RetrogeneDB ID: retro_sara_544

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_232404:39179..39525(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBL3
• Ensembl ID: ENSSARG00000001173
• Aliases: None
• Description: ubiquitin-like 3 [Source:HGNC Symbol;Acc:12504]

Sequence

>retro_sara_544
ATGTCCAGGAATGTCCCGGAAGATATGATAAATTTACACCTCATCTTGGTGAGCTGGAAGATGAAAGAATTCCTTTTCAC
CTAATTCAGCTTTGGACATCGTAAAGCATGTGCATGACAAGTGGCCCATGGACTGGGAAGAAGAGCAAGTCAGCAGTCCA
AGTATTCTGTGACTTATTTATCAAGGTCGATTTCTACATGGAAATGTCACACGAGGAGCATCAAAACTTCCATTTGGGAG
AACAACAGTGACGCATTGGGTGGCCAGAGAGACATTGCCAGAGCCAAACTCACAAGGTCAGAGAAATAGTGAAAAGACTG
ACAAGAGTAAATGCTGTGTGACCCTG

Alignment

ORF - retro_sara_544 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.97 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MSSNVPADMINLRLILV-SGKTKEFLFSPNDSASDIAKHVYDNWPMDWEEEQVSSPSILRLIYQGRFLHG
          MS.NVP.DMINL.LILV..G..K...FSPN.SA.DI.KHV.D.WPMDWEEEQVSSPSIL.LIYQGRFLHG
Retrocopy MSRNVPEDMINLHLILV>AGR*KNS-FSPN-SALDIVKHVHDKWPMDWEEEQVSSPSIL*LIYQGRFLHG

Parental  NVTLGALKLPFGKTTVMHLVARETLPEPNSQGQRNREKTGESNCCVIL
          NVT.GA.KLPFG.TTV.H.VARETLPEPNSQGQRN.EKT..S.CCV.L
Retrocopy NVTRGASKLPFGRTTVTHWVARETLPEPNSQGQRNSEKTDKSKCCVTL

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_544 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryctolagus cuniculus	ENSOCUG00000001957	1 retrocopy	retro_ocun_760,
Sorex araneus	ENSSARG00000001173	2 retrocopies	retro_sara_544 , retro_sara_752,