RetrogeneDB ID: retro_sara_725

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_36009:23..284(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RAB8B
• Ensembl ID: ENSSARG00000005217
• Aliases: None
• Description: RAB8B, member RAS oncogene family [Source:HGNC Symbol;Acc:30273]

Sequence

>retro_sara_725
AATGACATAGGAATGACAAAAGACAAATGTCCATCCAAATAAAGACGGGGAAAATTAGCAATTGACTATGGAATGAAGTT
CTTGAAGACAAGTGCAAACTCTAGTACGAATGTAGAAGAGGTGTTTTTGGCACTTGCATGAGATATAATGACAAAACTCA
ACAGAAAAATTAATGACAGTAATTCAACAGGGGCAGGTGGGCCAGTGAAAATAACAGAAAACTGGTCAAAGAAGACCAGT
TTCTTCCACTGTTCTCTACTT

Alignment

ORF - retro_sara_725 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.41 %
• Parental protein coverage: 52.73 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NKCDMNDKRQVSKERGEKLAIDYGIKFLETSAKSSTNVEEAFFTLARDIMTKLNRKMNDSSSSGAGGPVK
          N...M......SK.R..KLAIDYG.KFL.TSA.SSTNVEE.F..LA.DIMTKLNRK.NDS.S.GAGGPVK
Retrocopy NDIGMTKDKCPSK*RRGKLAIDYGMKFLKTSANSSTNVEEVFLALA*DIMTKLNRKINDSNSTGAGGPVK

Parental  ITENRSKKTSFFRCSLL
          ITEN.SKKTSFF.CSLL
Retrocopy ITENWSKKTSFFHCSLL

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Sorex araneus was not studied using RNA-Seq expression data.

ChIP-Seq

Sorex araneus was not studied using ChIP-Seq data.

EST

Sorex araneus was not studied using EST data.

TSS

Sorex araneus was not studied using FANTOM5 data.

Lab

retro_sara_725 was not experimentally validated.

Homology

Retrocopy orthology:

Sorex araneus 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 4 parental genes, and 9 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000007196	3 retrocopies	retro_chof_1996, retro_chof_475, retro_chof_669,
Dasypus novemcinctus	ENSDNOG00000023965	3 retrocopies	retro_dnov_1191, retro_dnov_1981, retro_dnov_23,
Microcebus murinus	ENSMICG00000007113	1 retrocopy	retro_mmur_503,
Sorex araneus	ENSSARG00000005217	2 retrocopies	retro_sara_366, retro_sara_725 ,