RetrogeneDB ID: retro_sara_336

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_170189:15676..17138(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: RNF10
• Ensembl ID: ENSSARG00000005513
• Aliases: None
• Description: ring finger protein 10 [Source:HGNC Symbol;Acc:10055]

Sequence

>retro_sara_336
CTACAGGCCAACTGCCAGTTTGTGGTGTCTGAAGACCAAGACCACACAGATCATTTGCCGATCCCGATACCTTAGTCAGC
TGGGACTTTGTGGAACAGGTGTGCATTTGTAGCCATGAAGTGCCATCTTGCCCCATATGCCTATATCCACCTACTGCAGC
CAAGATCACCCGCTGTGGACACATCTTCTGCTGGGCCTGCATCTTGCACTATCTGTCACAGAGTGAGAAGAGTTGGAGTA
AATATCCCATCTGCTATAGTTCTGTGCATAAGAAAGACCTCAAGAGCGTGTGGCCACAGAATCAGGGCAGCATGTTGTCG
GTGATACCATCACCATGCAGCTGATGAAGAGGGAGAAAGGGGTGCTGGTGGCTTTGCCCAAATCCAAATGGATGAATGTC
GATCATCCCATTCATCTCGGAGATGAGTAGCATAGCCAGTACTCGAAGTTGCTCCTGGCCTGGAAGGAGCAGGTGTTGCG
CCGGGTGGTTCAGGAAGAGAAAGTGGCCCTTGAGCGGCAGCTGGCCTAGGAGAAGCACACCCCCGAGTCGCTCTTCATCG
AGGCGGCCATCCAGGAGCTCAAGACCCAGGAGGAGGCTCTGTCGGAGTTGGCGGAGAGCGGAGGGGAGGTCACGGGCGTT
GTGGCTGCTCTGGAACAACTGGTGCTGATAGCTCCCCTGGTGAAGGAGTCCGTGTTGCCACCCGCAGGGGTGTGCCAGAG
TATCTGTCTGCTTTCCATGAAGAAACCCCCGACGTTCGTTCCCTGGGCTCTCCCCGTTCTCTGCTAGAGGAAGAGGAAGC
ACTGTTTGAAGCGCAACCCGAGGGGTGTCCGAGGCCTGTGACCGCTCGGAGTTCGCCGATGACAATCTCGGAGAGGAGAC
CGCTTGTCCTGAGTCCAGCCAGCAGGATCCCCTCCCGAAGCCGGGATTCACCCCCTGAGCAGCTCTCCCTGTTACTACTT
TCACCCAGCGGAGGACGGGCAGCACGTGCTCCTGCACCCGGTCAACGTGCGCTGCCTCGCGCGGGCGGACGGCAGCCCGG
AGCGGCGCCTGGAGAAGACCTCGGCCACGGCGGTGGAGATCGCGGCTGCTCCATGTCTGAGGGTGTCCGCCAGCGTCACA
GGTACCTCTCACTTGCCCCTCACCTGTGAGTTCTGCATCTGCGAACTGGCTCTTCAGCCTCCCCTGGTCTCCAAAGAAAC
CCTGGAGAGATTCTCGGATGACGTCGAGAAGAGGAAGCGTCGGCGCCAGAGGAGGCTCGGGAGGAACGCCGCCGGGAGCG
CAGGGCGAGGTGGAGAACAAGAGACAGGGCCCGTGCCCAGAAGCCCACACTCCCCTGGAGAATCGACAGCGGTTTCCTGC
CTTCAGGTCGTGTACCTGCTCCTCCGATTCTGCCCTGGGTCCCACCAGCAGCTGGAGCCATGGGCGCTCTCTCCTTTGAG
TAGGAGTCCAAGTTCCCAAGCA

Alignment

ORF - retro_sara_336 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 77.27 %
• Parental protein coverage: 65.79 %
• Number of stop codons detected: 4
• Number of frameshifts detected: 8

Retrocopy - Parental Gene Alignment:

Parental  LQANCQFVVSEDQDYTDH-FADPDTLVNWDFVEQVRICSHEVPSCPICLYPPTAAKITRCGHIFCWACIL
          LQANCQFVVSEDQD.TDH.FADPDTLV.WDFVEQV.ICSHEVPSCPICLYPPTAAKITRCGHIFCWACIL
Retrocopy LQANCQFVVSEDQDHTDH<FADPDTLVSWDFVEQVCICSHEVPSCPICLYPPTAAKITRCGHIFCWACIL

Parental  HYLSLSEKTWSKCPICYSSVHKKDLKSV-VATESRQYVVGDTITMQLMKREKGVLVALPKSKWMNVDHPI
          HYLS.SEK.WSK.PICYSSVHKKDLKSV.VATES.Q.VVGDTITMQLMKREKGVLVALPKSKWMNVDHPI
Retrocopy HYLSQSEKSWSKYPICYSSVHKKDLKSV<VATESGQHVVGDTITMQLMKREKGVLVALPKSKWMNVDHPI

Parental  HLGDEQHSQYSKLLLASKEQVLRRVVQEEKVALERQLAEEKHTPESCFIEAAIQELKTREEALSELAESG
          HLGDE.HSQYSKLLLA.KEQVLRRVVQEEKVALERQLA.EKHTPES.FIEAAIQELKT.EEALSELAESG
Retrocopy HLGDE*HSQYSKLLLAWKEQVLRRVVQEEKVALERQLA*EKHTPESLFIEAAIQELKTQEEALSELAESG

Parental  GEVTGVVAALEQLVLMAPLVKESVFPPG-KGVLEYLSAFDEETTDVCSLGSPRSLALPLVEEEEALFEAE
          GEVTGVVAALEQLVL.APLVKESV.PP...GV.EYLSAF.EET.DV.SLGSPRSL.....EEEEALFEA.
Retrocopy GEVTGVVAALEQLVLIAPLVKESVLPPA<RGVPEYLSAFHEETPDVRSLGSPRSL----LEEEEALFEAQ

Parental  PE-GLSEACDDSEFADDNLGEGTVGPESSQQDPTPKPGFT-HLSSSPCYYFYQAEDGQHMFLHPVNVRCL
          PE.G.SEACD.SEFADDNLGE.T..PESSQQDP.PKPGFT..LSSSPCYYF..AEDGQH..LHPVNVRCL
Retrocopy PE<GVSEACDRSEFADDNLGEETACPESSQQDPLPKPGFT<PLSSSPCYYFHPAEDGQHVLLHPVNVRCL

Parental  AREYGSLEQSPEKISATVVEIA-GYSMSEDVRQRHRYLSHLPLTCEFSICELALQPPLVSKETLEIFSDD
          AR..GS.E...EK.SAT.VEIA.G.SMSE.VRQRHRYLS..P..............P.......EI....
Retrocopy ARADGSPERRLEKTSATAVEIA<GCSMSEGVRQRHRYLSLAPHL*VLHLRTGSSASPGLQRNPGEILG*R

Parental  IEKRKRQRQKKAREERRRERRI-EMEENKKQGKYPEVHIPLENLQQFPAFNSYACSSDSALGPTSSESHG
          .E...........E.R.RERR..E.E....QG..PE.H.PLEN.Q.FPAF.S..CSSDSALGPTSS.SHG
Retrocopy REEEASAPEEAREERR-RERRA<EVENKR-QGPCPEAHTPLENRQRFPAFRSCTCSSDSALGPTSSWSHG

Parental  -ALSLSPLSRSPSSQA
          .ALS..PLSRSPSSQA
Retrocopy <ALS--PLSRSPSSQA

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_336 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Sorex araneus	ENSSARG00000005513	1 retrocopy	retro_sara_336 ,