RetrogeneDB ID: retro_mluc_1754

Retrocopy location

• Organism: Microbat (Myotis lucifugus)
• Coordinates: GL429901:2871633..2872255(+)
• Located in intron of: ENSMLUG00000002425

Retrocopy information

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

Parental gene information

• Parental gene symbol: RFC3
• Ensembl ID: ENSMLUG00000014088
• Aliases: None
• Description: None

Sequence

>retro_mluc_1754
AAACATGCCTTGCGTCGAACCACGGGAGAGTATATGTCCACCTGCAGATTGATCTCGTGTTGCAATTCTACATCTAAAGT
CATACCACCTGCTCATAGTAGGTAACTGGCTGTTCGCGTGCCTGCTCCCAGCCTTTGCCATGTGTTATCTACCATGTGCA
AGGAGGAAGGTCTGAATCTTCCTGCACTGCTGGCTCACAGACTTGCAGAAAAGTCCTGCGGAAGGCTCAGAAAAGCCCTA
TGTATGTGTCAGACTGTAGAGTCCAATAATGTCCTTTTGCTCCAGATCACGAAGTCCTAGAAACAGATGGGGAGATGTAG
CTGAGGGAGACTGCTAGTGCTATTGTCAGCCAGCAGACTCTAAAAAGGCTCCTTGAAGTTCATGGAAGACTCTCTGAGCT
TTTAGCTCCTTGTATTCCTCCTGAAATAATAATGAAGGGCCTCTCTCGGAACTTTTGCATAACTGTGATGGACAGCTAGA
GGGAGAAGTGGCCCAGATGGCAGCTTACTATGAACATTGTCTACAGCTGGGTAGTAAAGCCATTTATCACTTGGAAGGTT
TTGTGGCCAAATTCATGGCACTACATAAGAAGTTCATGAAGGATGGATTAGAAGGCATGATG

Alignment

ORF - retro_mluc_1754 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.93 %
• Parental protein coverage: 59.27 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  QHALRRTMEKYMSTCRLILCCNSTSKVIPPIRSRCLAIRVPAPSIEDICHVLSTVCKKEGLNLPSQLARR
          .HALRRT...YMSTCRLI.CCNSTSKVIPP..SR.LA.RVPAPS....CHVLST.CK.EGLNLP..LA.R
Retrocopy KHALRRTTGEYMSTCRLISCCNSTSKVIPPAHSR*LAVRVPAPSL---CHVLSTMCKEEGLNLPALLAHR

Parental  LAEKSCRNLRKALLMCEA-CRVQQYPFTEDQEVPETDWEVYLRETANAIVSQQTPQRLLEVRGRLYELLT
          LAEKSC..LRKAL.MC...CRVQ..PF..D.EV.ETD.E..LRETA.AIVSQQT..RLLEV.GRL.ELL.
Retrocopy LAEKSCGRLRKALCMCQT<CRVQ*CPFAPDHEVLETDGEM*LRETASAIVSQQTLKRLLEVHGRLSELLA

Parental  HCIPPEIIMKGL-LSELLHNCDGQLKGEVAQMAAYYEHRLQLGSKSIYHLEAFVAKFMALYKKFMEDGLE
          .CIPPEIIMKGL.LSELLHNCDGQL.GEVAQMAAYYEH.LQLGSK.IYHLE.FVAKFMAL.KKFM.DGLE
Retrocopy PCIPPEIIMKGL<LSELLHNCDGQLEGEVAQMAAYYEHCLQLGSKAIYHLEGFVAKFMALHKKFMKDGLE

Parental  GMM
          GMM
Retrocopy GMM

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_1754 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 8 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000018380	1 retrocopy	retro_cjac_1611,
Cavia porcellus	ENSCPOG00000008739	1 retrocopy	retro_cpor_405,
Myotis lucifugus	ENSMLUG00000014088	1 retrocopy	retro_mluc_1754 ,
Mustela putorius furo	ENSMPUG00000001885	1 retrocopy	retro_mputfur_1073,
Nomascus leucogenys	ENSNLEG00000001169	1 retrocopy	retro_nleu_674,
Pongo abelii	ENSPPYG00000005272	1 retrocopy	retro_pabe_2420,
Tupaia belangeri	ENSTBEG00000004725	1 retrocopy	retro_tbel_4191,
Tarsius syrichta	ENSTSYG00000009501	2 retrocopies	retro_tsyr_1772, retro_tsyr_331,