RetrogeneDB ID: retro_sara_130

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: GeneScaffold_3955:207683..207917(+)
• Located in intron of: ENSSARG00000011861

Retrocopy information

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

Parental gene information

• Parental gene symbol: SUMO1
• Ensembl ID: ENSSARG00000008205
• Aliases: None
• Description: small ubiquitin-like modifier 1 [Source:HGNC Symbol;Acc:12502]

Sequence

>retro_sara_130
AAAGCAAAACCTTCAAAGGACTTGAGGGATGAAAAGGAAGGAGACTACATTTAACTCCAAGTAGATAACAGGATAACAGT
GAAATTCACTTCAAAGTGAAAAGCATGACACATCTCAAGAAACTCAAAGAACTGTATTATCAAACACAGGGAGTTCTAAT
GAACTCAACTTTCTCTTTCAAGGTCAGAGAACTGCTGATAAGTGTATCCAAAAGAAGTGGAAATAGAGGATGAA

Alignment

ORF - retro_sara_130 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 61.9 %
• Parental protein coverage: 83.51 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 3

Retrocopy - Parental Gene Alignment:

Parental  EAKPSTEDLGDKKEGEYIKLKVIG-QDSSEIHFKVKMTTHLKKLKESYCQRQGVPMNSLRFLF-EGQRIA
          .AKPS..DL.D.KEG.YI.L.V...QD.SEIHFKVK..THLKKLKE.Y.Q.QGV.MNS..F.F..GQR.A
Retrocopy KAKPS-KDLRDEKEGDYI*LQVDN<QDNSEIHFKVKSMTHLKKLKELYYQTQGVLMNS-TFSF<QGQRTA

Parental  DNHT-PKELGMEEE
          D....PKE...E.E
Retrocopy DKCI<PKEVEIEDE

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_130 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 14 parental genes, and 60 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000009859	6 retrocopies	retro_btau_112, retro_btau_1512, retro_btau_1705, retro_btau_357, retro_btau_363, retro_btau_499,
Canis familiaris	ENSCAFG00000012431	8 retrocopies	retro_cfam_1226, retro_cfam_1253, retro_cfam_139, retro_cfam_1815, retro_cfam_1912, retro_cfam_2048, retro_cfam_386, retro_cfam_985,
Equus caballus	ENSECAG00000024693	4 retrocopies	retro_ecab_199, retro_ecab_365, retro_ecab_570, retro_ecab_935,
Erinaceus europaeus	ENSEEUG00000013161	6 retrocopies	retro_eeur_40, retro_eeur_404, retro_eeur_428, retro_eeur_644, retro_eeur_645, retro_eeur_651,
Felis catus	ENSFCAG00000031005	6 retrocopies	retro_fcat_1520, retro_fcat_218, retro_fcat_26, retro_fcat_472, retro_fcat_6, retro_fcat_862,
Myotis lucifugus	ENSMLUG00000007504	2 retrocopies	retro_mluc_1346, retro_mluc_188,
Mustela putorius furo	ENSMPUG00000000335	2 retrocopies	retro_mputfur_257, retro_mputfur_33,
Otolemur garnettii	ENSOGAG00000030345	1 retrocopy	retro_ogar_215,
Pongo abelii	ENSPPYG00000013083	3 retrocopies	retro_pabe_11, retro_pabe_1830, retro_pabe_775,
Pan troglodytes	ENSPTRG00000012817	1 retrocopy	retro_ptro_119,
Sorex araneus	ENSSARG00000005720	8 retrocopies	retro_sara_156, retro_sara_158, retro_sara_175, retro_sara_389, retro_sara_70, retro_sara_717, retro_sara_749, retro_sara_93,
Sorex araneus	ENSSARG00000008205	8 retrocopies	retro_sara_130 , retro_sara_429, retro_sara_433, retro_sara_456, retro_sara_487, retro_sara_679, retro_sara_758, retro_sara_763,
Sarcophilus harrisii	ENSSHAG00000011968	1 retrocopy	retro_shar_375,
Tursiops truncatus	ENSTTRG00000000642	4 retrocopies	retro_ttru_1646, retro_ttru_1652, retro_ttru_309, retro_ttru_399,