RetrogeneDB ID: retro_mmur_447

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_3195:117419..117782(-)
• Located in intron of: ENSMICG00000015552

Retrocopy information

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

Parental gene information

• Parental gene symbol: TSPAN6
• Ensembl ID: ENSMICG00000011370
• Aliases: None
• Description: tetraspanin 6 [Source:HGNC Symbol;Acc:11858]

Sequence

>retro_mmur_447
AATAATTATGAGAATGCTTTGAAGCATTATAACTCTATGGGAGATTATAGAAGCAATGCAGTAGACAAGATCCAAAATAC
GTTCCATTGTTGTAGTATCACCGATTATAAAGATTGGACGGATACTGATTATTATTCAGAAAAAGAATTTCCCAAGAATT
GCTGTAAACTTCAAGATTGTTCTCCACAGAGAGATGCAGATCAAGTAAACAATGAAGGTTGTATTAAAAAGGTGCTGACC
ATTTTAGAGTCAAAAATAGGAATTGTTGCCAGAATTTCCTTTGGAATTGCTTGCTGCCAGCTGTTTGGAATCTATCAACC
CTACTGCCTCTCTTGTGCCATAACTAATAACCAGTATGAGATA

Alignment

ORF - retro_mmur_447 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.39 %
• Parental protein coverage: 54.26 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NNYENALKHYNSTGDYRSNAVDKIQNTLHCCGITDYKDWTDTDYYSEKGFPKSCCKLQDCSPQRDADQVN
          NNYENALKHYNS.GDYRSNAVDKIQNT.HCC.ITDYKDWTDTDYYSEK.FPK.CCKLQDCSPQRDADQVN
Retrocopy NNYENALKHYNSMGDYRSNAVDKIQNTFHCCSITDYKDWTDTDYYSEKEFPKNCCKLQDCSPQRDADQVN

Parental  NEGCIKKVLTILESKIGIVAGISFGIACCQLFGIYQAYCLSRAITNNQYEI
          NEGCIKKVLTILESKIGIVA.ISFGIACCQLFGIYQ.YCLS.AITNNQYEI
Retrocopy NEGCIKKVLTILESKIGIVARISFGIACCQLFGIYQPYCLSCAITNNQYEI

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_447 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_447 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 9 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000017521	3 retrocopies	retro_cfam_1600, retro_cfam_1609, retro_cfam_878,
Callithrix jacchus	ENSCJAG00000004288	1 retrocopy	retro_cjac_2306,
Echinops telfairi	ENSETEG00000012276	1 retrocopy	retro_etel_1987,
Loxodonta africana	ENSLAFG00000027296	1 retrocopy	retro_lafr_994,
Microcebus murinus	ENSMICG00000011370	1 retrocopy	retro_mmur_447 ,
Nomascus leucogenys	ENSNLEG00000007505	1 retrocopy	retro_nleu_1186,
Otolemur garnettii	ENSOGAG00000004869	1 retrocopy	retro_ogar_2827,
Sarcophilus harrisii	ENSSHAG00000000274	1 retrocopy	retro_shar_515,
Sus scrofa	ENSSSCG00000012481	1 retrocopy	retro_sscr_84,