RetrogeneDB ID: retro_sara_26

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: GeneScaffold_3816:77069..77816(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSARG00000007246
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSARG00000007091
• Aliases: None
• Description: None

Sequence

>retro_sara_26
ATGGGCCGCACAACCAAGGACAAACGGGACGTCTACTACCGCCTGGCGAAGGAGAAGGGCTGGCGGGCGCGCAGTGCCTT
CAAGCTGCTGCAGCTGGACGAGGAGTTCCAGTTATTCCAGGGCGTGAGCAGGGCCGTGGACCTGTGTGCGGCGCCGGGAA
GCTGGAGCCAGGTGCTGAGCCGCAAGCTCGGAGCCCCAGGCGTGGGCCACGTGGTGGCCGTGGACGTTCAGGCCATGGCC
CCGGTGCCGGGCGTGCTACAGATCCAAGGGGACATTACCCAGATGGCCACAGTCCAGGAGATCATCCAGCACTTCCAGGG
CTGCCCCGCTGACCTCGTGGTGTGCGACGGGGCCCCGGATGTCACCGGCCTCCGCGACGTGGATGAGTTCCTGCAGGCCC
AGCTCCTCCTGGCCGCGCTCAGCATCGCCACGCACGTCTTAAAGCCCGGCGGCTGCTTCGTGGCCAAGGTCTTCCGAGGC
CGGGATGCGACGCTGCTGCACAGCCAGCTGCGCGTCTTCTTTCCCAGCGTGGTCTGGGCCAAGCCCAGGAGCAGCCGCCC
GTCCAGCATCGAAGCCTTCGTGGTCTGTAAGCATTACGACCCCCCGCCGGGCCTCTTGCTGGATCTGACCACTCCTCCGC
CCTGCCTTTCCTCCAGCCAGTTAAGCGGGCCTAGCCGCATCCTTGTGCCATTTGTTACCTGTGGGGACCTGAGCCCCTAT
GATTTGGGCCCAGGTGACCCCCAAGAT

Alignment

ORF - retro_sara_26 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.85 %
• Parental protein coverage: 67.09 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGRTSKDKRDVYYRLAKENGWRARSAFKLLQLDEEFQLFQGVTRAVDLCAAPGSWSQVLSQKIGGQGSGH
          MGRT.KDKRDVYYRLAKE.GWRARSAFKLLQLDEEFQLFQGV.RAVDLCAAPGSWSQVLS.K.G..G.GH
Retrocopy MGRTTKDKRDVYYRLAKEKGWRARSAFKLLQLDEEFQLFQGVSRAVDLCAAPGSWSQVLSRKLGAPGVGH

Parental  VVAVDLQAMAPVPGVLQIQGDITQMSTAKEIIQHFEGCPADLVVCDGAPDVTGLHDVDEYMQAQLLLAAL
          VVAVD.QAMAPVPGVLQIQGDITQM.T..EIIQHF.GCPADLVVCDGAPDVTGL.DVDE..QAQLLLAAL
Retrocopy VVAVDVQAMAPVPGVLQIQGDITQMATVQEIIQHFQGCPADLVVCDGAPDVTGLRDVDEFLQAQLLLAAL

Parental  NIATHVLKPGGCFVAKIFRGRDVTLLYSQLRVFFSTVVCAKPRSSRNSSIEAFAVCKCYDPPAGFLPDLT
          .IATHVLKPGGCFVAK.FRGRD.TLL.SQLRVFF..VV.AKPRSSR.SSIEAF.VCK.YDPP.G.L.DLT
Retrocopy SIATHVLKPGGCFVAKVFRGRDATLLHSQLRVFFPSVVWAKPRSSRPSSIEAFVVCKHYDPPPGLLLDLT

Parental  QP
          .P
Retrocopy TP

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_26 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 8 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Bos taurus	ENSBTAG00000031829	1 retrocopy	retro_btau_27,
Canis familiaris	ENSCAFG00000015339	1 retrocopy	retro_cfam_544,
Erinaceus europaeus	ENSEEUG00000001469	1 retrocopy	retro_eeur_222,
Echinops telfairi	ENSETEG00000014092	3 retrocopies	retro_etel_1697, retro_etel_1803, retro_etel_1928,
Myotis lucifugus	ENSMLUG00000003977	1 retrocopy	retro_mluc_1329,
Oryctolagus cuniculus	ENSOCUG00000008009	1 retrocopy	retro_ocun_870,
Otolemur garnettii	ENSOGAG00000016174	1 retrocopy	retro_ogar_180,
Sorex araneus	ENSSARG00000007091	1 retrocopy	retro_sara_26 ,