RetrogeneDB ID: retro_mmur_1240

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_35461:41311..42445(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: PGM2
• Ensembl ID: ENSMICG00000012334
• Aliases: None
• Description: phosphoglucomutase 2 [Source:HGNC Symbol;Acc:8906]

Sequence

>retro_mmur_1240
TACATGGAAGATCTGAAAAAAATCTGTATTCACAAGGAGTTAAACTCAAAGACCACCTTGAAATTTGTGCACACATCTTT
TCATGGGGTCGGACATGACTATGTGCAGTTGGCTTTTCAAGCGTTTGGTTTTAAGCCTCCAATTCCAGTACCAGAACAAA
AAGATCCTGATCCAGACTTCTCTACTGTTAGATGCCCAAATCCTGAAGAAGGAGAATCTGTGCTGGAACTTTCTCTGAGA
CTCGCAGAGAAAGAAAATGCCCGAATAGTGCTAGCCACAGATCCTGATGCAGACTGACTGGCAGTGGCAGAACTTCAGGA
GAATGATCGTTGGAAAGTTTTCACAGGGAATGAGTTGGCAGCTTTGTTTGGGTGGTGGATGTTTGATTGCTGGAAGAAAA
ATAAATCAAGAAATATTGATGTGAAGAACGTTTATATGTTAGCCACCACAGTCTCTTCTAAAATTTTGAAGGCAATTGCA
CTTAAAGAAGGATTTCATTTTGAAGAAACATTACCAGGTTTTAAATGGATTGGAAGTAGGATAAAAGGCCTCCTGGAAAA
TGGGAAAGAAGTCCTTTTTGCATTTGAAGAGTATATTGGTTTTCTGTGAACTTCAGTTTTGGATAAAGATGGGGTGAGTG
CAGCCGTTGTTGTTGCCGAGATGGCATCTTACCTGGAAACCATGAATGTAACATTGAAACAGCAACTAATTAAGGTTTAT
GAAAAATATGGTTATCATATTTCAAAAACTTCATATTTCTTATGTTATGATCCACCTACCATCAAAAGTATATTTGAAAG
GCTTCGTAATTTTGATTCTCCGAAAGAATATCCAAAATTTTGTGGGACATTTGCTATACTGCATGTACGGGACATTACCA
CTGGATATGACAGCAGTCAGCCTAATAAGAAATCAGTGCTGCCTGTGAGTAAAAATAGCCAAATGATTACATTTACTTTT
CAAAATGGCTGTGTTGCTACTCTTCGGACAAGTGGGACAGAACCAAAGATAAAGTATTATGCAGAGATGTGTGCATCACC
TGAGCAGAGTGACATTGCCTTACTGGAAGAAGAACTGAAGAAACTGATTGAAGTTCTGATTGAAAATTTTCTCGAGCCCA
GTAAGAATGGACTA

Alignment

ORF - retro_mmur_1240 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.42 %
• Parental protein coverage: 64.79 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  YLEDLTKYCFHRSVNKETRMKFVHTSVHGVGHAFVRSAFEAFDLAPPEAVAEQKDPDPEFPTVKYPNPEE
          Y.EDL.K.C.H...N..T..KFVHTS.HGVGH..V..AF.AF...PP..V.EQKDPDP.F.TV..PNPEE
Retrocopy YMEDLKKICIHKELNSKTTLKFVHTSFHGVGHDYVQLAFQAFGFKPPIPVPEQKDPDPDFSTVRCPNPEE

Parental  GKGVLTLSFALADKTKAKIVLANDPDADRLAVAEKQDRGDWRVFSGNELGALLGWWLFTSWKEKNQDRDA
          G..VL.LS..LA.K..A.IVLA.DPDAD.LAVAE.Q....W.VF.GNEL.AL.GWW.F..WK........
Retrocopy GESVLELSLRLAEKENARIVLATDPDAD*LAVAELQENDRWKVFTGNELAALFGWWMFDCWKKNKSRNID

Parental  LRDTYMLSSTVSSKILRAIALKEGFHFEETLTGFKWMGNRAKQLIDQGKTVLFAFEEAIGYMCCPFVLDK
          ....YML..TVSSKIL.AIALKEGFHFEETL.GFKW.G.R.K.L...GK.VLFAFEE.IG......VLDK
Retrocopy VKNVYMLATTVSSKILKAIALKEGFHFEETLPGFKWIGSRIKGLLENGKEVLFAFEEYIGFL*TS-VLDK

Parental  DGVSAAAISAELASFLASKNLSLSQQLEAIYVEYGYHITKASYFICHDQDIIKKLFEDLRNYDGKNNYPK
          DGVSAA...AE.AS.L...N..L.QQL...Y..YGYHI.K.SYF.C.D...IK..FE.LRN.D....YPK
Retrocopy DGVSAAVVVAEMASYLETMNVTLKQQLIKVYEKYGYHISKTSYFLCYDPPTIKSIFERLRNFDSPKEYPK

Parental  TCGKFEISSIRDLTTGYDDSQPDKKAVLPTSKSSQMITFTFANGGVATMRTSGTEPKIKYYAELCAPPGN
          .CG.F.I...RD.TTGYD.SQP.KK.VLP.SK.SQMITFTF.NG.VAT.RTSGTEPKIKYYAE.CA.P..
Retrocopy FCGTFAILHVRDITTGYDSSQPNKKSVLPVSKNSQMITFTFQNGCVATLRTSGTEPKIKYYAEMCASPEQ

Parental  SDPEQLKKELNELVSAIEVHFFQPQKYNL
          SD...L..EL..L.......F..P.K..L
Retrocopy SDIALLEEELKKLIEVLIENFLEPSKNGL

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_1240 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1240 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000011458	1 retrocopy	retro_chof_612,
Microcebus murinus	ENSMICG00000012334	1 retrocopy	retro_mmur_1240 ,
Monodelphis domestica	ENSMODG00000020527	1 retrocopy	retro_mdom_110,