RetrogeneDB ID: retro_sara_32

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_227238:1385..1664(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSARG00000000474
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSARG00000002439
• Aliases: None
• Description: None

Sequence

>retro_sara_32
GATCGAATCATCAATTTAGTTGTTGGCGGCTTAACATCCTTATTGATTCTTGTAACGCTGATCAGTACTTTTGTTTTCCC
TCAACTACCTCCAAAACCACTGAATATATTTTTTGCTGTCTGCATCTCTTTGGGCAGTATTACTGCCTGCATACTTATCT
ACTGGTATCGACAAGGAGACTTAGAACTGAAATTTAGAAACCTAATTTACTATATCTTATTTTCTATCATCATGTTATGT
ATATGTGCGAACCTGTATTTCCATGATGTGGGAAAGTGA

Alignment

ORF - retro_sara_32 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.74 %
• Parental protein coverage: 98.92 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DRIINLVVGGLTSLLILVTLISAFVFPQLPPKPLNIFFAVCISLSSITACILIYWYRQGDLEPKFRNLIY
          DRIINLVVGGLTSLLILVTLIS.FVFPQLPPKPLNIFFAVCISL.SITACILIYWYRQGDLE.KFRNLIY
Retrocopy DRIINLVVGGLTSLLILVTLISTFVFPQLPPKPLNIFFAVCISLGSITACILIYWYRQGDLELKFRNLIY

Parental  YILFSIIMLCICANLYFHDVGK
          YILFSIIMLCICANLYFHDVGK
Retrocopy YILFSIIMLCICANLYFHDVGK

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_32 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 6 parental genes, and 12 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000004888	4 retrocopies	retro_chof_1660, retro_chof_175, retro_chof_1906, retro_chof_821,
Microcebus murinus	ENSMICG00000014707	1 retrocopy	retro_mmur_808,
Otolemur garnettii	ENSOGAG00000000023	2 retrocopies	retro_ogar_1800, retro_ogar_383,
Rattus norvegicus	ENSRNOG00000042758	1 retrocopy	retro_rnor_2506,
Sorex araneus	ENSSARG00000002439	1 retrocopy	retro_sara_32 ,
Tupaia belangeri	ENSTBEG00000007846	3 retrocopies	retro_tbel_2016, retro_tbel_2828, retro_tbel_4176,