RetrogeneDB ID: retro_mluc_2127

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL430051:1154362..1154873(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SKA1
• Ensembl ID: ENSMLUG00000013388
• Aliases: None
• Description: None

Sequence

>retro_mluc_2127
CTGGAACAAATATGCTCTCATATTAATGAAATGATTGTCAATATATAAAAATCTTTGTCATTAAGAAACTGTGGGTCAAG
AATCTACCTTAAAGACTATATTAAATAAAATAGGAAATGAAATCATTTAATAAACAAACTTCTAAGTAAATTGGAATTAG
AAATTCAGTATCAAGTACAATCTACCTGTTCACTCAAGGAATTCAGTGAATCTCTTGAAGAAGATTGTAAAATGTGGAAC
ATCTCAAAGAAAACATACTTCCCATTTGCCTCAAGTTCAGTGACCCAGAACTTTGTGACTATATCAGATCTTGACCCTGA
AAAACCTGTCAAAGTTGAGGAATCTGCAGCCACAAAGAAGCCCCCTGAAGAACAAAGAAATTAAAGAAATGCCATTTATA
ACTTGTGATGAGTTCAATGGCATTCCTGTGTACATGAAATCCTTCTTACCCTATTGTCAAGTTAATGATGTTATTAAAGA
AACCAACAAGGCAGTAATCAGTAAATATAAG

Alignment

ORF - retro_mluc_2127 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.79 %
• Parental protein coverage: 67.45 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 6

Retrocopy - Parental Gene Alignment:

Parental  LDQICFHISEKIGNIKKSLSLRNCG-QEPNSKTILNKIGDEIL-VINELLNKLELEIQFQEQTTDSLKEL
          L.QIC.HI.E.I.NI.KSLSLRNCG.QE...KTILNKIG.EI...IN.LL.KLELEIQ.Q.Q.T.SLKE.
Retrocopy LEQICSHINEMIVNI*KSLSLRNCG>QESTLKTILNKIGNEII<LINKLLSKLELEIQYQVQSTCSLKEF

Parental  CASLEEDYK-DVEHLKENIPP-HLPQV-TVTQNSVNVSDLDSEEPVKVEEPGVTKK-PSKEQRNIKEMPF
          ..SLEED.K..VEHLKENI.P.HLPQV..VTQN.V..SDLD.E.PVKVEE...TKK.P.K....IKEMPF
Retrocopy SESLEEDCK<NVEHLKENILP<HLPQV<SVTQNFVTISDLDPEKPVKVEESAATKK>PLKN-KEIKEMPF

Parental  ITSEEFNGIPAYMKSRLTYCQINDVIKEINKAVVSKYK
          IT..EFNGIP.YMKS.L.YCQ.NDVIKE.NKAV.SKYK
Retrocopy ITCDEFNGIPVYMKSFLPYCQVNDVIKETNKAVISKYK

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_2127 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 6 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000008555	2 retrocopies	retro_cjac_1103, retro_cjac_875,
Dasypus novemcinctus	ENSDNOG00000000190	1 retrocopy	retro_dnov_1081,
Loxodonta africana	ENSLAFG00000005238	1 retrocopy	retro_lafr_849,
Myotis lucifugus	ENSMLUG00000013388	1 retrocopy	retro_mluc_2127 ,
Sus scrofa	ENSSSCG00000004518	1 retrocopy	retro_sscr_360,
Tursiops truncatus	ENSTTRG00000015539	1 retrocopy	retro_ttru_1083,