RetrogeneDB ID: retro_sara_83

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: GeneScaffold_2346:17717..17907(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: BOLA3
• Ensembl ID: ENSSARG00000001754
• Aliases: None
• Description: bolA homolog 3 (E. coli) [Source:HGNC Symbol;Acc:24415]

Sequence

>retro_sara_83
CCCCGGGCCATAGCTATCAAAGTCACAGACATTTCAGGAGGCTGCGGAGCCATGTATGAAATCCAAATCGAGTCGGAAGA
CTTTAAGGCAAAGAAAATTGTCCAGCAGCACCAGATGGTGAATCAGGCCCTGAAAGAAGAGATCAAGGGGATGCACGGAC
TGCGGGATCTTCACCTCCGTCCCCAAGCGC

Alignment

ORF - retro_sara_83 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.88 %
• Parental protein coverage: 57.27 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  PRATAIKVTDISGGCGAMYEIQIESEDFKAKKIVQQHQMVNQALKEEIKGMHGLR-IFTSVPKR
          PRA.AIKVTDISGGCGAMYEIQIESEDFKAKKIVQQHQMVNQALKEEIKGMHGLR.IFTSVPKR
Retrocopy PRAIAIKVTDISGGCGAMYEIQIESEDFKAKKIVQQHQMVNQALKEEIKGMHGLR>IFTSVPKR

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_83 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 17 parental genes, and 32 retrocopies.

Species	Parental gene accession	Retrocopies number
Canis familiaris	ENSCAFG00000008739	1 retrocopy	retro_cfam_1574,
Callithrix jacchus	ENSCJAG00000017844	1 retrocopy	retro_cjac_1112,
Dasypus novemcinctus	ENSDNOG00000008309	2 retrocopies	retro_dnov_2474, retro_dnov_510,
Homo sapiens	ENSG00000163170	3 retrocopies	retro_hsap_1959, retro_hsap_3383, retro_hsap_4148,
Gorilla gorilla	ENSGGOG00000024505	4 retrocopies	retro_ggor_1423, retro_ggor_1424, retro_ggor_2290, retro_ggor_2786,
Myotis lucifugus	ENSMLUG00000016364	1 retrocopy	retro_mluc_1407,
Macaca mulatta	ENSMMUG00000015207	2 retrocopies	retro_mmul_1181, retro_mmul_2109,
Mustela putorius furo	ENSMPUG00000007813	1 retrocopy	retro_mputfur_1519,
Mus musculus	ENSMUSG00000045160	1 retrocopy	retro_mmus_1648,
Nomascus leucogenys	ENSNLEG00000000320	4 retrocopies	retro_nleu_1391, retro_nleu_1567, retro_nleu_2604, retro_nleu_971,
Oryctolagus cuniculus	ENSOCUG00000016658	1 retrocopy	retro_ocun_51,
Otolemur garnettii	ENSOGAG00000003502	1 retrocopy	retro_ogar_1839,
Pongo abelii	ENSPPYG00000012285	2 retrocopies	retro_pabe_1618, retro_pabe_3461,
Pan troglodytes	ENSPTRG00000012078	3 retrocopies	retro_ptro_1309, retro_ptro_2299, retro_ptro_2820,
Sorex araneus	ENSSARG00000001754	1 retrocopy	retro_sara_83 ,
Sus scrofa	ENSSSCG00000008291	1 retrocopy	retro_sscr_750,
Tursiops truncatus	ENSTTRG00000006698	3 retrocopies	retro_ttru_1149, retro_ttru_1493, retro_ttru_254,