RetrogeneDB ID: retro_mmur_1264

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_37582:2272..2908(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CCNB1IP1
• Ensembl ID: ENSMICG00000000893
• Aliases: None
• Description: cyclin B1 interacting protein 1, E3 ubiquitin protein ligase [Source:HGNC Symbol;Acc:19437]

Sequence

>retro_mmur_1264
ACACAGAACTGTCCATCAGAGGAATATGACGCTATGGTACTGGCAGGAATGCGCTCAGAGATCGTGTTGGACATTAGCTC
ACGAGCACTGGCCTTCTGGATGTATCCAGTACATGGGGAGTGTCTCTATCAAGAATATAATTTTAGCAAGGCTGTGGGCC
ATCTGAAACAGATGGAGAAGACACATATTCAGCAAAGACATTGCAAGGATGTAGAATTGACCTTTATGAAAAGGCAGTTC
ACCTCCATGAAGAAAATTCTAGAAGAATACAAGAAAAATTTCAGTGACATAATCTGAGAAATTCATGGAGCACAATCACC
AGTATCAACAGCTGCAAGGCCCCTATGATGGGCCTGGCTACAAAACCTAACTATTGCTAACCAAGAAGGCACGCTCGAAC
CATCCATGATCACACAGTCTGGTGTTTTTGGTTTCTCATCTGGGAACAACTCAAAGTTTTCTTTGGATATAATACACCAG
TTCAAAATCGGAGATGGAGATTTTTCGGTTCAGACCATTTTTTGTGGGTTCTCCCACAGCACCTGAACCCAGCAACAGCT
TTTTTAGTTTTGCCTCTCCATGTCATGAATCACAGCAGGAGCAAGTCCCCAGCAGGCCTTCAAAGTAAAAAGAATT

Alignment

ORF - retro_mmur_1264 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.85 %
• Parental protein coverage: 71.57 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  TELSPSEEYKAMVLAGLRPEIVLDISSRALAFWTYQVHQERLYQEYNFSKAEGHLKQMEKIYTQQIQSKD
          T...PSEEY.AMVLAG.R.EIVLDISSRALAFW.Y.VH.E.LYQEYNFSKA.GHLKQMEK...QQ...KD
Retrocopy TQNCPSEEYDAMVLAGMRSEIVLDISSRALAFWMYPVHGECLYQEYNFSKAVGHLKQMEKTHIQQRHCKD

Parental  VELTSMKGEVTSMKKVLEEYKKKFSDI-SEKLMERNRQYQKLQGLYDS-LRLRNLTIANQEGTLEPSMIT
          VELT.MK...TSMKK.LEEYKK.FSDI.SEK.ME.N.QYQ.LQG.YD....L.NLTIANQEGTLEPSMIT
Retrocopy VELTFMKRQFTSMKKILEEYKKNFSDI>SEKFMEHNHQYQQLQGPYDG<AWLQNLTIANQEGTLEPSMIT

Parental  QSGVFGFPVGNNSKFSLDNTPVRNRGGGDGDFQFRPFF-VGSPTAPEPSNSFFSFASPSRELQQEQVSSR
          QSGVFGF..GNNSKFSLD.......G.G..DF.....F.VGSPTAPEPSNSFFSFASP..E.QQEQV.SR
Retrocopy QSGVFGFSSGNNSKFSLDIIHQFKIGDG--DFSVQTIF>VGSPTAPEPSNSFFSFASPCHESQQEQVPSR

Parental  -AFKVKRI
          .AFKVKRI
Retrocopy <AFKVKRI

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_1264 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1264 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 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000009967	2 retrocopies	retro_cjac_3244, retro_cjac_4197,
Homo sapiens	ENSG00000100814	1 retrocopy	retro_hsap_4877,
Gorilla gorilla	ENSGGOG00000004586	1 retrocopy	retro_ggor_3046,
Microcebus murinus	ENSMICG00000000893	2 retrocopies	retro_mmur_1264 , retro_mmur_1551,
Macaca mulatta	ENSMMUG00000016251	2 retrocopies	retro_mmul_2617, retro_mmul_371,
Nomascus leucogenys	ENSNLEG00000010636	1 retrocopy	retro_nleu_2556,
Pan troglodytes	ENSPTRG00000006088	1 retrocopy	retro_ptro_3249,
Rattus norvegicus	ENSRNOG00000026056	1 retrocopy	retro_rnor_842,
Ictidomys tridecemlineatus	ENSSTOG00000004394	1 retrocopy	retro_itri_1590,