RetrogeneDB ID: retro_sara_739

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_61086:601..902(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: UBE2K
• Ensembl ID: ENSSARG00000013725
• Aliases: None
• Description: ubiquitin-conjugating enzyme E2K [Source:HGNC Symbol;Acc:4914]

Sequence

>retro_sara_739
GCAGCAGCGATGACTCTGCGCACGGTATTATTGTCATTGCAAGCACTGTTGGCGGCTGCAGAACCCCATGATCCTCAAGA
TGCAGTGGTAGCAAATCAATACAAACAAAACCCTGAAATGTTCAAACAGACAGCTCGATTCTGGGCACATGTGTATGCTG
GAGCGCCAGTTTCTAGTCCAGAATATACAAAAAAAAATAGAAAATTTATGTGCTATGGGCTTTGATAGGAATGCAGTAAT
AGTGGCCTTGTCTTCAAAGTCCTGGGACGTAGAGACTGCAACAGAACTGCTTCTCAGTAAC

Alignment

ORF - retro_sara_739 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.07 %
• Parental protein coverage: 55.87 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  AAAMTLRTVLLSLQALLAAAEPDDPQDAVVANQYKQNPEMFKQTARLWAHVYAGAPVSSPEYTKKI-ENL
          AAAMTLRTVLLSLQALLAAAEP.DPQDAVVANQYKQNPEMFKQTAR.WAHVYAGAPVSSPEY.....ENL
Retrocopy AAAMTLRTVLLSLQALLAAAEPHDPQDAVVANQYKQNPEMFKQTARFWAHVYAGAPVSSPEYXXXX>ENL

Parental  CAMGFDRNAVIVALSSKSWDVETATELLLSN
          CAMGFDRNAVIVALSSKSWDVETATELLLSN
Retrocopy CAMGFDRNAVIVALSSKSWDVETATELLLSN

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_739 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001252	1 retrocopy	retro_chof_2683,
Otolemur garnettii	ENSOGAG00000008264	1 retrocopy	retro_ogar_2194,
Sorex araneus	ENSSARG00000013725	1 retrocopy	retro_sara_739 ,
Tursiops truncatus	ENSTTRG00000003174	1 retrocopy	retro_ttru_538,