RetrogeneDB ID: retro_sara_517

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_229761:44149..44686(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNF167
• Ensembl ID: ENSSARG00000011216
• Aliases: None
• Description: ring finger protein 167 [Source:HGNC Symbol;Acc:24544]

Sequence

>retro_sara_517
ATAGCCACGGTGCTGTGGGGAGCGACCCCCACCCAGGGGTTCATTCGCGCGACCACCAGCAACAAGATCACCATGGACTT
TGCGGACCTGCCGGCTCTCTTTGGGTCTTCCTTGAAAGCGGAAGGACTTAGGGGGTTTCTTGTGGAGGCTCAACCGGTCA
ACGCCTGCAGTGCCATCAGCCCACCACCCCCACCGTTTTCGGGGGACAGGGAGTCCGTCTTTATTGCCTTGCTTCGGAGA
TTTGACTGCAACTTTGACCTTAAGGTCCTGAACGCGCAGAACGCTGGGTACGGTGCGGCGGTGGTGTACAATGTTAATTC
CGACGAACTTCTGAATATGGTGTGGAACAGTAAGGAAATTCAGGAACAGATCTTCATCCCCTCCGTTTTTATTGGAGAGA
GGAGTTCCAAGTACCTTCGTGCCTTCTTCCTTTACACACAGGGGGCCCACGTGCTTCTGGCCCCAAATGATATCTTCCAT
TTGGTCTTTTACCTTGTCATATTTACAGGCTCTTTTTCACTGCTGATTTTGTCTATG

Alignment

ORF - retro_sara_517 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.44 %
• Parental protein coverage: 50.72 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VATVLWGAAPIRGLIRATSDHNASMDFADLPALFGAALSQDGLQGFLVEAHPANACSPIAPPPPAPANG-
          .ATVLWGA.P..G.IRAT......MDFADLPALFG..L...GL.GFLVEA.P.NACS.I.PPPP.P..G.
Retrocopy IATVLWGATPTQGFIRATTSNKITMDFADLPALFGSSLKAEGLRGFLVEAQPVNACSAISPPPP-PFSGD

Parental  --SVFIALLRRYDCSFDLKVLNAQKAGYGAAVVHNVNSNELLNMVWNSEEIQQQIWIPSVFIGERSSEYL
          ..SVFIALLRR.DC.FDLKVLNAQ.AGYGAAVV.NVNS.ELLNMVWNS.EIQ.QI.IPSVFIGERSS.YL
Retrocopy RESVFIALLRRFDCNFDLKVLNAQNAGYGAAVVYNVNSDELLNMVWNSKEIQEQIFIPSVFIGERSSKYL

Parental  RALFVYEKGAQVLLVPDSSFPLGYYLIPFTGIVGLLVLAM
          RA.F.Y..GA.VLL.P...F.L..YL..FTG...LL.L.M
Retrocopy RAFFLYTQGAHVLLAPNDIFHLVFYLVIFTGSFSLLILSM

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_517 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 11 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000006392	1 retrocopy	retro_amel_43,
Bos taurus	ENSBTAG00000004913	1 retrocopy	retro_btau_217,
Canis familiaris	ENSCAFG00000015830	2 retrocopies	retro_cfam_1053, retro_cfam_84,
Dipodomys ordii	ENSDORG00000011757	2 retrocopies	retro_dord_277, retro_dord_432,
Equus caballus	ENSECAG00000021567	1 retrocopy	retro_ecab_583,
Felis catus	ENSFCAG00000011173	1 retrocopy	retro_fcat_99,
Mustela putorius furo	ENSMPUG00000010940	1 retrocopy	retro_mputfur_95,
Pteropus vampyrus	ENSPVAG00000003781	1 retrocopy	retro_pvam_1206,
Sorex araneus	ENSSARG00000011216	1 retrocopy	retro_sara_517 ,
Sus scrofa	ENSSSCG00000017906	1 retrocopy	retro_sscr_518,
Tursiops truncatus	ENSTTRG00000001298	1 retrocopy	retro_ttru_1062,