RetrogeneDB ID: retro_sara_31

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_193658:618..2544(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSARG00000007900
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSARG00000000161
• Aliases: None
• Description: None

Sequence

>retro_sara_31
ATGGCAACAACAAAAGGAATGGCTATTGGCATCGACCTGGGCACCACCTACTCCTGCGTGGGGGTGTTCCAGCACGGCAA
GGTGGAGATCATCGCCAACGACCAGGGCAACCGCACCACCCCCAGCTACGTGGCCTTCACCGACACCGAGAGGCTCATCG
GCGATGCCGCCAAGAACCAGGTGGCTATGAACCCGCAAAACACCGTGTTCGACGCGAAACGGCTGATCGGCAGGAAATTT
AACGATCCTGTAGTGCAGTCAGATATGAAACTTTGGCCTTTTCAAGTAATCAATGAAGGAGGCAAGCCCAAGGTAATGGT
GTCCTACAAAGGGGAGAAAAAAGCTTTCTATCCAGAGGAGATCTCTTCTATGGTACTGACTAAGATGAAAGAGACAGCTG
AAGCTTTCTTGGGCCACTCTATCACTAATGCTGTGATCACGGTGCCCGCCTATTTCAACGACTCCCAGCGCCAGGCCACC
AAGGATGCAGGGGTGATCGCCGGGCTCAATGTGCTGAGAATCATCAATGAGCCCACAGCGGCCGCCATTGCTTATGGCTT
AGATAAAGCGGGTCATGGAGAGCGACATGTCCTGATATTTGATCTGGGTGGAGGCACTTTTGATGTGTCCATCCTGACCA
TCGACGATGGCATCTTCGAGGTGAAGGCCACGGCTGGGGACACCCACCTGGGTGGGGAAGACTTTGACAACAGGCTGGTG
GGCCACTTTGTGGACGAGTTCAAGAGGAAGCATAAGAAGGACATCAGCCAGAACAAGCGAGCCGTGAGGCGGCTGCGCAC
CGCCTGTGAGAGGGCCAAGAGGACCCTGTCGTCCAGCACCCAGGCCAACCTGGAGATTGACTCCCTGTTCGAGGGCATCG
ACTTCTACACATCTATCACCAGAGCCCGGTTTGAGGAGTTGTGTGCAGACCTGTTCCGGGGCACCCTGGAACCCGTGGAG
AAGGCTCTCCGGGATGCCAAGATGGATAAGGCTAAAATCCACGACATTGTTTTAGTAGGGGGCTCCACCCGCATCCCCAA
GGTGCAGAAGCTGCTGCAGGACTACTTTAATGGTCGTGATCTCAACAAGAGCATCAACCCCGATGAGGCGGTGGCATATG
GGGCGGCAGTGCAGGCAGCCATCCTGATGGGGGACAAGTCTGAAAAGGTACAAGATCTGCTTTTGTTGGACGTGTCTCCC
CTGTCCCTGGGTCTGGAGACGGCGGGGGGTGTCATGACTGTCCTGATCAAGCGCAACTCTACCATCCCCACCAAGCAGAC
TCAGATCTTCACCACCTACTCAGACAACCAGCCCGGCGTGCTGATCCAGGTGTATGAGGGCGAGAGGGCCATGACGCGGG
ACAACAACCTGCTGGGGCGCTTTGACCTGACTGGGATCCCCCCTGCACCCCGGGGAGTGCCCCAGATCGAGGTGACCTTC
GATATCGATGCCAATGGTATTCTCAATGTGACAGCTATGGACAAGAGCACAGGCAAGGCCAACAAGATCACCATCACCAA
TGACAAGGGCCGCCTGAGCAAGGATGAGATCGAGCGCATGGTGCAGGACGCTGAGAAGTATAAAGCCGAGGACGAACAGC
AGAGAGAGAAAATTGCTGCCAAAAATGCCCTGGAATCCTATGCTTTTAACATGAAGAGCGCTGTGAGTGATGAAGGCTTG
AAGGGCAAGATCAGTGAGGCTGACAAAAAGAAAATACTTGACAAATGTAGTGAGGTCCTAACGTGGCTGGAGACAAATCA
ACTGGCAGAGAAAGACGAGTTTGATCATAAGAGGAAGGAGTTGGAGAAGGTGTGTAACCCAGTCATCACAAAACTCTACC
AGGCAGGGTGCACTGGCCCTACCTGTGGGACGGGGTACATGCCTGGAAGGGCTGCCACAGGCCCTACTATTGAAGAAGTT
GATTAA

Alignment

ORF - retro_sara_31 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.4 %
• Parental protein coverage: 66.48 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GRPKVQVEYKGETKSFYPEEVSSMVLTKMKEIAEAYLGKTVTNAVVTVPAYFNDSQRQATKDAGTIAGLN
          G.PKV.V.YKGE.K.FYPEE.SSMVLTKMKE.AEA.LG...TNAV.TVPAYFNDSQRQATKDAG.IAGLN
Retrocopy GKPKVMVSYKGEKKAFYPEEISSMVLTKMKETAEAFLGHSITNAVITVPAYFNDSQRQATKDAGVIAGLN

Parental  VLRIINEPTAAAIAYGLDKKVGAERNVLIFDLGGGTFDVSILTIEDGIFEVKSTAGDTHLGGEDFDNRMV
          VLRIINEPTAAAIAYGLDK....ER.VLIFDLGGGTFDVSILTI.DGIFEVK.TAGDTHLGGEDFDNR.V
Retrocopy VLRIINEPTAAAIAYGLDKAGHGERHVLIFDLGGGTFDVSILTIDDGIFEVKATAGDTHLGGEDFDNRLV

Parental  NHFIAEFKRKHKKDISENKRAVRRLRTACERAKRTLSSSTQASIEIDSLYEGIDFYTSITRARFEELNAD
          .HF..EFKRKHKKDIS.NKRAVRRLRTACERAKRTLSSSTQA..EIDSL.EGIDFYTSITRARFEEL.AD
Retrocopy GHFVDEFKRKHKKDISQNKRAVRRLRTACERAKRTLSSSTQANLEIDSLFEGIDFYTSITRARFEELCAD

Parental  LFRGTLDPVEKALRDAKLDKSQIHDIVLVGGSTRIPKIQKLLQDFFNGKELNKSINPDEAVAYGAAVQAA
          LFRGTL.PVEKALRDAK.DK..IHDIVLVGGSTRIPK.QKLLQD.FNG..LNKSINPDEAVAYGAAVQAA
Retrocopy LFRGTLEPVEKALRDAKMDKAKIHDIVLVGGSTRIPKVQKLLQDYFNGRDLNKSINPDEAVAYGAAVQAA

Parental  ILSGDKSENVQDLLLLDVTPLSLGIETAGGVMTVLIKRNTTIPTKQTQTFTTYSDNQPGVLIQVYEGERA
          IL.GDKSE.VQDLLLLDV.PLSLG.ETAGGVMTVLIKRN.TIPTKQTQ.FTTYSDNQPGVLIQVYEGERA
Retrocopy ILMGDKSEKVQDLLLLDVSPLSLGLETAGGVMTVLIKRNSTIPTKQTQIFTTYSDNQPGVLIQVYEGERA

Parental  MTKDNNLLGKFGLTG
          MT.DNNLLG.F.LTG
Retrocopy MTRDNNLLGRFDLTG

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_31 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 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Erinaceus europaeus	ENSEEUG00000012704	1 retrocopy	retro_eeur_8,
Microcebus murinus	ENSMICG00000004702	1 retrocopy	retro_mmur_7,
Sorex araneus	ENSSARG00000000161	1 retrocopy	retro_sara_31 ,
Tupaia belangeri	ENSTBEG00000011602	8 retrocopies	retro_tbel_1764, retro_tbel_344, retro_tbel_3488, retro_tbel_3524, retro_tbel_4348, retro_tbel_4412, retro_tbel_4490, retro_tbel_471,