RetrogeneDB ID: retro_sara_639

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_248082:4447..4878(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: ZCCHC10
• Ensembl ID: ENSSARG00000007221
• Aliases: None
• Description: zinc finger, CCHC domain containing 10 [Source:HGNC Symbol;Acc:25954]

Sequence

>retro_sara_639
AAAGCAAATAAGCAACATGTAAGATGCCATAAATGCTTGGAATTTGAACAGTGAGCTTATGAATGCACAGGGAAAAGAAA
ATATTCAACACAGGCCTTCAAGAACAGCAGTACTAATAAAAGGTCTAAGAGAAAAAGAAAATAGATTACGATGGCAACAA
ACCAGTGGAGAAACAAATGTAGAAAGACCAAGAAAAATAGGTGTAACAGTATAAGCAGTTCCAGTGACAAGGGCAATGAC
AGTTCAGCCAGGGACTTCTCATGAGAGTGAAGAAACATCAGCCTCCTCAGAAGCCAGTGACATTGATGAAAGATCCTCTG
GTTCGTCATCTCAGCCTCCTCCACACGCTCTTCCCCTCCTCTGATTCAGACTAGAATTCCAGCTCTACCATTCCGAGCAG
TGCCAGTATAGCCACCAGAGCAGAAGAAAAA

Alignment

ORF - retro_sara_639 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.97 %
• Parental protein coverage: 76.96 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 5

Retrocopy - Parental Gene Alignment:

Parental  EANKQHVRCQKCLEFGHWTYECTGKRKY-LHRPSRTAELKKALKERENRLLLQQSNGEANVER-KSKKKR
          .ANKQHVRC.KCLEF....YECTGKRKY..HRPSRTA.L.K.L.E.ENRL..QQ..GE.NVER...K...
Retrocopy KANKQHVRCHKCLEFEQ*AYECTGKRKY>QHRPSRTAVLIKGLREKENRLRWQQTSGETNVER<TKKNRC

Parental  SKSITSSSSSSSDSSAD-SSSESEESSTSSSSEDSDTEESSSSSSS-SSSSSSSS-SSSDSDSDSSSSSS
          .....SS......S..D.S....E.S..S...E.SD..E.SS.SSS.S.SS..SS..SSDSD..SSS...
Retrocopy NSISSSSDKGNDSSARD>SHESEETSASS---EASDIDERSSGSSS<SASSTRSS<PSSDSD*NSSSTIP

Parental  SSTSTDSSSDDE
          SS.S........
Retrocopy SSASIATRAEEK

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_639 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 21 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000001420	9 retrocopies	retro_chof_1243, retro_chof_1263, retro_chof_1773, retro_chof_2048, retro_chof_2132, retro_chof_2183, retro_chof_501, retro_chof_790, retro_chof_923,
Dasypus novemcinctus	ENSDNOG00000017302	1 retrocopy	retro_dnov_257,
Myotis lucifugus	ENSMLUG00000011366	4 retrocopies	retro_mluc_172, retro_mluc_2240, retro_mluc_2241, retro_mluc_2574,
Monodelphis domestica	ENSMODG00000013827	1 retrocopy	retro_mdom_1405,
Mus musculus	ENSMUSG00000018239	1 retrocopy	retro_mmus_269,
Pongo abelii	ENSPPYG00000015776	1 retrocopy	retro_pabe_2395,
Rattus norvegicus	ENSRNOG00000006943	3 retrocopies	retro_rnor_2037, retro_rnor_2528, retro_rnor_801,
Sorex araneus	ENSSARG00000007221	1 retrocopy	retro_sara_639 ,