RetrogeneDB ID: retro_mluc_2278

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430171:301851..302683(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RCC1
• Ensembl ID: ENSMLUG00000017075
• Aliases: None
• Description: None

Sequence

>retro_mluc_2278
GGCTCCTTCCGGGACAATAATGGTGCGATTGGGCTCTCGGAGCCCATGAAGAAGAGCATGGTAGCTGTGCAAGTGCAGCT
AGTGTGCCTGTGGTGAAGGTGGCCTCGGGAAACGACCACTTGGTGATGCTGACAGCTGATGGAGACCTCTACACTTTGGG
CTGAGGGGAGCAGGGCCAGCTGGGCCGTGTCCCTGAATTATTTGCCAATCGTGGTAGCCGGCCCGGCCTTGAACGACTCC
TGGTCCCCAAGTGTGTGATGTTGAAATCCAGGGGAACCCGGGCCATGTGACATTCCAGGATGCCTTCTGTGGCACCTACT
TCACCTTTGCCATCTCCCTCGAGGGCCATGTGTATGGCTTTGGCCTTTCAAACTACCATCAACTTGGAACCTCAGGCACA
GAATCTTGTTTTGTACCCCAAAACCTGACATCCTTCAAGAACTCTACGAAGTTCTGGGTGGGCTTCTCTGGTAGCCAGCA
CCATATAGTCTGCATGGATTCGGCAGGAAAAGCATACAGCCTGGGCCGGGCTGAGTACGGGAGGCTGGGCCTTGGAGAGG
ATGCTGAGGAGAGGAGCATGCCCACCCTCATCTCCAGGCTGCCCATCGTCTCCTCAGTGGCTTGTGGGGCCTCTGTGGGA
TATGCCGTGACCAAGGATGGTCGTGTTTTTGCCTGGGGCATGGGCACCAACTACCAGCTGGGCACGGGACAGGAGGAGGA
TGCCTGGATCCCCGTGGAGATGACAGGCAAACAGCTGGAGAACCGCCTGGTTCTATCTGTGTCCAGCGGGGGCCAGCACA
CAGTCTTACTAGTCAGGGACAAGCAACAGAGC

Alignment

ORF - retro_mluc_2278 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.21 %
• Parental protein coverage: 61.1 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  GRFRDNNGVIGLLEPMKKSMVPVQVQL-SAPVVKVASGNDHLVMLTADGDLYTLGCGEQGQLGRVPELFA
          G.FRDNNG.IGL.EPMKKSMV.VQVQL.S.PVVKVASGNDHLVMLTADGDLYTLG.GEQGQLGRVPELFA
Retrocopy GSFRDNNGAIGLSEPMKKSMVAVQVQL<SVPVVKVASGNDHLVMLTADGDLYTLG*GEQGQLGRVPELFA

Parental  NRGGRQGLERLLVPKCVMLKSRGTR-GHVKFQDAFCGAYFTFAISLEGHVYGFGLSNYHQLGTSGTESCF
          NRG.R.GLERLLVPKCVMLKSRGTR.GHV.FQDAFCG.YFTFAISLEGHVYGFGLSNYHQLGTSGTESCF
Retrocopy NRGSRPGLERLLVPKCVMLKSRGTR<GHVTFQDAFCGTYFTFAISLEGHVYGFGLSNYHQLGTSGTESCF

Parental  VPQNLTSFKNSTKSWVGFSGGQHHTVCMDSEGKAYSLGRAEYGRLGLGEGAEEKSMPTLIPRLPIVSSVA
          VPQNLTSFKNSTK.WVGFSG.QHH.VCMDS.GKAYSLGRAEYGRLGLGE.AEE.SMPTLI.RLPIVSSVA
Retrocopy VPQNLTSFKNSTKFWVGFSGSQHHIVCMDSAGKAYSLGRAEYGRLGLGEDAEERSMPTLISRLPIVSSVA

Parental  CGASVGYAVTKDGRVFAWGMGTNYQLGTGQEEDAWIPVEMTGKQLENRLVLSVSSGGQHTVLLVRDKQQS
          CGASVGYAVTKDGRVFAWGMGTNYQLGTGQEEDAWIPVEMTGKQLENRLVLSVSSGGQHTVLLVRDKQQS
Retrocopy CGASVGYAVTKDGRVFAWGMGTNYQLGTGQEEDAWIPVEMTGKQLENRLVLSVSSGGQHTVLLVRDKQQS

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Myotis lucifugus was not studied using RNA-Seq expression data.

ChIP-Seq

Myotis lucifugus was not studied using ChIP-Seq data.

EST

Myotis lucifugus was not studied using EST data.

TSS

Myotis lucifugus was not studied using FANTOM5 data.

Lab

retro_mluc_2278 was not experimentally validated.

Homology

Retrocopy orthology:

Myotis lucifugus 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 4 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000009686	3 retrocopies	retro_cjac_2440, retro_cjac_3424, retro_cjac_3856,
Erinaceus europaeus	ENSEEUG00000004565	1 retrocopy	retro_eeur_418,
Myotis lucifugus	ENSMLUG00000017075	1 retrocopy	retro_mluc_2278 ,
Rattus norvegicus	ENSRNOG00000050106	1 retrocopy	retro_rnor_2886,