RetrogeneDB ID: retro_mmur_1173

Retrocopy location

• Organism: Mouse Lemur (Microcebus murinus)
• Coordinates: scaffold_28543:2645..3187(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMICG00000007341
• Aliases: None
• Status: KNOWN_PSEUDOGENE

Parental gene information

• Parental gene symbol: RAB35
• Ensembl ID: ENSMICG00000012472
• Aliases: None
• Description: RAB35, member RAS oncogene family [Source:HGNC Symbol;Acc:9774]

Sequence

>retro_mmur_1173
GGTGTGGGCAAGAGCAGTTTACTCTTACGCTTTGCAGACAACACTTTCTCAGGCAGCTACATCACCACAATTGGAGTGGA
CTTCAAGATCCGGACCATGGAGATCAACCCGGAGAAGATGAAGCTACAGATCTGGGACACTGCGGGGCAGGAGCGCTTCC
GCACCATCATTTCCACATATTATCGGGGGACCCATGGGGTCATCGTGGTGGTTTATGACATCACCAGTGCTGAATCCTTT
GTCAACCTCAAGCGGTGGTTTCATGAAATCAACCAGAACTGTGACGATGTGTGCCAGATATTAGTGGGGAATAAGAATGA
TGATCCTGAGCGGAAGGTGGTGGAGATGAAGATGCCTACAAATTCGCTGGGCAGATGGGGACCCAGTTGTTCGAGACCAG
TGACAAGGAGAACATCAGTGTGGAGCTGATGTTCAACTGTATCACAGAGCTGGTCCTTCAAGCAAAGAAAGACAACTTGG
TGAAACAGCAGCAGCAACAGAACGACATGGTAAAGCTCACGAGGAACAGTAAACAAAAGAAA

Alignment

ORF - retro_mmur_1173 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.52 %
• Parental protein coverage: 98.37 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  GVGKSSLLLRFADNTFSGDYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVI-V
          GVGKSSLLLRFADNTFSG.YITTIGVDFKIRT.EIN.EK.KLQIWDTAGQERFRTI.STYYRGTHGVI.V
Retrocopy GVGKSSLLLRFADNTFSGSYITTIGVDFKIRTMEINPEKMKLQIWDTAGQERFRTIISTYYRGTHGVIVV

Parental  VYDVTSAESFVNVKRWLHEINQNCDDVCRILVGNKNDDPERKVVE-TEDAYKFAGQMGIQLFETSAKENI
          VYD.TSAESFVN.KRW.HEINQNCDDVC.ILVGNKNDDPERKVVE..EDAYKFAGQMG.QLFETS.KENI
Retrocopy VYDITSAESFVNLKRWFHEINQNCDDVCQILVGNKNDDPERKVVE<DEDAYKFAGQMGTQLFETSDKENI

Parental  NVEEMFNCITELVLRAKKDNLAKQQQQQQNDVVKLTRNSKRKK
          .VE.MFNCITELVL.AKKDNL.K.QQQQQND.VKLTRNSK.KK
Retrocopy SVELMFNCITELVLQAKKDNLVK-QQQQQNDMVKLTRNSKQKK

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_1173 retrocopy.

TSS

Microcebus murinus was not studied using FANTOM5 data.

Lab

retro_mmur_1173 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
Microcebus murinus	ENSMICG00000007113	1 retrocopy	retro_mmur_503,
Microcebus murinus	ENSMICG00000012472	1 retrocopy	retro_mmur_1173 ,
Sarcophilus harrisii	ENSSHAG00000018522	1 retrocopy	retro_shar_676,