RetrogeneDB ID: retro_sara_621

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_242691:7584..7928(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ENSA
• Ensembl ID: ENSSARG00000002625
• Aliases: None
• Description: endosulfine alpha [Source:HGNC Symbol;Acc:3360]

Sequence

>retro_sara_621
TCCCAGAAACAGGAAGAGGAGAACCCTGGGAGGAGACCAGAGAGGAAAAGCAGGACACACAGGAGAAAGAAGGGATTCTC
CCCGAGAGAGACGAGAAGGCAAAGCTGAAGGTCAAATATCCCAGGCTAGGTCAAAAGCCTGGAGGCTGTGACGTCCTCAG
GAAGAGACTCCAGAAAGGGCAAATGTACTTTGACTCAGGAGACTACAGCATGGCCAAAGTCAAGATGCAGAATAAGCAGC
TGCCCAGTGCAGGAGCTGACAAGAACATGGTGACTGGTGACCACATCCCCACCCCACAGAACCTACCCCAGAGAGAGTCC
TCGCTTGTCACCAGCAAGCTTGCA

Alignment

ORF - retro_sara_621 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.48 %
• Parental protein coverage: 99.14 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  SQKQEEENPA-EETGEEKQDTQEKEIILPERAEEAKLKAKYPSLGQKPGGSDFLMKRLQKGQKYFDSGDY
          SQKQEEENP..EET.EEKQDTQEKE.ILPER.E.AKLK.KYP.LGQKPGG.D.L.KRLQKGQ.YFDSGDY
Retrocopy SQKQEEENPG<EETREEKQDTQEKEGILPERDEKAKLKVKYPRLGQKPGGCDVLRKRLQKGQMYFDSGDY

Parental  NMAKAKMKNKQLPSAGADKNLVTGDHIPTPQDLPQRKSSLVTSKLA
          .MAK.KM.NKQLPSAGADKN.VTGDHIPTPQ.LPQR.SSLVTSKLA
Retrocopy SMAKVKMQNKQLPSAGADKNMVTGDHIPTPQNLPQRESSLVTSKLA

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_621 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000001375	1 retrocopy	retro_amel_1339,
Canis familiaris	ENSCAFG00000012054	1 retrocopy	retro_cfam_507,
Loxodonta africana	ENSLAFG00000011261	1 retrocopy	retro_lafr_151,
Mustela putorius furo	ENSMPUG00000004647	1 retrocopy	retro_mputfur_299,
Sorex araneus	ENSSARG00000002625	1 retrocopy	retro_sara_621 ,