RetrogeneDB ID: retro_sara_761

Retrocopy location

• Organism: Shrew (Sorex araneus)
• Coordinates: scaffold_88193:3313..5983(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: USP15
• Ensembl ID: ENSSARG00000003703
• Aliases: None
• Description: ubiquitin specific peptidase 15 [Source:HGNC Symbol;Acc:12613]

Sequence

>retro_sara_761
ATGGCGGAAGGCGGAGCGGTGGATCTGGACATCCAGCGTTCTGACATCGAGACACTGCTCAAAATCTTGCTCCAGAAGGG
GGACACCTGGTACCTAGTTGATAGTCGCTGGTTCAAACAGTGGAAAAAATATGTTGGCTTTGACAGTTGGGACAAATACC
AGATGGGAGATCAAAATGTATATCCTGGACCTATTGATAACTCTGGACTTCTCAAAGATGGTGATGCCCAGTCACTCAAA
GAGCATCTTATCGATGAATTGGATTATATATTATTGCCAACGGAGGGCTGGAATAAATTTGTCAGCTGGTACACGTTGAT
GGAAGGGCAAGAACCAATAGCACGGAAGGTGGTTGAACAGGGTATGTTTGTAAAGCACTGCAAAGTAGAAGTATATCTCA
CAGAACTGAAGCTTTGTGAAAATGGCAACATGAATAATGTTGTAACTAGAAGATTTAGCAAAGCTGACACAATAGATACA
ATTGAAAAGGAAATCAGAAAAATCTTCAATATTCCAGATGAGAAAGGAGACAAGATTGTGGAACAAATACATGAGTAATA
CATTTGAGCCACTGAATAAGCCAGACAGCACTATTCAGGATGCTGGTTTATACCAAGGACAGGTGTTAGTGATAGAACAG
AAAAATGAAGATGGAACATGGCCAAGGGGTCCTTCTGCTCCTAAGTCCCCAGGTGCATCCAATTTTTCAACTTTACCAAA
GATATCTCCTTCATCTCTATCAAATAATTATAACAACATCAATAACAGAAATGTGAAAAACTCAAATTATTGTCTTCCAT
CATATACTGCTTATAAGAACTATGATTATTCAGAACCTGGAAGAAATAATGAGCAGCCAGGCCTCTGTGGCCTGAGTAAC
TTGGGAAACATCTGCTTCATGAACTCAGCTATTCAGTGTTTGAGCAACACACCTCCACTTACTGAATATTTCCTCAATGA
TAACTATCAAGAAGAACTGAATTTTGACAATACCTTAGGAATGAGAGGTGAAATAGCTAAGTCTTATGTTGAATTGATCA
AACAAATGTGGTCTGGAAAATTTAGCTACGTCACACCAAGAGCCTTTAAGACACAAGTAGGACGTTTTGCACCACAGTTC
TCTGGATACCAGCAGCAAGACTGTCAAGAATTACTAGCTTTCCTGCTGGATGGTCTACATGAGGATTTGAATAGAATTAG
GAAAAAACCATACATACAATTAAAGGACGCCAATGGGAGGCCAGATAAGGTGGTTGCTGAAGAAGCCTGGGAAAATCATT
TAAAAAGAAATGATTCTATCATAGTGGACATATTTCATGGCCTTTTCAAGTCAACTTTAGTATGTCCTGAATGTGCAAAG
ATTTCAGTCACATTTGACCCTTTTTGTTACTTGACACTTCCTTTGCCCATGAAAAAAGAGCGTACCTTAGAAGTTTACTT
AGTTAGAATGGATCCACTTACCAAACCTATGCAGTACAAAGTAGTTGTCCCCAAAATTGGAAACATACAAGATCTTTGTA
CGGCACTCTCTACTTTGTCAGGCGTACCTGCGGATAAGATGATAGTCACTGATATATACAATCATAGATTTCACAGAATA
TTTGCCATGGATGAAAACCTTAGTAGTATTATGGAGCGAGATGATATTTATGTGTTTGAGATTAACATCAATAGGACAGA
AGATACAGAGCATGTGATTATTCCTGTTTGCCTAAGAGAAAAATTTAGACATTCAAGTTACACACACCATACTGGTTCCT
CACTTTTTGGTCAGCCTTTTCTTATAGCAGTACCGTGAAACAATACTGAAGATAAACTCTATAATCTTCTGCTTTTGAGA
ATGTGCCTGTATGTCAAAATATCCACTGAAACTGAAGAAACTGAAGGATCCCTACATTGCTTTAAGGACCAAAATATTAA
TGGGAACGGCCCCAATGGCATCCATGAAGAAGGCTCACCAAGTGAAATGGAAAGAGATGAGCTGGATGATGAGTCCAGCC
AAGATCAAGAACTTCCCTCTGAGAATGAAAACAGTCAGTCTGAAGATTCAGTTGGAGGAGATAATGATTCTAAAAATGGA
TTATGTACTGAGGAAACTTGCAAAGGTCAACTCACGGGACACAAAAAGAGATCGTTTACATTCCAGTTCAACAATTTAGG
CAATACCGATACCAACTACATCAAAGAGGACACCCGGCATATAAGATTTGATGACAGGCAGCTTAGGCTAGATGAAAGAT
CTTTTCTTGCTTTGGATTGGGATCCTGATTTGAAAAAAAGATACTTTGATGAAAATGCTGCTGAGGACTTTGAGAAACAT
GAAAGTGTGGAATATAAGCCTCCAAAAAAACCCTTTGTGAAATTGAAAGATTGCATTGAGCTTTTTACAACAAAGGAAAG
CTAGGTGCTTATGATCCTTGGTATTGTCCAAATTGTAAAGAACATCAAAAAGCCACAAAGAAATTAGATTTATGGTCACT
GCCTCCAGTACTTGTGGTACATCTCAAACGATTTTCTTACAGTCGATACATGAGAGATGAATTGGATACCTTAGTTGATT
TTCCTATAAGTGACTTGGATATGTCAGAATTCCTAATTAATCCAAACGCGGATCCTTGCCGCTATAATCTAATTGCCGTT
TCCAACCACTATGGAGGGATGGGAGGAGGA

Alignment

ORF - retro_sara_761 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.2 %
• Parental protein coverage: 90.72 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  MAEGGAVDLDIQRSDIAKLLKISLRKGDTWYLVDSRWFKQWKKYVGFDSWDKYQMGDQNVYPGPIDNSGL
          MAEGGAVDLDIQRSDI..LLKI.L.KGDTWYLVDSRWFKQWKKYVGFDSWDKYQMGDQNVYPGPIDNSGL
Retrocopy MAEGGAVDLDIQRSDIETLLKILLQKGDTWYLVDSRWFKQWKKYVGFDSWDKYQMGDQNVYPGPIDNSGL

Parental  LKDGDAQSLKEHLIDELDYILLPTEGWNKLVSWYTLMEGQEPIARKVVEQGMFVKHCKVEVYLTELKLCE
          LKDGDAQSLKEHLIDELDYILLPTEGWNK.VSWYTLMEGQEPIARKVVEQGMFVKHCKVEVYLTELKLCE
Retrocopy LKDGDAQSLKEHLIDELDYILLPTEGWNKFVSWYTLMEGQEPIARKVVEQGMFVKHCKVEVYLTELKLCE

Parental  NGNMNNVVTRRFSKADTIDTIEKEIRKIFNIPDE-KETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVL
          NGNMNNVVTRRFSKADTIDTIEKEIRKIFNIPDE.KETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVL
Retrocopy NGNMNNVVTRRFSKADTIDTIEKEIRKIFNIPDE>KETRLWNKYMSNTFEPLNKPDSTIQDAGLYQGQVL

Parental  VIEQKNEDGTWPRGPSAPKSPGASNFSTLPKISPSSLSNNYNNINNRNVKNSNYCLPSYTAYKNYDYSEP
          VIEQKNEDGTWPRGPSAPKSPGASNFSTLPKISPSSLSNNYNNINNRNVKNSNYCLPSYTAYKNYDYSEP
Retrocopy VIEQKNEDGTWPRGPSAPKSPGASNFSTLPKISPSSLSNNYNNINNRNVKNSNYCLPSYTAYKNYDYSEP

Parental  GRNNEQPGLCGLSNLGNTCFMNSAIQCLSNTPPLTEYFLNDKYQEELNFDNPLGMRGEIAKSYAELIKQM
          GRNNEQPGLCGLSNLGN.CFMNSAIQCLSNTPPLTEYFLND.YQEELNFDN.LGMRGEIAKSY.ELIKQM
Retrocopy GRNNEQPGLCGLSNLGNICFMNSAIQCLSNTPPLTEYFLNDNYQEELNFDNTLGMRGEIAKSYVELIKQM

Parental  WSGKFSYVTPRAFKTQVGRFAPQFSGYQQQDCQELLAFLLDGLHEDLNRIRKKPYIQLKDADGRPDKVVA
          WSGKFSYVTPRAFKTQVGRFAPQFSGYQQQDCQELLAFLLDGLHEDLNRIRKKPYIQLKDA.GRPDKVVA
Retrocopy WSGKFSYVTPRAFKTQVGRFAPQFSGYQQQDCQELLAFLLDGLHEDLNRIRKKPYIQLKDANGRPDKVVA

Parental  EEAWENHLKRNDSIIVDIFHGLFKSTLVCPECAKISVTFDPFCYLTLPLPMKKERTLEVYLVRMDPLTKP
          EEAWENHLKRNDSIIVDIFHGLFKSTLVCPECAKISVTFDPFCYLTLPLPMKKERTLEVYLVRMDPLTKP
Retrocopy EEAWENHLKRNDSIIVDIFHGLFKSTLVCPECAKISVTFDPFCYLTLPLPMKKERTLEVYLVRMDPLTKP

Parental  MQYKVVVPKIGNIQDLCTALCTLSGVPADKMIVTDIYNHRFHRIFAMDENLSSIMERDDIYVFEININRT
          MQYKVVVPKIGNIQDLCTAL.TLSGVPADKMIVTDIYNHRFHRIFAMDENLSSIMERDDIYVFEININRT
Retrocopy MQYKVVVPKIGNIQDLCTALSTLSGVPADKMIVTDIYNHRFHRIFAMDENLSSIMERDDIYVFEININRT

Parental  EDTEHVIIPVCLREKFRHSSYTHHTGSSLFGQPFLIAVPRNNTEDKLYNLLLLRMCRYVKISTETEETEG
          EDTEHVIIPVCLREKFRHSSYTHHTGSSLFGQPFLIAVP.NNTEDKLYNLLLLRMC.YVKISTETEETEG
Retrocopy EDTEHVIIPVCLREKFRHSSYTHHTGSSLFGQPFLIAVP*NNTEDKLYNLLLLRMCLYVKISTETEETEG

Parental  SLHCCKDQNINGNGPNGIHEEGSPSEMETDEPDDESSQDQELPSENENSQSEDSVGGDNDSENGLCTEET
          SLHC.KDQNINGNGPNGIHEEGSPSEME.DE.DDESSQDQELPSENENSQSEDSVGGDNDS.NGLCTEET
Retrocopy SLHCFKDQNINGNGPNGIHEEGSPSEMERDELDDESSQDQELPSENENSQSEDSVGGDNDSKNGLCTEET

Parental  CKGQLTGHKKRLFTFQFNNLGNTDTNYIKDDTRHIRFDDRQLRLDERSFLALDWDPDLKKRYFDENAAED
          CKGQLTGHKKR.FTFQFNNLGNTDTNYIK.DTRHIRFDDRQLRLDERSFLALDWDPDLKKRYFDENAAED
Retrocopy CKGQLTGHKKRSFTFQFNNLGNTDTNYIKEDTRHIRFDDRQLRLDERSFLALDWDPDLKKRYFDENAAED

Parental  FEKHESVEYKPPKKPFVKLKDCIELFTTKE-KLGAEDPWYCPNCKEHQQATKKLDLWSLPPVLVVHLKRF
          FEKHESVEYKPPKKPFVKLKDCIELFTTKE.KLGA.DPWYCPNCKEHQ.ATKKLDLWSLPPVLVVHLKRF
Retrocopy FEKHESVEYKPPKKPFVKLKDCIELFTTKE<KLGAYDPWYCPNCKEHQKATKKLDLWSLPPVLVVHLKRF

Parental  SYSRYMRDKLDTLVDFPISDLDMSEFLINPNAGPCRYNLIAVSNHYGGMGGG
          SYSRYMRD.LDTLVDFPISDLDMSEFLINPNA.PCRYNLIAVSNHYGGMGGG
Retrocopy SYSRYMRDELDTLVDFPISDLDMSEFLINPNADPCRYNLIAVSNHYGGMGGG

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_761 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 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Sorex araneus	ENSSARG00000003703	12 retrocopies	retro_sara_230, retro_sara_303, retro_sara_340, retro_sara_398, retro_sara_440, retro_sara_491, retro_sara_630, retro_sara_678, retro_sara_683, retro_sara_761 , retro_sara_767, retro_sara_81,
Sorex araneus	ENSSARG00000007703	1 retrocopy	retro_sara_550,