RetrogeneDB ID: retro_mmur_1590

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_88351:4084..4478(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: LIN7C
• Ensembl ID: ENSMICG00000005165
• Aliases: None
• Description: lin-7 homolog C (C. elegans) [Source:HGNC Symbol;Acc:17789]

Sequence

>retro_mmur_1590
ATGGCGGCGCTGGGGCAACCTGTGCGGCTGGAGAGGGATACTTGCAGAGCAATTGAATTGTTGGAAAAACTGCAAGGGAG
TGGAGAGGTACCACCGCAAACCTTCAGGCTTTGAAAAGGTCCTTCAACATGAGTTCTCCAATGCTGTGAGAGAGGTGTAT
GAACACGTCTATGAAACTGTGGACACCAGCAGGAGTCCTGAAGTAAGAGCTAATGCAACTGCAAAGGCTATTGTTGCTGC
ATTTGCTCCCAGTGAAGGACATTCTCATCCTTGAGTTGTTGAGCTACCAAAACCAGAAGAAGACCTTGGTTTCAATATTA
TGGGAGGCAAGGAACAAAACTCTCCAATATATATAACTCGAATAATTCCAGGTGGAATTGCTGATAGACATGGG

Alignment

ORF - retro_mmur_1590 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.31 %
• Parental protein coverage: 67.01 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAALGEPVRLERDICRAIELLEKLQRSGEVPPQ-KLQALQR-VLQSEFCNAVREVYEHVYETVDISSSPE
          MAALG.PVRLERD.CRAIELLEKLQ.SGEVPPQ..LQAL.R.VLQ.EF.NAVREVYEHVYETVD.S.SPE
Retrocopy MAALGQPVRLERDTCRAIELLEKLQGSGEVPPQ<NLQALKR<VLQHEFSNAVREVYEHVYETVDTSRSPE

Parental  VRANATAKATVAAFAASEGHSHPRVVELPKTEEGLGFNIMGGKEQNSPIYISRIIPGGIADRHG
          VRANATAKA.VAAFA.SEGHSHP.VVELPK.EE.LGFNIMGGKEQNSPIYI.RIIPGGIADRHG
Retrocopy VRANATAKAIVAAFAPSEGHSHP*VVELPKPEEDLGFNIMGGKEQNSPIYITRIIPGGIADRHG

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_1590 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1590 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 2 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000000111	7 retrocopies	retro_chof_1046, retro_chof_1062, retro_chof_1417, retro_chof_2399, retro_chof_2401, retro_chof_2515, retro_chof_864,
Microcebus murinus	ENSMICG00000005165	2 retrocopies	retro_mmur_1590 , retro_mmur_577,