RetrogeneDB ID: retro_smoe_31

Retrocopy location

• Organism: Spikemoss (Selaginella moellendorffii)
• Coordinates: GL377634:184543..185449(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: SELMODRAFT_101549
• Aliases: None
• Description: None

Sequence

>retro_smoe_31
ATGGCTCAGCACTCGCTGGTAACTTACAGTACCATGATCACAGTGAAAGCAAGAGCGGGGCGTTTAGAGGAGTCTAGGGA
CTTGTTTGATCATCTCCCCGAAAGCAGCCTTTCTTCTTCCACAACTATGATGATAACATACGGGAGAAAGGGAAATACCT
GTGACGCAAAACAAATCTTTCATGCTACAAAGAACCGAGACGTGGTAGCATGGAATGCAATGTTGTCAGCGCTTACCCAA
AATGAAGAACTTGAGGACGCAAAACTTTTGCTACAAAGAATGCCGTTCTACAACGTTGTGACTTGGACAGCCATAATATC
AGGCTACATATACAGTGGCAACATTGGACACGCAAAGGTGTACTTTGACAACATGCCGGAGCGAAGCACCATCACCTGGA
ACTTGATGATCTCGGCATATGCCCAGTGCGGGGATTCATGTCAATGTAGACGTCTGTTCGACAAAATGCCTGGAAGAACT
GCCGAATCGTGGAACTCAGCAATGCAGGCTCTAGCTAAAGCTGGAAGCGTGGAGGAAGTAGCAAAGGTGTTTGAGCTTAT
GCCGGAGCGAGATATAGTTTCATGGAACGTCATGCTGCTGGCTTCCAAGCAGCTCAAAGACGCCGAGAGCTTTTTTGCGA
GCATGCCGCCAGGACGAGACATAGTCTCTGGAAATATCATGCTAGGAGCTTATAACAAGGCTGGACGAATGGATCTCGCT
GATAGCTTCTTCGCAAGGATGCCACAGCACAGCTCCGTGTCGTGGAACGAGATGATCCAAGCGAGCGCCCAGCTGAGCGA
TGCCTCCTACTCGAGCTTGCTTTTTGCGATGATTCCGGAGAGAACTGTGGTCACCTGGACGGCGCTGCTTTGCCTCTACG
CACAGAACCGCTGCGTGGAGGACGCT

Alignment

ORF - retro_smoe_31 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.78 %
• Parental protein coverage: 67.55 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAQHSLVTYSTMITVKARAGSLEESRDLFDHLPESSLSSSTTMMITYGKKGNTSDAKQIFHATKNRDVVA
          MAQHSLVTYSTMITVKARAG.LEESRDLFDHLPESSLSSSTTMMITYG.KGNT.DAKQIFHATKNRDVVA
Retrocopy MAQHSLVTYSTMITVKARAGRLEESRDLFDHLPESSLSSSTTMMITYGRKGNTCDAKQIFHATKNRDVVA

Parental  WNAMLSALTQNEELEDAKLFLQRMPFYNVVTWTAIISGYIYSGNIGHAKAYFDNMPERSTITWNLMISAY
          WNAMLSALTQNEELEDAKL.LQRMPFYNVVTWTAIISGYIYSGNIGHAK.YFDNMPERSTITWNLMISAY
Retrocopy WNAMLSALTQNEELEDAKLLLQRMPFYNVVTWTAIISGYIYSGNIGHAKVYFDNMPERSTITWNLMISAY

Parental  AQCGDSCQCRRLFDKMPGRTAESWNSAMQALAKAGSVEEVAKMFELMPERDIRTVVTWTALLCLYAQNRC
          AQCGDSCQCRRLFDKMPGRTAESWNSAMQALAKAGSVEEVAK.FELMPERDI...V.W...L....Q...
Retrocopy AQCGDSCQCRRLFDKMPGRTAESWNSAMQALAKAGSVEEVAKVFELMPERDI---VSWNVMLLASKQ---

Parental  VEDARFFVFDKMPQRNLVTWNSMVAAYAQLGNPAEALELFKSM-DLEGITPNE-ITLYGRAGSLSTARAL
          ..DA..F.....P.R..V..N.M..AY...G....A...F..M........NE.I.........S....L
Retrocopy LKDAESFFASMPPGRDIVSGNIMLGAYNKAGRMDLADSFFARMPQHSSVSWNEMIQASAQLSDASYSSLL

Parental  FERNPNKVVGSWNAMITSYADNGLAGEA
          F...P...V..W.A....YA.N.....A
Retrocopy FAMIPERTVVTWTALLCLYAQNRCVEDA

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_31 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_101549	1 retrocopy	retro_smoe_31 ,