RetrogeneDB ID: retro_mmur_1476

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_66800:2..781(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: NT5C2
• Ensembl ID: ENSMICG00000012316
• Aliases: None
• Description: 5'-nucleotidase, cytosolic II [Source:HGNC Symbol;Acc:8022]

Sequence

>retro_mmur_1476
GGCACAGTACTGCGTCAAGTGGATACCAAAACTGGCGAGCTGAAAATTGGTACCTACACAGGCCCCTACAGCATGACATC
GTCCACTCAGGAGGTTCATCTGATACAATCTGTGATCTGTTCGGAGCCAAGGGAAAAGACATTTTGTATATTGGAGACCA
TATTTTTGGTGACATTTTAAAATCAAAGAAACGCCAAGGGTGGTGAACTTTCTTGGTTCTTCCTGAACTTGCACAGGAGC
TGCATGTCTGGACTGATAGGAGTTCACTTTTTGAAGAGCTTCAGAACTTGGATATCTTCTTGGCTGAACTCTGCAAGCAC
CTTGACAGCAGTAGCAGTGAGCGCCCAGACATTAGTTCCATCCAGAAACGTATTAAGAAAGTAACTCATGACATGGACAT
GTGCTATGGGATGATGGGAAGCCTGTTTCGCAGTGGCTCGCGGCAGACTCTCTTTGCCAGTCAAGTGATGTGTTATGCTG
ACCTGTATGCAGCCTCTTTCATCAACCTGCTGTATTACCCATTCAGCTACCTCTTCAGAGCTGCTCATGTCTTGATGCCT
CATGAATCAACAGTGGAACATACACATGTAGCTATCAACGAGATGGAGTCTCCCCTCGCCACCCGGATCCACACATCAGT
GGAGTTCAAAGACACCGACTGTAAGCAGTATCAGCTGACTTGGTCGATTAGTGAGATTAAACCCCCCAACCTCTTCCCAC
TGGTCCCCCAGGAAGTTATACACTGCCATGATGAAGATGATGATGAAGAAGAGAAAGAA

Alignment

ORF - retro_mmur_1476 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.19 %
• Parental protein coverage: 56.43 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GTVLRQVDTKTGKLKIGTYTGP-LQHGIVYSGGSSDTICDLLGAKGKDILYIGDHIFGDILKSKKRQGWR
          GTVLRQVDTKTG.LKIGTYTGP.LQH.IV.SGGSSDTICDL.GAKGKDILYIGDHIFGDILKSKKRQGW.
Retrocopy GTVLRQVDTKTGELKIGTYTGP<LQHDIVHSGGSSDTICDLFGAKGKDILYIGDHIFGDILKSKKRQGW*

Parental  TFLVIPELAQELHVWTDKSSLFEELQSLDIFLAELYKHLDSSSNERPDISSIQKRIKKVTHDMDMCYGMM
          TFLV.PELAQELHVWTD.SSLFEELQ.LDIFLAEL.KHLDSSS.ERPDISSIQKRIKKVTHDMDMCYGMM
Retrocopy TFLVLPELAQELHVWTDRSSLFEELQNLDIFLAELCKHLDSSSSERPDISSIQKRIKKVTHDMDMCYGMM

Parental  -SLFRSGSRQTLFASQVMRYADLYAASFINLLYYPFSYLFRAAHVLMPHESTVEHTHVDINEMESPLATR
          .SLFRSGSRQTLFASQVM.YADLYAASFINLLYYPFSYLFRAAHVLMPHESTVEHTHV.INEMESPLATR
Retrocopy GSLFRSGSRQTLFASQVMCYADLYAASFINLLYYPFSYLFRAAHVLMPHESTVEHTHVAINEMESPLATR

Parental  NRTSVEFKDTDYKRHQLTRSISEIKPPNLFPLVPQEITHCHDEDDDEEEEE
          ..TSVEFKDTD.K..QLT.SISEIKPPNLFPLVPQE..HCHDEDDDEEE.E
Retrocopy IHTSVEFKDTDCKQYQLTWSISEIKPPNLFPLVPQEVIHCHDEDDDEEEKE

Legend:

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

Expression

RNA-Seq

Microcebus murinus was not studied using RNA-Seq expression data.

ChIP-Seq

Microcebus murinus was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmur_1476 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1476 was not experimentally validated.

Homology

Retrocopy orthology:

Microcebus murinus 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 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000010354	1 retrocopy	retro_cfam_684,
Choloepus hoffmanni	ENSCHOG00000004098	1 retrocopy	retro_chof_280,
Microcebus murinus	ENSMICG00000012316	1 retrocopy	retro_mmur_1476 ,
Microcebus murinus	ENSMICG00000013300	1 retrocopy	retro_mmur_334,
Rattus norvegicus	ENSRNOG00000020179	1 retrocopy	retro_rnor_430,
Tupaia belangeri	ENSTBEG00000017707	4 retrocopies	retro_tbel_2188, retro_tbel_3201, retro_tbel_3465, retro_tbel_3467,