RetrogeneDB ID: retro_sara_255

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_1332:5926..6461(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ECHDC1
• Ensembl ID: ENSSARG00000011144
• Aliases: None
• Description: enoyl CoA hydratase domain containing 1 [Source:HGNC Symbol;Acc:21489]

Sequence

>retro_sara_255
GATGGCATGGCCTTGTGTATGTTCATGCAAAATACCTTAACAAGATTTATGAGATTTCCTTTAATAAGTGTTGAGCTGAT
TCAAGGACGGGCATTGGGTGGAGAAGCAGAATTTACTACAGTATGTGATTTCAGATTAATGGCTAAAGAGAGTGAGATCA
GATTTGTCCACAGGGAGATGGGGATAATGCCAAGCTGGGGTGGTGCTACTTGGGTGGTTAATATCATGGCAGTAGACTAG
CTCTCAGCATCTTAAATGGGTCCTTAAACTAGATCCAATGAAAGCTTTGAGCATAGGAATAGCTGAAGAGGTCTTGTAGT
CTTCACATGAAAATGAATCTCTACAAGAGGCACAAGAGTGGCTAAAGCAATTTATCAAAGGGCCACCAGAAATAATTAGA
GCTATGAAAAAATCTGTGTTGTCAGTCAAGCAGCTTGGTTTTGAGGAGGCATTACAGACTGAAAGAGATCTTGTAGGCGC
GGTTTGGGGTGGACCTGCAAATTTAGAGGCGATTGCTAGAAGAGGAAAATTTAAA

Alignment

ORF - retro_sara_255 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.32 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  DGVALCMFMQNTLTRFMRLPLISVALIQGRAMGGGAEFTTACDFRLMTKESEIRFVHKEMGIVPSWGGAT
          DG.ALCMFMQNTLTRFMR.PLISV.LIQGRA.GG.AEFTT.CDFRLM.KESEIRFVH.EMGI.PSWGGAT
Retrocopy DGMALCMFMQNTLTRFMRFPLISVELIQGRALGGEAEFTTVCDFRLMAKESEIRFVHREMGIMPSWGGAT

Parental  RLVNII-GSRQALKVLSGAL-KLDSVKAVNIGMAEEVLQSSDENESLQEAQEWLKQFTKGSPEVIRAMKT
          ..VNI..GSR.AL..L.G.L.KLD..KA..IG.AEEVL.SS.ENESLQEAQEWLKQF.KG.PE.IRAMK.
Retrocopy WVVNIM<GSRLALSILNGSL<KLDPMKALSIGIAEEVL*SSHENESLQEAQEWLKQFIKGPPEIIRAMKK

Parental  SVSSVKQLGFEEALQTERDLVGTVWGGPANLEAIARRGKFK
          SV.SVKQLGFEEALQTERDLVG.VWGGPANLEAIARRGKFK
Retrocopy SVLSVKQLGFEEALQTERDLVGAVWGGPANLEAIARRGKFK

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_255 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 5 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000001069	1 retrocopy	retro_cfam_2182,
Cavia porcellus	ENSCPOG00000004786	1 retrocopy	retro_cpor_1303,
Echinops telfairi	ENSETEG00000006454	2 retrocopies	retro_etel_2049, retro_etel_564,
Mustela putorius furo	ENSMPUG00000014606	1 retrocopy	retro_mputfur_14,
Sorex araneus	ENSSARG00000011144	2 retrocopies	retro_sara_149, retro_sara_255 ,