RetrogeneDB ID: retro_mmur_64

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: GeneScaffold_1069:255216..256015(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ITM2B
• Ensembl ID: ENSMICG00000001759
• Aliases: None
• Description: integral membrane protein 2B [Source:HGNC Symbol;Acc:6174]

Sequence

>retro_mmur_64
ATGGTGAAGGTGACGTTCAACCCGGCTCTGGCCCAGAAGGAGGCCAAGAAGGACGAGCCCAAGAGCGGCGAGGAGGCGCT
CATCACCCCCCCCCCACACCGTCGCGGTGGACTGCAAGGACCCAGATGATGTGGTACCAGTTGGCCAAAGAAGAGCCTGG
TGTTGGTGCATGTGCTTTGGACTAGCATTTATGCTTGCGGGTGTCATTTTAGGAGGAGCATACCTGTACAAATATTTTGC
ACTCCAACCGGATGACGTGTACTACTGTGGAATAAAGTACATCAAAGATGATGTCATCTTAAATGAGCCTTCTGCAGATG
CCCCAGCTGCGGGCTACCAGACAATTGAAGAAAATATTAAGATCTTTGAAGACGATGAGGTTGAATTCATCAGTGTGCCT
GTCCCAGAGTTTGCGGATAGTGATCCTGCCAACACTGTTCATGACTTTAACAAGAAACTCACAGACTATTTAGATCTTAA
TCTGGGTAAGTGCTATGTGATCCCTCTGAACACTTCCATTGTTATGCCACCCAGAAACCTGTTGGAGTGACTTATTATCA
TCAAGGCTGGAACCTATTTGCCTCTGTCACATCTGATTCAGGAGCACATGGTTATTACTGATCGCAGTGAAAATGTCGAT
CACCTGGGTTTCTTTATTTATCGACTGTGCCATGACAAGGAAACTTACAAACTCCAACGCAAAGAAACTGTTAAAGGCAT
TCAGAAACGTGAAGCCAGGGATCGCATCGCAATTCGGCATTTTGAAAACAAATTTGCAGTGGAAACTTTAATTTGTTCT

Alignment

ORF - retro_mmur_64 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.51 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MVKVTFNSALAQKEAKKDEPKSGEEALIIPPD-AVAVDCKDPDDVVPVGQRRAWCWCMCFGLAFMLAGVI
          MVKVTFN.ALAQKEAKKDEPKSGEEALI......VAVDCKDPDDVVPVGQRRAWCWCMCFGLAFMLAGVI
Retrocopy MVKVTFNPALAQKEAKKDEPKSGEEALIXXXX>TVAVDCKDPDDVVPVGQRRAWCWCMCFGLAFMLAGVI

Parental  LGGAYLYKYFALQPDDVYYCGIKYIKDDVILNEPSADAPAARYQTIEENIKIFEDDEVEFISVPVPEFAD
          LGGAYLYKYFALQPDDVYYCGIKYIKDDVILNEPSADAPAA.YQTIEENIKIFEDDEVEFISVPVPEFAD
Retrocopy LGGAYLYKYFALQPDDVYYCGIKYIKDDVILNEPSADAPAAGYQTIEENIKIFEDDEVEFISVPVPEFAD

Parental  SDPANIVHDFNKKLTAYLDLNLDKCYVIPLNTSIVMPPRNLLELLINIKAGTYLPQSYLIHEHMVITDRI
          SDPAN.VHDFNKKLT.YLDLNL.KCYVIPLNTSIVMPPRNLLE.LI.IKAGTYLP.S.LI.EHMVITDR.
Retrocopy SDPANTVHDFNKKLTDYLDLNLGKCYVIPLNTSIVMPPRNLLE*LIIIKAGTYLPLSHLIQEHMVITDRS

Parental  ENVDHLGFFIYRLCHDKETYKLQRKETVKGIQKREARDCITIRHFENKFAVETVICS
          ENVDHLGFFIYRLCHDKETYKLQRKETVKGIQKREARD.I.IRHFENKFAVET.ICS
Retrocopy ENVDHLGFFIYRLCHDKETYKLQRKETVKGIQKREARDRIAIRHFENKFAVETLICS

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_64 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_64 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
Macropus eugenii	ENSMEUG00000005617	1 retrocopy	retro_meug_27,
Microcebus murinus	ENSMICG00000001759	1 retrocopy	retro_mmur_64 ,
Monodelphis domestica	ENSMODG00000011189	1 retrocopy	retro_mdom_1651,
Tarsius syrichta	ENSTSYG00000001560	1 retrocopy	retro_tsyr_20,