....D...WNAM
Retrocopy VSAVDACTAVAD-RAVGRLLHGVIVDSGYKLHGKVLNALVTMYGKCGDLVRARAMFDGLSTVDPILWNAM

Parental  VAAYSHNGHGHEALEIFRTMDLEGVNPSESTFVS-LVGCSRSGFFEESRELFLAMQDCGLDPNGEHFHCM
          ..AY...GH...ALE..R.M...G..P...TF.S.LVGCSRSGFFE.SRELFLAMQDCGLDPNGEHFHCM
Retrocopy IGAYAQFGHMPDALELLREMLQCGASPTTVTFTSSLVGCSRSGFFEKSRELFLAMQDCGLDPNGEHFHCM

Parental  VDLLCRAGKLREARDLIVSMPFEADFPAWSALVSACSVHGDSKLGREVANEVISLVPEDSGLYVCLSKVF
          VDLLCRAGKLREARDLIVSMPFEADFPAWSALVSACSVHGDSKLGREVANEVISLVPEDSGLYVCLSKVF
Retrocopy VDLLCRAGKLREARDLIVSMPFEADFPAWSALVSACSVHGDSKLGREVANEVISLVPEDSGLYVCLSKVF

Parental  SSAGMQDEVARLEQKRKDLLLKSK
          SSAGMQDEVARLEQKR.DLLLKSK
Retrocopy SSAGMQDEVARLEQKRIDLLLKSK

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_22 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_77859	1 retrocopy	retro_smoe_22 ,