RetrogeneDB ID: retro_sara_756

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_85317:461..858(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: STMN2
• Ensembl ID: ENSSARG00000010989
• Aliases: None
• Description: stathmin-like 2 [Source:HGNC Symbol;Acc:10577]

Sequence

>retro_sara_756
ATGGAAGGAAAGCAAACCAACCAACATGGCTCTGGCCAGGCTTTTGAGCTGATCTTGCTGCCACCATCGCCGTCTCTGAA
ACTCCAAGAACTTTAGCTTCTCCAAAGGAGAAAGGCCTGTCCCTGGAGGAGATTCAGGAAAATGCAACTGGAGGCTGCAG
AGGAAAGAAGAAGGTTCCAGGAAGCTCAGGTGCTAAAACAATGGGCAGGGAAGCAGGAACATGAATGAGAAGTGCTTCCA
AAGGCTTGGGGGAGAACAACAACTTTAGCCAGAAGGCAGAGAAAAAGGTGATCCTGAAAATGGAGCAATTTAAGGAAAAC
CATGAGATGATCATGCTGCTATTATTGAATGTATGCCAGAGAGGGAGAGGCACTCGGTGGTGTGCAGGGCCAGGAAG

Alignment

ORF - retro_sara_756 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.77 %
• Parental protein coverage: 94.29 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 4

Retrocopy - Parental Gene Alignment:

Parental  MEVKQINKRASGQAFELILKPPSP-ISEAPRTLASP-KKKDLSLEEIQK-KLEAAEERRKSQEAQVLKQL
          ME.KQ.N...SGQAFELIL.PPSP..SE.PRTLASP...K........K..LEAAEERR..QEAQVLKQ.
Retrocopy MEGKQTNQHGSGQAFELILLPPSP<VSETPRTLASP>RRKACPWRRFRKMQLEAAEERRRFQEAQVLKQW

Parental  AEKREHEREVLQKA-LEENNNFSKMAEEKLILKMEQIKENREANL-AAIIERLQEKERHAAEVRRNK
          A.K.EHE.EVL.KA.L.ENNNFS..AE.K.ILKMEQ.KEN.E....AAIIE...E.ERH....R..K
Retrocopy AGKQEHE*EVLPKA<LGENNNFSQKAEKKVILKMEQFKENHEMIM<AAIIECMPERERHSVVCRARK

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_756 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 8 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Dasypus novemcinctus	ENSDNOG00000003373	3 retrocopies	retro_dnov_2381, retro_dnov_545, retro_dnov_831,
Mustela putorius furo	ENSMPUG00000001863	1 retrocopy	retro_mputfur_68,
Otolemur garnettii	ENSOGAG00000027869	2 retrocopies	retro_ogar_2664, retro_ogar_330,
Oryzias latipes	ENSORLG00000008251	1 retrocopy	retro_olat_37,
Sorex araneus	ENSSARG00000010989	1 retrocopy	retro_sara_756 ,
Sorex araneus	ENSSARG00000011057	2 retrocopies	retro_sara_271, retro_sara_764,
Ictidomys tridecemlineatus	ENSSTOG00000025094	2 retrocopies	retro_itri_1012, retro_itri_1423,
Tarsius syrichta	ENSTSYG00000014759	1 retrocopy	retro_tsyr_26,