RetrogeneDB ID: retro_sara_263

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_135845:9017..10372(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: SNRK
• Ensembl ID: ENSSARG00000005479
• Aliases: None
• Description: SNF related kinase [Source:HGNC Symbol;Acc:30598]

Sequence

>retro_sara_263
TTTTCCTTCTGTTGGACCAGCATGGCAGGATTCAAGCGAGGATATGATGGAAAGATTGCTGGGTTATATGATCTGGATAA
AACCTTGGGGCGAGGCCATTTTGCAGTGGTTAAACTTGCCAGGCATGTCTTTACAGGTGAAAAAGTGGCAGTGAAAGTTA
TTGACAAGACAAAATTGGACACTCTAGCCACTGGTCATCTTTTCCAAGAAGTGAGATGCATGAATTAGTGCAGCATCACA
ACATTGTACGTCTTTATGAAGTTATCGACACCCAGACCAAACTGTATCTTATTTTAGAACTTGGGGATGGAGGAGATATG
TTTGATTATATAATGAAACACGAGGAGGGCCTTAATGAAGAGTTGGCCAAGAAGTACTTTGCACAGATAGTTCATGCTAT
ATCTTATTGCCATAAACTCCACGTAGTTCACAGAGATCTAAAACCAGAGAATGTGGTCTTCTTTGAAAAACAAGGTCTTG
TCAAGTTGACAGACTTTGGTTTCAGCAACAAATTTCAACCAGGGAAGAAACTCACAACAAGCTGCGGATCTCTTGCATAT
TCTGCTCCGGAAATTCTGCTTGGAGACGAGTATGATGCCCCTGCAGTAGATATATGGAGCCTGGGAGTGATCCTGTTCAT
GCTGGTATGCGGGCAGCCACCCTTTCAAGAGGCCAATGACAGTGAGACACTGACCATGATCATGGATTGCAAATATACAG
TACCATCCCATGTGTCTAAAGAGTGCAAAGACTTGATCACGCGGATGCTGCAGAGAGACCCCAAGAGAAGAGCCTCCTTA
GAAGAGATTGAAAACCACCCTTGGCTTCAGGGCGTGGACCCTTCGCCTGCCACCAAGTATAACATCCCGCTAGTGTCCTA
CAAGAACCTCTCGGAGGAGGAGCACAACAGCATCATTCAGCGCATGGTGCTCGGGGATATAGCCGACTGGGACGCCATTG
TCGAAGCCCTGGAGACAAACAGGTATAACCACATCACAGCCACTTACTTCTTGCTTGCTGAAAGGATCCTGAGGGAAAAG
CAAGAAAAAGAAATACAAACCAGATCTGCAAGCCCAAGCAATATCAAGGCCCAGTTTAGGCAGTCGTGGCCAACCAAAAT
TGATGTACCCCAGGACCTGGAGGATGACCTCACGGCCACTCCTCTGTCCCACACGACCGTCCCTCAGTCTCCCGCTCGAG
CTGTGGACAATGTTCTCAACGGCCACCGGAGCAAAGGCCTGTGTGAGTCGGCCAAGAAGGACGAGCTCCCCGAGCTGGCG
GGGCCCGCGCTCGCCATGGTCCCCCCGGCAAGTCTGAAGCCGGCGGCCAGTGGCCGGAAGTGTCTGTTCCGCGTG

Alignment

ORF - retro_sara_263 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.01 %
• Parental protein coverage: 57.62 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  FSFCWTSMAGFKRGYDGKIAGLYDLDKTLGRGHFAVVKLARHVFTGEKVAVKVIDKTKLDTLATGHLFQE
          FSFCWTSMAGFKRGYDGKIAGLYDLDKTLGRGHFAVVKLARHVFTGEKVAVKVIDKTKLDTLATGHLFQE
Retrocopy FSFCWTSMAGFKRGYDGKIAGLYDLDKTLGRGHFAVVKLARHVFTGEKVAVKVIDKTKLDTLATGHLFQE

Parental  VRCM-KLVQHPNIVRLYEVIDTQTKLYLILELGDGGDMFDYIMKHEEGLNEELAKKYFAQIVHAISYCHK
          VRCM..LVQH.NIVRLYEVIDTQTKLYLILELGDGGDMFDYIMKHEEGLNEELAKKYFAQIVHAISYCHK
Retrocopy VRCM<ELVQHHNIVRLYEVIDTQTKLYLILELGDGGDMFDYIMKHEEGLNEELAKKYFAQIVHAISYCHK

Parental  LHVVHRDLKPENVVFFEKQGLVKLTDFGFSNKFQPGKKLTTSCGSLAYSAPEILLGDEYDAPAVDIWSLG
          LHVVHRDLKPENVVFFEKQGLVKLTDFGFSNKFQPGKKLTTSCGSLAYSAPEILLGDEYDAPAVDIWSLG
Retrocopy LHVVHRDLKPENVVFFEKQGLVKLTDFGFSNKFQPGKKLTTSCGSLAYSAPEILLGDEYDAPAVDIWSLG

Parental  VILFMLVCGQPPFQEANDSETLTMIMDCKYTVPSHVSEEC-DLITRMLQRDPKRRASLEEIENHPWLQGV
          VILFMLVCGQPPFQEANDSETLTMIMDCKYTVPSHVS.EC.DLITRMLQRDPKRRASLEEIENHPWLQGV
Retrocopy VILFMLVCGQPPFQEANDSETLTMIMDCKYTVPSHVSKECKDLITRMLQRDPKRRASLEEIENHPWLQGV

Parental  DPSPATKYNIPLVSYKNLSEEEHNSIIQRMVLGDIADRDAIVEALETNRYNHITATYFLLAERILREKQE
          DPSPATKYNIPLVSYKNLSEEEHNSIIQRMVLGDIAD.DAIVEALETNRYNHITATYFLLAERILREKQE
Retrocopy DPSPATKYNIPLVSYKNLSEEEHNSIIQRMVLGDIADWDAIVEALETNRYNHITATYFLLAERILREKQE

Parental  KEILTRSASPSNIKA-FRQSWPTKIDVPQDLEDDLTATPLSHTTVPQSPARAADNVLNGHRSKGLCESAK
          KEI.TRSASPSNIKA.FRQSWPTKIDVPQDLEDDLTATPLSHTTVPQSPARA.DNVLNGHRSKGLCESAK
Retrocopy KEIQTRSASPSNIKAQFRQSWPTKIDVPQDLEDDLTATPLSHTTVPQSPARAVDNVLNGHRSKGLCESAK

Parental  KDELPELAGPALAMVPPASLKPAASGRKCLFRV
          KDELPELAGPALAMVPPASLKPAASGRKCLFRV
Retrocopy KDELPELAGPALAMVPPASLKPAASGRKCLFRV

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_263 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 2 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Myotis lucifugus	ENSMLUG00000001785	2 retrocopies	retro_mluc_1575, retro_mluc_1957,
Sorex araneus	ENSSARG00000005479	1 retrocopy	retro_sara_263 ,