RetrogeneDB ID: retro_sara_595

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_236605:107790..108037(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RPS16
• Ensembl ID: ENSSARG00000000852
• Aliases: None
• Description: ribosomal protein S16 [Source:HGNC Symbol;Acc:10396]

Sequence

>retro_sara_595
ATGCTGTCTAAGGGACCGCTACACTCTGTGGCAGGTCTTCGGACGCAAGAAGACAGGCACAGCTGTGGCACACTGCAAAC
GAGGCAATGGCCTCATCAAAGTGAACAGGTATCCCTTGGAAATGATCGAGCCACGCACACTGCAGTACAAGCTTCTGGAG
CCTGTTCTACTGCTGGGCAAGGAGTGATTCGACGGTATGAACATCCGTGTCCAAGTGAAGGGTGGTGGTCACGTGGCTCA
GATTTAC

Alignment

ORF - retro_sara_595 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.75 %
• Parental protein coverage: 54.67 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MPSKGPLQSV-QVFGRKKTATAVAHCKRGNGLIKVNGRPLEMIEPRTLQYKLLEPVLLLGKERFAGVDIR
          M.SKGPL.SV.QVFGRKKT.TAVAHCKRGNGLIKVN..PLEMIEPRTLQYKLLEPVLLLGKE.F.G..IR
Retrocopy MLSKGPLHSV>QVFGRKKTGTAVAHCKRGNGLIKVNRYPLEMIEPRTLQYKLLEPVLLLGKE*FDGMNIR

Parental  VRVKGGGHVAQIY
          V.VKGGGHVAQIY
Retrocopy VQVKGGGHVAQIY

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_595 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.

---

Parental genes homology:

Parental genes homology involve 22 parental genes, and 81 retrocopies.

Species	Parental gene accession	Retrocopies number
Anolis carolinensis	ENSACAG00000014176	1 retrocopy	retro_acar_194,
Bos taurus	ENSBTAG00000021093	3 retrocopies	retro_btau_1509, retro_btau_167, retro_btau_441,
Callithrix jacchus	ENSCJAG00000014170	6 retrocopies	retro_cjac_2641, retro_cjac_2737, retro_cjac_3019, retro_cjac_885, retro_cjac_905, retro_cjac_949,
Cavia porcellus	ENSCPOG00000011359	3 retrocopies	retro_cpor_1266, retro_cpor_1408, retro_cpor_1515,
Dasypus novemcinctus	ENSDNOG00000001527	3 retrocopies	retro_dnov_2260, retro_dnov_2315, retro_dnov_308,
Echinops telfairi	ENSETEG00000015290	4 retrocopies	retro_etel_1825, retro_etel_1834, retro_etel_193, retro_etel_351,
Felis catus	ENSFCAG00000010743	4 retrocopies	retro_fcat_1258, retro_fcat_1709, retro_fcat_1806, retro_fcat_1976,
Gorilla gorilla	ENSGGOG00000014414	10 retrocopies	retro_ggor_110, retro_ggor_1250, retro_ggor_1344, retro_ggor_1664, retro_ggor_1766, retro_ggor_193, retro_ggor_2423, retro_ggor_2819, retro_ggor_652, retro_ggor_667,
Macropus eugenii	ENSMEUG00000010380	2 retrocopies	retro_meug_1306, retro_meug_612,
Microcebus murinus	ENSMICG00000006110	4 retrocopies	retro_mmur_1006, retro_mmur_1058, retro_mmur_375, retro_mmur_798,
Macaca mulatta	ENSMMUG00000019370	8 retrocopies	retro_mmul_1018, retro_mmul_1080, retro_mmul_1175, retro_mmul_1219, retro_mmul_1403, retro_mmul_20, retro_mmul_767, retro_mmul_862,
Nomascus leucogenys	ENSNLEG00000014388	3 retrocopies	retro_nleu_1266, retro_nleu_248, retro_nleu_46,
Otolemur garnettii	ENSOGAG00000004497	4 retrocopies	retro_ogar_1229, retro_ogar_1309, retro_ogar_1313, retro_ogar_98,
Oreochromis niloticus	ENSONIG00000000006	1 retrocopy	retro_onil_52,
Pelodiscus sinensis	ENSPSIG00000016930	1 retrocopy	retro_psin_55,
Pan troglodytes	ENSPTRG00000010970	11 retrocopies	retro_ptro_1223, retro_ptro_1318, retro_ptro_1376, retro_ptro_1577, retro_ptro_1699, retro_ptro_2432, retro_ptro_2857, retro_ptro_2953, retro_ptro_2957, retro_ptro_548, retro_ptro_565,
Rattus norvegicus	ENSRNOG00000019578	3 retrocopies	retro_rnor_10, retro_rnor_1823, retro_rnor_302,
Sorex araneus	ENSSARG00000000852	1 retrocopy	retro_sara_595 ,
Sus scrofa	ENSSSCG00000010712	1 retrocopy	retro_sscr_731,
Sus scrofa	ENSSSCG00000020817	3 retrocopies	retro_sscr_478, retro_sscr_5, retro_sscr_723,
Tarsius syrichta	ENSTSYG00000005241	4 retrocopies	retro_tsyr_1115, retro_tsyr_1208, retro_tsyr_1492, retro_tsyr_1780,
Tursiops truncatus	ENSTTRG00000003571	1 retrocopy	retro_ttru_202,