RetrogeneDB ID: retro_sara_524

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_230623:45766..46705(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: EXOG
• Ensembl ID: ENSSARG00000009026
• Aliases: None
• Description: endo/exonuclease (5'-3'), endonuclease G-like [Source:HGNC Symbol;Acc:3347]

Sequence

>retro_sara_524
TCTGTAGAAAAAGCTGTCTTGGAACAGTTTGGATTCCCTTTAACTGGAACAGAGACAAGGTGTTACACTAATCACACCTT
GTCTTGTGATCAGTCCAAGCGGGTCCCAAGATGGGTTCCTGAACATATATCCAAGAACAAGATATTAGGTAATGCAGACA
GAAAACAGTGTGAATTCAAGCCTGATCCCAATATCTCTCCGACCTTCAGTGCGATCAATGAGGACTATATTGGAAGTGGT
TGGTCTCGAGGTCATATGGCTCCAGATGGAAATAACAAATTCTCATCTAAAGCCAGGGCTAAAACTTTTTACCTTTCTAA
TATTGTGCCTCCGAATTTTGAGAATAATGCTGGCTATTGGAACAGAATAGAAATGTACTATCGAGAACTGACAGAGCGGT
TTGAAGATGTCTGGATCGTGTCTGGACCATTTACTTGGCCGCTGACTGGTAGTGATGGGAAGGAAACAGTTAGTTGCCAG
GTGATTGGCCAGGACCACATGGCTGTCCCCTCGCATCTCCTCAAGGTGATCCTGGCTCGCAGAAGCCTGCTGTCTGCAGA
ACCACTGGTGCTCAGGGCCTTTGTGGTCCCCAGTGAAGCTATTGGCTTCCAATCCCAGTTAAGCAAATTCCAAGTGAGTC
TCCAGGACCTGGAGAAGTTGTCTGGACTTGTGTTTTCCCCTCGTTTGGATAGAACTCGTGATATCAGGAACCTCTGCTCC
ATGGACACCCGCAGGCTCCTGGACTTCCAGGAGTTCACGCTTTACCTGAGCACATGGAAATTCGAGGGGGCCCGGACAGT
GGAAGCCATCAGGGAGAATCTGAGGAACTTGGGCGTTGAGCCTGATGATTACTTCTAGAAGCGCTATGAAAAGAAATAAG
AACTCAAAGCTAAGGAGCAGTCAGAAAAGCAGCCAGAAACCCCGGAGCAAAAGCCGTCT

Alignment

ORF - retro_sara_524 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.8 %
• Parental protein coverage: 86.46 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SKEKAVLEQFGFPLTGTETRCYTNHALSYDQSKRVPRWVLEHISKNKILGNADRKHCKFKPDPNISPTFS
          S.EKAVLEQFGFPLTGTETRCYTNH.LS.DQSKRVPRWV.EHISKNKILGNADRK.C.FKPDPNISPTFS
Retrocopy SVEKAVLEQFGFPLTGTETRCYTNHTLSCDQSKRVPRWVPEHISKNKILGNADRKQCEFKPDPNISPTFS

Parental  AINEDYIGSGWSRGHMAPAGNNKFSSKAMAETFYLSNIVPQNFENNAGYWNRMEMYCRELTERFEDVWIV
          AINEDYIGSGWSRGHMAP.GNNKFSSKA.A.TFYLSNIVP.NFENNAGYWNR.EMY.RELTERFEDVWIV
Retrocopy AINEDYIGSGWSRGHMAPDGNNKFSSKARAKTFYLSNIVPPNFENNAGYWNRIEMYYRELTERFEDVWIV

Parental  SGPLTLPQTGSDGKKTVSYQXIGQDNV-VPSHLFKVILARRS-LSAEPLVLEAFV--PEAIGFQSQLSEF
          SGP.T.P.TGSDGK.TVS.Q.IGQD...VPSHL.KVILARRS.LSAEPLVL.AFV...EAIGFQSQLS.F
Retrocopy SGPFTWPLTGSDGKETVSCQVIGQDHMAVPSHLLKVILARRSLLSAEPLVLRAFVVPSEAIGFQSQLSKF

Parental  QVSLQDLEKLSGLVFFPRLDRTSDIRNLCSVDTCRLLDFQEFTLYLSTRKLEGARTVARLEAIRENLRTS
          QVSLQDLEKLSGLVF.PRLDRT.DIRNLCS.DT.RLLDFQEFTLYLST.K.EGARTV...EAIRENLR..
Retrocopy QVSLQDLEKLSGLVFSPRLDRTRDIRNLCSMDTRRLLDFQEFTLYLSTWKFEGARTV---EAIRENLRNL

Parental  GVEPDDYFLKRYEKKLEELKAKEPSEKQPETPQGKPS
          GVEPDDYF.KRYEKK..ELKAKE.SEKQPETP..KPS
Retrocopy GVEPDDYF*KRYEKK-*ELKAKEQSEKQPETPEQKPS

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_524 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000005039	1 retrocopy	retro_cfam_1666,
Sorex araneus	ENSSARG00000009026	1 retrocopy	retro_sara_524 ,
Tupaia belangeri	ENSTBEG00000011185	1 retrocopy	retro_tbel_1231,