RetrogeneDB ID: retro_mmur_1165

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_27784:39232..39512(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: HSPE1
• Ensembl ID: ENSMICG00000000148
• Aliases: None
• Description: heat shock 10kDa protein 1 (chaperonin 10) [Source:HGNC Symbol;Acc:5269]

Sequence

>retro_mmur_1165
TTCTGCGTTTTGACAGAGTATTTATTGGTTGAAAGGAGTGCAGCTGAAACTGTAACCAAAGGAGGCACTGTGCTTCCAGA
AAAACCTCAAGGAAAAGTATCGCAAGCAACAATAGTTGTTGTTGGATCGGGCTCTAAAGGAAAGGGTGGAAAGACTCAAC
CAGTTAGTGTGAAAGTTGCAGATAAAGTTCTCCCAGAACATGGAGGCACCCAAGTAGTTCTAGATGACAATGATTATTTC
TTATTTAGAGATGGTTAACATTCTTGGAAAGTATGTTGAC

Alignment

ORF - retro_mmur_1165 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.89 %
• Parental protein coverage: 93.07 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FLPLFDRVLVERSAAETVTKGGIMLPEKSQGKVLQATVVAVGSGSKGKGGEIQPVSVKVGDKVLLPEYGG
          F..L....LVERSAAETVTKGG..LPEK.QGKV.QAT.V.VGSGSKGKGG..QPVSVKV.DKV.LPE.GG
Retrocopy FCVLTEYLLVERSAAETVTKGGTVLPEKPQGKVSQATIVVVGSGSKGKGGKTQPVSVKVADKV-LPEHGG

Parental  TKVVLDDKDYFLFRDG-DILGKYVD
          T.VVLDD.DYFLFRDG..ILGKYVD
Retrocopy TQVVLDDNDYFLFRDG>NILGKYVD

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_1165 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1165 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 6 parental genes, and 88 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000013769	18 retrocopies	retro_amel_1027, retro_amel_1083, retro_amel_1084, retro_amel_1100, retro_amel_133, retro_amel_1504, retro_amel_1513, retro_amel_1623, retro_amel_1699, retro_amel_1819, retro_amel_199, retro_amel_23, retro_amel_269, retro_amel_310, retro_amel_329, retro_amel_491, retro_amel_506, retro_amel_922,
Dasypus novemcinctus	ENSDNOG00000013246	27 retrocopies	retro_dnov_1088, retro_dnov_1117, retro_dnov_1214, retro_dnov_1375, retro_dnov_1391, retro_dnov_1405, retro_dnov_1412, retro_dnov_1428, retro_dnov_1445, retro_dnov_1546, retro_dnov_1647, retro_dnov_1652, retro_dnov_1686, retro_dnov_1821, retro_dnov_2176, retro_dnov_2291, retro_dnov_2413, retro_dnov_2569, retro_dnov_2625, retro_dnov_2652, retro_dnov_418, retro_dnov_481, retro_dnov_483, retro_dnov_490, retro_dnov_524, retro_dnov_554, retro_dnov_966,
Loxodonta africana	ENSLAFG00000000057	1 retrocopy	retro_lafr_69,
Microcebus murinus	ENSMICG00000000148	12 retrocopies	retro_mmur_1036, retro_mmur_1165 , retro_mmur_1181, retro_mmur_274, retro_mmur_326, retro_mmur_456, retro_mmur_504, retro_mmur_667, retro_mmur_761, retro_mmur_833, retro_mmur_913, retro_mmur_924,
Otolemur garnettii	ENSOGAG00000034434	24 retrocopies	retro_ogar_1018, retro_ogar_1441, retro_ogar_1512, retro_ogar_1690, retro_ogar_1744, retro_ogar_1899, retro_ogar_191, retro_ogar_1921, retro_ogar_200, retro_ogar_2030, retro_ogar_2129, retro_ogar_2310, retro_ogar_235, retro_ogar_2439, retro_ogar_2636, retro_ogar_2928, retro_ogar_3088, retro_ogar_3350, retro_ogar_3419, retro_ogar_389, retro_ogar_777, retro_ogar_824, retro_ogar_829, retro_ogar_834,
Rattus norvegicus	ENSRNOG00000014868	6 retrocopies	retro_rnor_1094, retro_rnor_1320, retro_rnor_1334, retro_rnor_2245, retro_rnor_2296, retro_rnor_984,