RetrogeneDB ID: retro_smoe_3

Retrocopy location

• Organism: Spikemoss (Selaginella moellendorffii)
• Coordinates: GL377574:275728..276745(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: SELMODRAFT_88546
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: SELMODRAFT_115235
• Aliases: None
• Description: None

Sequence

>retro_smoe_3
ATGGGATGTCCCTTGATCCAGCAGCTTAGGTCTTGCAATTCCCTGGCCGAGGCTCATCAAATTCACGCCCAGATCCGTTG
CGACGGCCTGGGCGTCGATTCCTACACCTGCAATGTGATGATCCAGGCCTATGGTCGATGCGGCAGCGCCCAGCAAGCCC
GATTGATCTTCGATGCAATGAAGAGCAGGGACAAATTCTCCTGGGACTCGATCCTCACGGCCTACACCCGCAATGGGCAC
CTGGAAGAAGCCTGGTTGATCTACAACGCCATGGAGGAATGGGGGCTCTTTGCGATGAATGCGATGCTGGGCGCGCTGGC
GTCGATCGGCAGCATCCACGATGCCAAGCAATTCTTCGATTCGATGCCCGGGAGGGACCTTGTCTCCTGGACGCTGCTGC
TCAACGCCCTGACACGACTGGGGCTCTTGGACGAGGCCCAGGAGCTCTTCAATCGATTCCCCGAGACTGATCTAGTGGCC
TGGACGACGGTGTTGATTTGGCACGCGCGTGGTGGGAGGCTAGCGCGCGCAAAATCTCTGTTCGATGCGATGCCGGAGCG
CGATCTCGTCTCCTGGACTGCGTTGTTTTGGGCATTTGCCCAGGCGGGGAATCTCCAGGAAGCTAAAGAGCTATTCGATT
CCATTCCGGAACGCGACACTGTAGCGTGGACGGCCATGATGTCGGCGTACGGCCAGAATGGCCACCTGATGGATGCCAGA
AAGACGTTCGATTCCATTCCGGAACGGAATATCTACACGTGGACGGACATGATGATAACATATGCTGAAAGCGGGCATCT
GGGTTTTGCAAAGAGAATGTTCGATTCTATGCCGGAATGGAATCTTGTGTCGTGCACCGCCATGCTAATAGCTTACGCGC
GATCGGGACATTCTAAAGATGCCGAAAGAATATTCTATGCTATGAAAGAAACCAACACGTACACGTGGACGGCAATGATT
GCGGCATTTGCCCAACACGGCCAAGTGGAGAAAGCAAAGGAGCTCTTTGAGAGAATG

Alignment

ORF - retro_smoe_3 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.79 %
• Parental protein coverage: 56.68 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LLLQMYGKCGSVEDARLLFNRFPETDLVAWTTVLIWHARGGRLARAKSLFDAMPERDLVSWTALFWAFAQ
          LLL......G....A..LFNRFPETDLVAWTTVLIWHARGGRLARAKSLFDAMPERDLVSWTALFWAFAQ
Retrocopy LLLNALTRLGLLDEAQELFNRFPETDLVAWTTVLIWHARGGRLARAKSLFDAMPERDLVSWTALFWAFAQ

Parental  AGNLQEAKELFDSIPEHDTVAWTAMMSAYGQNGHLMNARKTFDSIPERNIYTNLISWTALLTAYAKNGHL
          AGNLQEAKELFDSIPE.DTVAWTAMMSAYGQNGHLM.ARKTFDSIPERNIYT....WT.....YA..GHL
Retrocopy AGNLQEAKELFDSIPERDTVAWTAMMSAYGQNGHLMDARKTFDSIPERNIYT----WTDMMITYAESGHL

Parental  DRSKRTFQGLLSQDAILWNSIIGGFAQNVESREAIQLFYEMNLVETPDEVTFLCVLLAWSHKGDVFSGRS
          ...KR.F..................A....S..A...FY.M....T....T......A....G.V.....
Retrocopy GFAKRMFDSMPEWNLVSCTAMLIAYARSGHSKDAERIFYAMKETNT---YTWTAMIAAFAQHGQVEKAKE

Parental  LF
          LF
Retrocopy LF

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_3 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_115235	1 retrocopy	retro_smoe_3 ,