RetrogeneDB ID: retro_mmur_1372

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_5063:24504..25269(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: STX18
• Ensembl ID: ENSMICG00000009557
• Aliases: None
• Description: syntaxin 18 [Source:HGNC Symbol;Acc:15942]

Sequence

>retro_mmur_1372
TATATCATGTCTGATTATGGAAGGATGACAGACACAGAACGAGACCAGATAGGCCAGGATGCTCAGATATTCATGAGGAC
CTGTTCTGAAGCAATTCAACAACTAAGAACAGAAGCCCACAAGGAGATACATTCCCAGCAAGTGAAGGAGCACAGGACGT
CTGTTTTGGATTTCATTGAAGATTACTTAAAAAGAGTGTGTAAACTTTACTCAGAACAAAGAGCCATCCAAGTTAAAAGA
GTGGTGGATAAGAAAAGACTATCTAAGCTGGAACCAGAACCAAATACAAAAACAAGAGAATCCACATCTGAGAAGGTGTC
ACAGAATCCTTCAAAAGACTCTGAGGAAAAACCTACCACTGAAGAATATCCAGAAAAGATTTCAGCCAAAGCACAACCTG
AATTGGGAACCTGGGGAGAGGGCAAAGGTGAAGATGAATTATCCCCAGAAGAAATACAAATGTTTGAACAAGAAAATCAG
CAGCTAATTGGCGAAATGAACAGCTTGTTTGATGAAGTGAGGCAAATTGAAGGGAAAGTGGTTGAAATTTCCAGGCTCCA
AGAGATATTCATGGAAAAGGTTTTGCAACAGGAAGCCGAGATTGACAGCATTCACCAGTTAGTTGTAGGGGCGACTGAGA
ACATCAAGGAGGGCAATGAAGACATAAGAGAGGCCATTAAAAACAATGCTGGCTTCCGCGTGTGGATCCTCTTCTTCCTT
GTGATGTGCTCCTTCTCCTTGCTCTACCTTGACTGGTATGACAGC

Alignment

ORF - retro_mmur_1372 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.9 %
• Parental protein coverage: 76.28 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  HIVSDYGRMTDTERDQIDQDAQIFMRTCSEAIQQLRTEAHKEIHSQQVKEHRTAVLDFIEDYLKRVCKLY
          .I.SDYGRMTDTERDQI.QDAQIFMRTCSEAIQQLRTEAHKEIHSQQVKEHRT.VLDFIEDYLKRVCKLY
Retrocopy YIMSDYGRMTDTERDQIGQDAQIFMRTCSEAIQQLRTEAHKEIHSQQVKEHRTSVLDFIEDYLKRVCKLY

Parental  SEQRAIRVKRVVDKKRLSKLEPEPKTKTRESTSEKVSQNPSKDSEEKPTTEEYPXXISAEAQPELGTW-E
          SEQRAI.VKRVVDKKRLSKLEPEP.TKTRESTSEKVSQNPSKDSEEKPTTEEYP..ISA.AQPELGTW.E
Retrocopy SEQRAIQVKRVVDKKRLSKLEPEPNTKTRESTSEKVSQNPSKDSEEKPTTEEYPEKISAKAQPELGTWGE

Parental  GKGEDELSPEEIQMFEQENQRLIGEMNSLFDEVRQIEGKVVEISRLQEIFTEKVLQQEAEIDSIHQLVVG
          GKGEDELSPEEIQMFEQENQ.LIGEMNSLFDEVRQIEGKVVEISRLQEIF.EKVLQQEAEIDSIHQLVVG
Retrocopy GKGEDELSPEEIQMFEQENQQLIGEMNSLFDEVRQIEGKVVEISRLQEIFMEKVLQQEAEIDSIHQLVVG

Parental  ATENIKEGNEDIREAIKNNAGFRVWILFFLVMCSFSLLFLDWYDS
          ATENIKEGNEDIREAIKNNAGFRVWILFFLVMCSFSLL.LDWYDS
Retrocopy ATENIKEGNEDIREAIKNNAGFRVWILFFLVMCSFSLLYLDWYDS

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_1372 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1372 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000168818	1 retrocopy	retro_hsap_1741,
Microcebus murinus	ENSMICG00000009557	1 retrocopy	retro_mmur_1372 ,
Macaca mulatta	ENSMMUG00000020204	1 retrocopy	retro_mmul_1222,
Mustela putorius furo	ENSMPUG00000007952	1 retrocopy	retro_mputfur_1453,