RetrogeneDB ID: retro_sara_553

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_233245:53397..53790(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: MAL2
• Ensembl ID: ENSSARG00000001514
• Aliases: None
• Description: mal, T-cell differentiation protein 2 (gene/pseudogene) [Source:HGNC Symbol;Acc:13634]

Sequence

>retro_sara_553
CTGTTCGGGGGCCTCGTCTGGATTCTGGTGGCCTACTCTCGCGTCCCTCTCCCTCTGCTGCAAGGATGGGTGATGTTCGT
GTCCGTGACAGCATTCGTCTTCTCCCTTCTCTTCCTGGGCGTGTTCCTCTCCGGCATGACCAAGACTGATGCCAACTGGA
AGTTCCTGGATTTGGTTTGCCACTCAGTAGTGTTTGTCTGTTACTTCGGAGCCTTTTTACTGGAAGCAGTAGCCACCTCC
CTGCACAATCGTCGGGGGGGCAGTGCAGCCTCGGCTGACACGCCGCTCCTGGATGACAACCAGTATCGCATCAACGTAGC
CGCCACAATTTTTGCCTTGGTGACCACAGCTTGTTATGGTTGCAGTGTGCGATTGGCTTTACTGAGATGGCGA

Alignment

ORF - retro_sara_553 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.68 %
• Parental protein coverage: 99.24 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LFGGLVWILVAYSRVPLPLLQGWVMFVSVTAFVFSLFFLGVFLSGKTKTDAXXXXXDFVYHFIVFVFYFG
          LFGGLVWILVAYSRVPLPLLQGWVMFVSVTAFVFSL.FLGVFLSG.TKTDA.....D.V.H..VFV.YFG
Retrocopy LFGGLVWILVAYSRVPLPLLQGWVMFVSVTAFVFSLLFLGVFLSGMTKTDANWKFLDLVCHSVVFVCYFG

Parental  AFLLEAAATSLHNLRGCNATLAETPLLDDNQYNINVAATIFAFVTTACYGCSLGLALRRWR
          AFLLEA.ATSLHN.RG..A..A.TPLLDDNQY.INVAATIFA.VTTACYGCS..LAL.RWR
Retrocopy AFLLEAVATSLHNRRGGSAASADTPLLDDNQYRINVAATIFALVTTACYGCSVRLALLRWR

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_553 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Sorex araneus	ENSSARG00000001514	2 retrocopies	retro_sara_229, retro_sara_553 ,
Tupaia belangeri	ENSTBEG00000001716	1 retrocopy	retro_tbel_4300,