RetrogeneDB ID: retro_mmur_1629

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_97829:487..1629(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMICG00000007557
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: PACSIN2
• Ensembl ID: ENSMICG00000012990
• Aliases: None
• Description: protein kinase C and casein kinase substrate in neurons 2 [Source:HGNC Symbol;Acc:8571]

Sequence

>retro_mmur_1629
ATGTCTGTCACGTATGATGATTCCGTTGGAGTAGAAGTGTTCAGCGACAGCTTCTGGGAGGTTGGGAACTATAAGCGGAC
AGTGAAGCGGATTGACGATGGCCACCGCCTGTGCAGTGACCTCATGAACTGCCTGCACGAACGGGCATGCATTGAGAAGG
CATACGCACAGCAGTTCACCGAGTGGGCCCGGCGCTGGAGGCAGCTTGTGGAGAAGGGGCCACAGTATGGGACGGTGGAG
AAGGCCTGGATGGCCATGATGTCCGAGGCTGAGAGGGTGAGCGAGCTGCACCTCGAGGTGAAGGCCTCGCTGATGAATGA
AGACTTTGAGAAGATCAAGAACTGGCAGAAGGAAGCCTTTCACAAGCAGATGATGGGGGGCTTTAAGGAGACCAAGGAAG
CTGAGGACGGCTTTCGCAAGGCACAGAAGCCCTGGGCCAAGAAGCTGAAAGAGGTGGAGGCAGCAAAGAAAGCCCACCAC
ACAGCATGCAAAGAGGAGAAGTTGGCCATCTCACGAGACGCCAACAGCAAAGCAGACCCGTCCCTCAACCCTGAACAGCT
TAAGAAATTGCAAGACAAAGTAGAAAAATGCAAGCAAGATGTCCTTAAGACCAAAGAGAAGTATGAGAAGTCCCTGAAGG
AGCTTGACCAGAGCACACCCCAGTACATGGAGAACATGGAGCAGGTGTTTGAACAGTGCCAGCAATTTGAGGAGAAACAC
CTGCGCTTCTTCCGGGAGGTTCTGCTGGAGGTTCAGAAGCACCTAGACCTGTCCAATGTGGCCAGCTACAAAACCATTTA
CCGCGACCTGGAGCAGAGCATCAGGGCAGCCGACGCAGTGAGGACCTGAGGTGGTTCAGAGCCAATCATGGGCCCGGCAT
GGCCATGAACTGGCCGCAGTTTGAGGAGTGGTCTGCAGACCTGAATCGAACTCTCAGCTGGAGAGAGAAGAAGAAGACTG
CTGACGGTGTCACCCTGACAGGCATCAACCAGACAGGCGACCAGTCTCTGCAGAACAAGCCCGGCAGTGTGAGCAGCTTT
GAGAAGACCCAGAGCTACCCCACTGACTGGTCAGATGATGAGTCCAACAACCCCTTCTCCTCCACGGATGCCAACGGGGA
TTCAAACCCATTCGACGAGGAC

Alignment

ORF - retro_mmur_1629 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.2 %
• Parental protein coverage: 78.03 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSVTYDDSVGVEVSSDSFWEVGNYKRTVKRIDDGHRLCSDLMNCLHERARIEKAYAQQLTEWARRWRQLV
          MSVTYDDSVGVEV.SDSFWEVGNYKRTVKRIDDGHRLCSDLMNCLHERA.IEKAYAQQ.TEWARRWRQLV
Retrocopy MSVTYDDSVGVEVFSDSFWEVGNYKRTVKRIDDGHRLCSDLMNCLHERACIEKAYAQQFTEWARRWRQLV

Parental  EKGPQYGTVEKAWIAMMSEAERVSELHLEVKASLMNEDFEKIKNWQKEAFHKQMMGGFKETKEAEDGFRK
          EKGPQYGTVEKAW.AMMSEAERVSELHLEVKASLMNEDFEKIKNWQKEAFHKQMMGGFKETKEAEDGFRK
Retrocopy EKGPQYGTVEKAWMAMMSEAERVSELHLEVKASLMNEDFEKIKNWQKEAFHKQMMGGFKETKEAEDGFRK

Parental  AQKPWAKKLKEVEAAKKAHHTACKEEKLAISREANSKADPSLNPEQLKKLQDKVEKCKQDVLKTKEKYEK
          AQKPWAKKLKEVEAAKKAHHTACKEEKLAISR.ANSKADPSLNPEQLKKLQDKVEKCKQDVLKTKEKYEK
Retrocopy AQKPWAKKLKEVEAAKKAHHTACKEEKLAISRDANSKADPSLNPEQLKKLQDKVEKCKQDVLKTKEKYEK

Parental  SLKELDQSTPQYMENMEQVFEQCQQFEEKRLRFFREVLLEVQKHLDLSNVASYKTIYRGLEQSIPGGAEG
          SLKELDQSTPQYMENMEQVFEQCQQFEEK.LRFFREVLLEVQKHLDLSNVASYKTIYR.LEQSI...A..
Retrocopy SLKELDQSTPQYMENMEQVFEQCQQFEEKHLRFFREVLLEVQKHLDLSNVASYKTIYRDLEQSI-RAADA

Parental  V-EDLKRFRATGEPGWARNWTLAGEWSADLNRTLSRREKKKTADGVTLTGINQTGDQSLQNKPGSNLS--
          V.EDL..FRA...PG.A.NW....EWSADLNRTLS.REKKKTADGVTLTGINQTGDQSLQNKPGS..S..
Retrocopy V<EDLRWFRANHGPGMAMNWPQFEEWSADLNRTLSWREKKKTADGVTLTGINQTGDQSLQNKPGSVSSFE

Parental  -VPSNPVQSAQSQSSYNPFEDEDDTGSTVSEKED
          ...S.P.......S..NPF...D..G......ED
Retrocopy KTQSYPTDWSDDESN-NPFSSTDANGDSNPFDED

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_1629 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1629 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 2 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Microcebus murinus	ENSMICG00000012990	2 retrocopies	retro_mmur_1629 , retro_mmur_262,
Rattus norvegicus	ENSRNOG00000009756	2 retrocopies	retro_rnor_1788, retro_rnor_1789,