RetrogeneDB ID: retro_sara_30

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_227396:42801..43707(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSSARG00000009644
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: ENSSARG00000002472
• Aliases: None
• Description: None

Sequence

>retro_sara_30
ATGAAGTCCAATCCGGTGATTCAAGCCACCATAGACTTCACATCAGGGGCCATCGGGGGGACAGCTTGTGTCCTGACCGG
ACAACCCTTCGACACCATAAAAGTGAAGATGCAGACGTTCCCCAACCTGTATAAGGGCTTTTTCGACTGCTGCCTGAAGA
CGTACTCTCAAGTGGGCTTTAGGGGCTTCTACCGGGGGACCAGCCCGGCACTGATGGCCTATGTTGCCGAGAACGCAGCC
CTCTTTATGACCTATGGCTTCTGCCAACAGTTTGTGAGGAATGTGGTTGGACTGGACAGGCATGCAAAGCTGAGTGATTT
GCAGTCTGCAACTGCTGGTTCCCTTGCCTCTACCTTTGCTGCGCTGGTGCTGTGTCCCACGGAGCTTGTTAAGTGCCGGC
TGCAGGCCATGTATGAAATGGAGTTGTCAGGGAAGATAGCGAAAAGCCACAGCACCGTTTGGACCATGGTGAAGACTATA
TTTAGAAAGGAGGGCCTCATGGGCTTCTACCATGGATTCTCTAGTACTTTACTTCAAGAAGTACCAGGATATTTCTTTTT
CTTTGGGGGCTATGAGCTCAGCCGATCGTTTTTTGCCTCAGGGACACCAAAAGACGAACTCAGCCCTGTCTATTTGGTGA
TAAGTGGTGGGTTTGGTGGAGTTTGTCTTTGGATTGCTGTATATCCAGTCGATTGTATTAAGTCTAGAATTCAGGTTCTT
TCCATGTCTGGGAAACAGGCAGGACTTATCAGTACTTTCTTAAGTATTGTGAGAAATGAAGGAGCAGCAACCCTATATTC
TGGAATGAAATCTACTATGATTCGTGCAGTTCCTGCCAATGGGATGCTAATCTTGGCCTATGAGTATAGCCGGAAGATGA
TGATGAGCCAGTTTGAAGCAGAATAA

Alignment

ORF - retro_sara_30 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.67 %
• Parental protein coverage: 99.67 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKSNPAIQAAIDLTAGAAGGAACVLTGQPFDTMKVKMQTFPDLYRGLTDCCLKTYSQTGVRGFYKGTSPA
          MKSNP.IQA.ID.T.GA.GG.ACVLTGQPFDT.KVKMQTFP.LY.G..DCCLKTYSQ.G.RGFY.GTSPA
Retrocopy MKSNPVIQATIDFTSGAIGGTACVLTGQPFDTIKVKMQTFPNLYKGFFDCCLKTYSQVGFRGFYRGTSPA

Parental  LIANIAENSVLFMCYGFCQQVVRKVIGLDPQAKLSDLQNAAAGSFASAFASLVLCPTELVKCRLQTMFEM
          L.A..AEN..LFM.YGFCQQ.VR.V.GLD..AKLSDLQ.A.AGS.AS.FA.LVLCPTELVKCRLQ.M.EM
Retrocopy LMAYVAENAALFMTYGFCQQFVRNVVGLDRHAKLSDLQSATAGSLASTFAALVLCPTELVKCRLQAMYEM

Parental  ESSGKVTAGQNTVWSVVKGILGKDGPLGFYHGLSSTLLREVPGYFFFFGGYELSRSFFAGGRPKDELGPV
          E.SGK......TVW..VK.I..K.G..GFYHG.SSTLL.EVPGYFFFFGGYELSRSFFA.G.PKDEL.PV
Retrocopy ELSGKIAKSHSTVWTMVKTIFRKEGLMGFYHGFSSTLLQEVPGYFFFFGGYELSRSFFASGTPKDELSPV

Parental  PLMLSGGFGGICLWLAVYPVDCIKSRIQVLSMSGKQAGFVGTFISVMRNEGITALYSGLKPTMIRAFPAN
          .L..SGGFGG.CLW.AVYPVDCIKSRIQVLSMSGKQAG...TF.S..RNEG...LYSG.K.TMIRA.PAN
Retrocopy YLVISGGFGGVCLWIAVYPVDCIKSRIQVLSMSGKQAGLISTFLSIVRNEGAATLYSGMKSTMIRAVPAN

Parental  GALFLAYEYSRKLMMNQFEA
          G.L.LAYEYSRK.MM.QFEA
Retrocopy GMLILAYEYSRKMMMSQFEA

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_30 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 11 parental genes, and 14 retrocopies.

Species	Parental gene accession	Retrocopies number
Ailuropoda melanoleuca	ENSAMEG00000011723	1 retrocopy	retro_amel_5,
Bos taurus	ENSBTAG00000011647	1 retrocopy	retro_btau_1581,
Canis familiaris	ENSCAFG00000005955	1 retrocopy	retro_cfam_211,
Choloepus hoffmanni	ENSCHOG00000004899	3 retrocopies	retro_chof_1643, retro_chof_494, retro_chof_561,
Erinaceus europaeus	ENSEEUG00000014870	1 retrocopy	retro_eeur_329,
Mus musculus	ENSMUSG00000031482	1 retrocopy	retro_mmus_75,
Oryctolagus cuniculus	ENSOCUG00000016684	2 retrocopies	retro_ocun_192, retro_ocun_1927,
Ochotona princeps	ENSOPRG00000014616	1 retrocopy	retro_opri_7,
Rattus norvegicus	ENSRNOG00000011881	1 retrocopy	retro_rnor_130,
Sorex araneus	ENSSARG00000002472	1 retrocopy	retro_sara_30 ,
Sus scrofa	ENSSSCG00000009373	1 retrocopy	retro_sscr_688,