RetrogeneDB ID:

retro_sara_170

Retrocopy
location
Organism:Shrew (Sorex araneus)
Coordinates:GeneScaffold_5615:17012..17365(+)
Located in intron of:ENSSARG00000010079
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL21
Ensembl ID:ENSSARG00000013129
Aliases:None
Description:ribosomal protein L21 [Source:HGNC Symbol;Acc:10313]


Retrocopy-Parental alignment summary:






>retro_sara_170
GTTGTTCCTTTGGCCATGTGTCTGCAGGTCTACAGGGAAGGCGATAATCTTAAACATAAAAGAAACGGGCACTCTACAAA
AAGGAATGCCCCACAAATGTTACCATGGCAAAACTGAAAGAGTCTACAGTGTTACCCAGCATGCCTTTGGCATTGTAGTA
AACAAGCAAGCAAAGAGCAAAATTCTTGCCAAGAGAATTGATGTTCTATTGGACATATTAAGCACTATAAAAGTCGAGGC
AGCTTTCTGAAGCCGGCAAAAGATAACAATCAGAAAAAGGACACCAAAGAGAAAGGAACTTGGGTTCCACCAAGCTCCAG
CCTGCTCCACTCAGTGATGCTCACTTTGTGAGA

ORF - retro_sara_170 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 57.02 %
Parental protein coverage: 87.31 %
Number of stop codons detected: 0
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalVVPLATYMRIYKKGD-IVDIKGMGTVQKGMPHKCYHGKTGRVYNVTQHAVGIVVNKQVKGKILAKRIHAP
VVPLA.....Y..GD.I..IK..GT.QKGMPHKCYHGKT.RVY.VTQHA.GIVVNKQ.K.KILAKRI...
RetrocopyVVPLAMCLQVYREGD>ILNIKETGTLQKGMPHKCYHGKTERVYSVTQHAFGIVVNKQAKSKILAKRIDVL
ParentalRE-NIKH-SENDNLLQVKENDQRKKEAKEKGTWV-RLERQPTSLRETHFVR
....IKH.......L........KK..KEKGTWV.....QP..L...HFVR
RetrocopyLD<HIKHYKSRGSFLKPAKDNNQKKDTKEKGTWV<STKLQPAPLSDAHFVR

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Sorex araneus was not studied using RNA-Seq expression data.
Sorex araneus was not studied using ChIP-Seq data.
Sorex araneus was not studied using EST data.
Sorex araneus was not studied using FANTOM5 data.
retro_sara_170 was not experimentally validated.

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 9 parental genes, and 236 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000016485 retrocopies
Choloepus hoffmanni ENSCHOG000000078676 retrocopies
Latimeria chalumnae ENSLACG000000126781 retrocopy
Loxodonta africana ENSLAFG0000000367711 retrocopies
Myotis lucifugus ENSMLUG0000001009346 retrocopies
Macaca mulatta ENSMMUG000000295742 retrocopies
Mus musculus ENSMUSG00000041453101 retrocopies
retro_mmus_1012, retro_mmus_1046, retro_mmus_1057, retro_mmus_1083, retro_mmus_1123, retro_mmus_1199, retro_mmus_1287, retro_mmus_1354, retro_mmus_1461, retro_mmus_1475, retro_mmus_1529, retro_mmus_1561, retro_mmus_1572, retro_mmus_1596, retro_mmus_1617, retro_mmus_1641, retro_mmus_1644, retro_mmus_17, retro_mmus_1714, retro_mmus_1739, retro_mmus_1762, retro_mmus_1797, retro_mmus_1848, retro_mmus_1860, retro_mmus_1862, retro_mmus_1875, retro_mmus_1897, retro_mmus_1915, retro_mmus_1931, retro_mmus_1936, retro_mmus_1994, retro_mmus_2042, retro_mmus_2049, retro_mmus_2101, retro_mmus_2130, retro_mmus_2176, retro_mmus_2179, retro_mmus_2185, retro_mmus_2214, retro_mmus_2233, retro_mmus_2237, retro_mmus_2238, retro_mmus_2279, retro_mmus_2309, retro_mmus_2312, retro_mmus_2335, retro_mmus_2344, retro_mmus_2395, retro_mmus_2447, retro_mmus_2517, retro_mmus_2567, retro_mmus_2585, retro_mmus_2598, retro_mmus_266, retro_mmus_2662, retro_mmus_2698, retro_mmus_2707, retro_mmus_2778, retro_mmus_2808, retro_mmus_2853, retro_mmus_2874, retro_mmus_2945, retro_mmus_2980, retro_mmus_3035, retro_mmus_3055, retro_mmus_3085, retro_mmus_3103, retro_mmus_3112, retro_mmus_3220, retro_mmus_3252, retro_mmus_3261, retro_mmus_3295, retro_mmus_3318, retro_mmus_3328, retro_mmus_333, retro_mmus_3341, retro_mmus_3446, retro_mmus_3545, retro_mmus_3581, retro_mmus_3712, retro_mmus_397, retro_mmus_400, retro_mmus_401, retro_mmus_598, retro_mmus_601, retro_mmus_606, retro_mmus_663, retro_mmus_734, retro_mmus_735, retro_mmus_758, retro_mmus_782, retro_mmus_806, retro_mmus_835, retro_mmus_862, retro_mmus_883, retro_mmus_918, retro_mmus_932, retro_mmus_940, retro_mmus_957, retro_mmus_993, retro_mmus_998,
Rattus norvegicus ENSRNOG0000000095713 retrocopies
Sorex araneus ENSSARG00000013129 51 retrocopies



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