RetrogeneDB ID: retro_sara_738

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_60628:26..623(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: CSNK2A3
• Ensembl ID: ENSSARG00000002896
• Aliases: None
• Description: casein kinase 2, alpha 3 polypeptide [Source:HGNC Symbol;Acc:2458]

Sequence

>retro_sara_738
GAACAAAAAGCTACGACGTTTTTAGACTGGGGTTTAGCTGAATTTTACCATCCTGGCCAAAAATACAACGTTCAGGTTGC
CTCTCGATACTTCAAAGCTCCTGAGCTGCTGGTAGACTATCAGATGTATGACTATAGTTTGGATTTATGGAGCGTAGGCT
GTATGTTCGCTAGTATGATTTTTCACAAGGAACCATTTTTCCACGGCTATGACAATTATGATCAGTTGGTGAGGATAGTC
AAAGTTCTGGGCACAGAAGCGTTATGTGACTACATCAACAAGTACAACATTGAGTTAGACCCACAATTCAGTGAACTCTT
GGGCAGACACACCCGTAAGCGCTGGGACCGCTTTGTTCACAATGAAAACAAGCATCTTGTCAGCCCAGATGCTTTAGATT
TTCTGGACAAGCTGCTACGTTTTGACCATCAAGCACGGCTCACCGCCAGAGAGGCCATGGATCATCCTTATTTCTATCCG
ATTCTGAGGAAGCAGGCTCAGTATTTTTCATCTAGCAAGTCAGGGAACAGTGTGCCTGTGAATAATACTTATGGCAACAC
AGGAATTTCTTCTCTACCCTGTAAACCTGAGGCAGGC

Alignment

ORF - retro_sara_738 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.86 %
• Parental protein coverage: 50.38 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EHRKLRLIDWGLAEFYHPGQEYNVRVASRYFKGPELLVDYQMYDYSLDMWSLGCMLASMIFRKEPFFHGH
          E.......DWGLAEFYHPGQ.YNV.VASRYFK.PELLVDYQMYDYSLD.WS.GCM.ASMIF.KEPFFHG.
Retrocopy EQKATTFLDWGLAEFYHPGQKYNVQVASRYFKAPELLVDYQMYDYSLDLWSVGCMFASMIFHKEPFFHGY

Parental  DNYDQLVRIAKVLGTEDLYDYIDKYNIELDPRFNDILGRHSRKRWERFVHSENQHLVSPEALDFLDKLLR
          DNYDQLVRI.KVLGTE.L.DYI.KYNIELDP.F...LGRH.RKRW.RFVH.EN.HLVSP.ALDFLDKLLR
Retrocopy DNYDQLVRIVKVLGTEALCDYINKYNIELDPQFSELLGRHTRKRWDRFVHNENKHLVSPDALDFLDKLLR

Parental  YDHQSRLTAREAMEHPYFYTVVKDQARMGSSSMAGGSTPVSSANMMSGISSVPTPSPLG
          .DHQ.RLTAREAM.HPYFY.....QA...SSS..G.S.PV.......GISS.P.....G
Retrocopy FDHQARLTAREAMDHPYFYPILRKQAQYFSSSKSGNSVPVNNTYGNTGISSLPCKPEAG

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_738 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 4 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000014039	2 retrocopies	retro_amel_138, retro_amel_1888,
Homo sapiens	ENSG00000101266	1 retrocopy	retro_hsap_53,
Sorex araneus	ENSSARG00000002896	10 retrocopies	retro_sara_188, retro_sara_189, retro_sara_240, retro_sara_357, retro_sara_468, retro_sara_508, retro_sara_534, retro_sara_572, retro_sara_738 , retro_sara_755,
Tursiops truncatus	ENSTTRG00000007064	1 retrocopy	retro_ttru_1605,