RetrogeneDB ID: retro_smoe_6

Retrocopy location

• Organism: Spikemoss (Selaginella moellendorffii)
• Coordinates: GL377568:1927874..1929242(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: SELMODRAFT_102001
• Aliases: None
• Description: None

Sequence

>retro_smoe_6
ATGTATGGGAAGTGCGGCAGCGTTGGCGAGGCGCAAAGAGTCTTTGATGCCATACACTCGCCCAATACATACTCGTGGAA
TATCCTCATCGCGGCATATGCCCACAATGGGCATATTCACCATGCCCGGGCCAACCTCGAGAAGATGCCGCGGCCGGACG
TTGTGTCGTACACGGCGGTGTTGGCTGCGTACGGAGAGCACGGCCTTGTCAAAGAAGCGATGGAGATTTTCTGGAAGATT
AGAAAGCCCGATGTTGTGGCCTGGAACGCGATGATTCGCGTGAATGCCGCGAATGGGCATTTGCTGCAAGCCAAAGAGAT
CTATGATCGGATGGAGAAGCGAGATGGCTTGAGCTGGAACAGCATCCTCACTGCCTACGCGCAGCTGGGATTCGTCGAGG
AGGCGTCCGCGATCTTCCAGTTGATGCCGATGCGCGATGCTGTGGCCTGGAACATTGCAATCCAGGCGCTCGCACAACAA
GGGCTCCTGGACGAGCTCCTGGAGACGTTCACCGCGATGCCGGAGAGGGACGTCTTCTCCTGGAACGCGGCGCTTGGGGG
ATTCGGGCAGCACGGCCAGATCGAGGCGGCGATGGAGGTGAAGAACAGGATGCCACAGTGGGACGTGGTGTCTGCGACGG
CGGCGGTGGTGGCCTATGGCCGGATCGGCGAGATCGAGCTAGCCAGCGCGGAATTCCTGGGAATGCCCGAGCGAAACTCC
ATCAGCTGGAACTCCATGATCCTGGCGTGCGCCCAGAGCAATCGCTTCGATCTGGCCAAGGAATTCCTTGACAGAATGCC
GCTGACAAGCGTGATCGCGATCACGTCCCTGATCCAAGCCCTAGCGCAGGCATCGCTCGTGGAAGAAGCGCGCAAGCTCC
ACGACGCAATGTCCCACAGGGATTCCCTCTCGTGGACGGCCATGGTCACGGGATATGCGCAGGCCGGGCATCTGGAGCGG
GCGTGGAATATGCTCCACGCCATGCCCGCCTGGGACGGGGCATCCTGGACAGCTCTTCTCCAGGCAAATGCCCAGCGCGG
GCATCTGGAGGAATCTCTCGCGGTGTTCGAGAATATGCCGCAAAGGAGCGCCATTGCCTGGAACGCGCTGCTGGGAATCT
TGGCCGTGGAGAGGGGCCTCACGGACGGAGCAAACGCCCTGTTTGGGAGATTCCCTCACTGGGACGTGGTATCTTGGAAC
ATTCTCTTGCTGGGGCTGATCCACGCCGGGCGGGCAGCGGAGGCGTTGCGCGCGTTCGATTCCCTGCCCCAAATCCACAA
GAATGTGGTATCCTGGACAACCCTGATCGCCGCCCACGCGCAGCTCTCCCTCCGCCAGGCCAGGGCCGCCTTCCACAAGA
TGCCGCAG

Alignment

ORF - retro_smoe_6 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.7 %
• Parental protein coverage: 78.79 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MYGKCGSVGEAQRVFDAIHSPNTYSWNILIAAYAHNGHIHHARAKLEKMPRPDVVSYTAVLVAYGEHGLV
          MYGKCGSVGEAQRVFDAIHSPNTYSWNILIAAYAHNGHIHHARA.LEKMPRPDVVSYTAVL.AYGEHGLV
Retrocopy MYGKCGSVGEAQRVFDAIHSPNTYSWNILIAAYAHNGHIHHARANLEKMPRPDVVSYTAVLAAYGEHGLV

Parental  KEAMEIFWKIRKPDVVAWNAIIRVNAANGHLLKAKEIYDRMEKRDGLSWNSILTAYAQLGFVEEASAIFQ
          KEAMEIFWKIRKPDVVAWNA.IRVNAANGHLL.AKEIYDRMEKRDGLSWNSILTAYAQLGFVEEASAIFQ
Retrocopy KEAMEIFWKIRKPDVVAWNAMIRVNAANGHLLQAKEIYDRMEKRDGLSWNSILTAYAQLGFVEEASAIFQ

Parental  LMPMRDAVAWNIAIQALAQQGLLDELLETFTAMPERDVFSWNAALGGFGQHAQIEAAMEIFDEMAARNVI
          LMPMRDAVAWNIAIQALAQQGLLDELLETFTAMPERDVFSWNAALGGFGQH.QIEAAME....M....V.
Retrocopy LMPMRDAVAWNIAIQALAQQGLLDELLETFTAMPERDVFSWNAALGGFGQHGQIEAAMEVKNRMPQWDVV

Parental  TWTTMISAIAADGDSLRARAVFDRMAQHNTTSWNAMISGYVESGELQPALDLFQQIPERDLVSWNAMLAG
          ..T....A....G....A.A.F..M...N..SWN.MI.....S.....A.......P.............
Retrocopy SATAAVVAYGRIGEIELASAEFLGMPERNSISWNSMILACAQSNRFDLAKEFLDRMPLTSVIAITSLIQA

Parental  LAQAGDGECMDRAEALFHKMPGHDAATWTAMITAYTQAGNFKQAKLFFDTTKEVSVVSLNAMLAAYCQQG
          LAQA........A..L...M...D...WTAM.T.Y.QAG....A.............S..A.L.A..Q.G
Retrocopy LAQA---SLVEEARKLHDAMSHRDSLSWTAMVTGYAQAGHLERAWNMLHAMPAWDGASWTALLQANAQRG

Parental  NLKYATALFEKMPSQNEA--SRAIAIAAYSRLGQLGDAKHVFDSIESLSAPGLNSMIGGYAHSGYLNEAR
          .L....A.FE.MP............I.A..R.G....A...F...........N....G..H.G...EA.
Retrocopy HLEESLAVFENMPQRSAIAWNALLGILAVER-GLTDGANALFGRFPHWDVVSWNILLLGLIHAGRAAEAL

Parental  IVFQS--SAARDSSPWSTMIAALGKKGLFDEAVDLFREMQQ
          ..F.S..........W.T.IAA.....L...A...F..M.Q
Retrocopy RAFDSLPQIHKNVVSWTTLIAAHAQLSL-RQARAAFHKMPQ

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_6 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_102001	1 retrocopy	retro_smoe_6 ,