RetrogeneDB ID: retro_mmur_1473

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_66565:343..693(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: GABARAPL2
• Ensembl ID: ENSMICG00000011981
• Aliases: None
• Description: GABA(A) receptor-associated protein-like 2 [Source:HGNC Symbol;Acc:13291]

Sequence

>retro_mmur_1473
ATGAAGTGGATGTCCAAGGAGGACCACTCACTGGAACACAGATGTGTGCAATCCTCGAAGATCTGAGCGAAATATCCTGA
CCGGGTTCCAGTGATTGTGGAAAAGGTCTCAGGCTCTCAGATTGTTGACATTGACAAACGGAAGTACTTGGTTCCATCTG
ATATCACTGTGGCTCAGTTCATGTGGATCATCAGGAAAAGGATCCAGCTTCCTTCTGAAAAGGCTATCTTCCTGTTTGTG
GATAAGACAGTCCCACAGTCCAACCTAACTATGGGACAGCTTTATGAGAAAGAAAAAATGAATATGGATTCTTGTATGTG
GCCTACAGCGGAGAGAACACTTTCGGCTTC

Alignment

ORF - retro_mmur_1473 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 94.07 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MKWMFKEDHSLEHRCVESSKIRAKYPDRVPVIVEKVSGSQIVDIDKRKYLVPSDITVAQFMWIIRKRIQL
          MKWM.KEDHSLEHRCV.SSKI.AKYPDRVPVIVEKVSGSQIVDIDKRKYLVPSDITVAQFMWIIRKRIQL
Retrocopy MKWMSKEDHSLEHRCVQSSKI*AKYPDRVPVIVEKVSGSQIVDIDKRKYLVPSDITVAQFMWIIRKRIQL

Parental  PSEKAIFLFVDKTVPQSSLTMGQLYEKE-KDEDGFLYVAYSGENTFGF
          PSEKAIFLFVDKTVPQS.LTMGQLYEKE.K.E.GFLYVAYSGENTFGF
Retrocopy PSEKAIFLFVDKTVPQSNLTMGQLYEKE<KNEYGFLYVAYSGENTFGF

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_1473 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1473 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 16 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000005453	2 retrocopies	retro_amel_1054, retro_amel_1238,
Canis familiaris	ENSCAFG00000031455	1 retrocopy	retro_cfam_639,
Callithrix jacchus	ENSCJAG00000014253	1 retrocopy	retro_cjac_146,
Dasypus novemcinctus	ENSDNOG00000002240	2 retrocopies	retro_dnov_1755, retro_dnov_2332,
Microcebus murinus	ENSMICG00000007356	2 retrocopies	retro_mmur_117, retro_mmur_507,
Microcebus murinus	ENSMICG00000011981	1 retrocopy	retro_mmur_1473 ,
Mustela putorius furo	ENSMPUG00000009894	1 retrocopy	retro_mputfur_993,
Mus musculus	ENSMUSG00000031950	5 retrocopies	retro_mmus_2637, retro_mmus_2655, retro_mmus_3240, retro_mmus_456, retro_mmus_506,
Rattus norvegicus	ENSRNOG00000019425	1 retrocopy	retro_rnor_57,