CuGenDBv2

Gene ID	IVF0020117
Organism	Cucumis melo ssp. agrestis cv. IVF77 (Melon (IVF77) v1)
Description	Exosome complex component RRP42-like
Genome location	chr12:276562..282156
RNA-Seq Expression	IVF0020117
Synteny	IVF0020117
Gene Ontology terms	GO:0000467 - exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) (biological process) GO:0034427 - nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5' (biological process) GO:0034473 - U1 snRNA 3'-end processing (biological process) GO:0034475 - U4 snRNA 3'-end processing (biological process) GO:0034476 - U5 snRNA 3'-end processing (biological process) GO:0043928 - exonucleolytic catabolism of deadenylated mRNA (biological process) GO:0071028 - nuclear mRNA surveillance (biological process) GO:0071035 - nuclear polyadenylation-dependent rRNA catabolic process (biological process) GO:0071038 - nuclear polyadenylation-dependent tRNA catabolic process (biological process) GO:0071042 - nuclear polyadenylation-dependent mRNA catabolic process (biological process) GO:0000176 - nuclear exosome (RNase complex) (cellular component) GO:0000177 - cytoplasmic exosome (RNase complex) (cellular component)
InterPro domains	IPR015847 - Exoribonuclease, phosphorolytic domain 2 IPR027408 - PNPase/RNase PH domain superfamily IPR036345 - Exoribonuclease, PH domain 2 superfamily

Homology

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GenBank top hits

e value

%identity

Alignment

KAA0059967.1 exosome complex component RRP42-like [Cucumis melo var. makuwa]

4.95e-58

95.92

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Query:  LDEFATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRLTKRGGVGVDPSIILD
        +   ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRLTKRGGVGVDPSIILD
Subjt:  LDEFATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRLTKRGGVGVDPSIILD

XP_004151651.2 exosome complex component RRP42 [Cucumis sativus]

1.31e-46

76.72

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Query:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---
        G V+  +G LLD       A L+NT IPKVH+AAEA  NEQPEVDVSDEEFLQF+TSGVPAIVTLTKVGKHYI+DATLEEESQMSSAVSISI+RH     
Subjt:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---

Query:  LTKRGGVGVDPSIILD
        LTKRGGVGVDPSIILD
Subjt:  LTKRGGVGVDPSIILD

XP_008441268.1 PREDICTED: exosome complex component RRP42-like [Cucumis melo]

6.41e-50

81.03

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Query:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---
        G V+  +G LLD       A L+NT IPKVHIAAEASGNEQPEVDVSDEEF+QFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRH     
Subjt:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---

Query:  LTKRGGVGVDPSIILD
        LTKRGGVGVDPSIILD
Subjt:  LTKRGGVGVDPSIILD

XP_038891978.1 exosome complex component RRP42 isoform X1 [Benincasa hispida]

3.70e-46

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Query:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---
        G V+  +G LLD       A L++T IPKVH+AAE+S NEQPEVDVSDEEFLQF+TSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSIS+NRH     
Subjt:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---

Query:  LTKRGGVGVDPSIILD
        LTKRGG G+DPSIILD
Subjt:  LTKRGGVGVDPSIILD

XP_038891988.1 exosome complex component RRP42 isoform X2 [Benincasa hispida]

9.26e-47

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Query:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---
        G V+  +G LLD       A L++T IPKVH+AAE+S NEQPEVDVSDEEFLQF+TSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSIS+NRH     
Subjt:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---

Query:  LTKRGGVGVDPSIILD
        LTKRGG G+DPSIILD
Subjt:  LTKRGGVGVDPSIILD

TrEMBL top hits

e value

%identity

Alignment

A0A0A0LU91 Uncharacterized protein

4.9e-37

76.72

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Query:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---
        G V+  +G LLD       A L+NT IPKVH+AAEA  NEQPEVDVSDEEFLQF+TSGVPAIVTLTKVGKHYI+DATLEEESQMSSAVSISI+RH     
Subjt:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---

Query:  LTKRGGVGVDPSIILD
        LTKRGGVGVDPSIILD
Subjt:  LTKRGGVGVDPSIILD

A0A1S3B3T5 exosome complex component RRP42-like

1.4e-39

81.03

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Query:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---
        G V+  +G LLD       A L+NT IPKVHIAAEASGNEQPEVDVSDEEF+QFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRH     
Subjt:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---

Query:  LTKRGGVGVDPSIILD
        LTKRGGVGVDPSIILD
Subjt:  LTKRGGVGVDPSIILD

A0A5A7SRK6 Exosome complex component RRP42-like

1.4e-39

81.03

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Query:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---
        G V+  +G LLD       A L+NT IPKVHIAAEASGNEQPEVDVSDEEF+QFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRH     
Subjt:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---

Query:  LTKRGGVGVDPSIILD
        LTKRGGVGVDPSIILD
Subjt:  LTKRGGVGVDPSIILD

A0A5D3BBL2 Exosome complex component RRP42-like

9.3e-44

95.92

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Query:  LDEFATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRLTKRGGVGVDPSIILD
        +   ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRLTKRGGVGVDPSIILD
Subjt:  LDEFATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRLTKRGGVGVDPSIILD

A0A6J1JIH0 exosome complex component RRP42

7.1e-36

72.41

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Query:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---
        G V+  DG LLD       A L+NT IPKV+++AEAS NEQPEVDVSDEEFLQF+TSGVP IVTLTKVG+HYI+DATLEEESQMSSA+SIS+NRH     
Subjt:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---

Query:  LTKRGGVGVDPSIILD
        LTKRGG GVDPS+ILD
Subjt:  LTKRGGVGVDPSIILD

SwissProt top hits

e value

%identity

Alignment

Q15024 Exosome complex component RRP42

3.9e-07

28.95

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Query:  VMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRLT---
        +++  G L D       A L NT IP+V +  +  G++  E+     + ++     VP IVTL K+G  +++DATL+EE+   +++ +S+     +T   
Subjt:  VMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRLT---

Query:  KRGGVGVDPSIILD
        K G   +DP  I +
Subjt:  KRGGVGVDPSIILD

Q54VM4 Putative exosome complex exonuclease RRP42

2.1e-08

35.96

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Query:  VMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSD--EEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRL--
        V+D DG L D       + L NT IP+V   A     E+   +VSD  E+ L      VP  VTLTK+G  ++ID TL+EE  M++ +++ +N    +  
Subjt:  VMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSD--EEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRL--

Query:  TKRGGV-GVDPSII
         ++GG+ G+DP+ I
Subjt:  TKRGGV-GVDPSII

Q8TYC2 Exosome complex component Rrp42

4.1e-04

26.55

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Query:  VMDIDGRLLD-----EFATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRL--TK
        V+D DG L D       + L+ T +PK  +  +       EV+V +E+      +  P  VT+ KVG++ ++D  LEEE  M + +++++     +   +
Subjt:  VMDIDGRLLD-----EFATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRL--TK

Query:  RGGVGVDPSIILD
        +G +G  P  +L+
Subjt:  RGGVGVDPSIILD

Q9D0M0 Exosome complex exonuclease RRP42

1.1e-06

28.95

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Query:  VMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRLT---
        +++  G L D       A L NT IP+V +  +  G +  E+     + ++     VP IVTL K+G  +++DATL+EE+   +++ +S+     +T   
Subjt:  VMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRLT---

Query:  KRGGVGVDPSIILD
        K G   +DP  I +
Subjt:  KRGGVGVDPSIILD

Arabidopsis top hits

e value

%identity

Alignment

AT3G07750.1 3'-5'-exoribonuclease family protein

5.0e-34

63.79

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Query:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---
        G V+  DG LLD       A L NT IPKV+++AE + +EQPE+D+SDEE+LQF+TS VP IVTLTKVG HYI+DAT EEESQMSSAVSIS+NR      
Subjt:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---

Query:  LTKRGGVGVDPSIILD
        LTKR G G+DPS+ILD
Subjt:  LTKRGGVGVDPSIILD

AT3G07750.2 3'-5'-exoribonuclease family protein

5.0e-34

63.79

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Query:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---
        G V+  DG LLD       A L NT IPKV+++AE + +EQPE+D+SDEE+LQF+TS VP IVTLTKVG HYI+DAT EEESQMSSAVSIS+NR      
Subjt:  GKVMDIDGRLLDEF-----ATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPAIVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDR---

Query:  LTKRGGVGVDPSIILD
        LTKR G G+DPS+ILD
Subjt:  LTKRGGVGVDPSIILD

Sequences

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CDS sequence

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ATGCACTTATTTCTTAAAATTATGGTTCTTCAAGACCTCAAGTTCTTCATTATCTTTCTGATACTAGATGATATATATATATATATTTCACATGACAAAAGAAAAGGTGT
TTTGATATGTGCAACTATTGAGGAAGAAAAGAAAACAATTGAACTCAATTGTGGTAAAGTTATGGATATTGATGGGAGGTTATTGGATGAATTTGCTACTTTGAACAATA
CATGCATCCCAAAAGTCCATATTGCTGCAGAAGCATCAGGCAACGAACAACCTGAAGTTGACGTAAGTGATGAAGAATTTCTACAGTTCGAGACATCTGGGGTTCCAGCC
ATTGTTACATTGACAAAAGTGGGTAAGCACTACATCATTGATGCTACTTTGGAAGAAGAATCTCAAATGAGTTCTGCAGTCTCCATATCCATCAACAGGCATGATCGGTT
GACTAAACGTGGGGGTGTCGGGGTTGATCCAAGCATAATCCTCGATTGA

mRNA sequence

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Protein sequence

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MHLFLKIMVLQDLKFFIIFLILDDIYIYISHDKRKGVLICATIEEEKKTIELNCGKVMDIDGRLLDEFATLNNTCIPKVHIAAEASGNEQPEVDVSDEEFLQFETSGVPA
IVTLTKVGKHYIIDATLEEESQMSSAVSISINRHDRLTKRGGVGVDPSIILD

IVF0020117 (gene) of Melon (IVF77) v1 genome