CuGenDBv2

Gene ID	CaUC04G068800
Organism	Citrullus amarus (Watermelon (USVL246-FR2) v1)
Description	Exosome complex component RRP42-like
Genome location	Ciama_Chr04:8171469..8173516
RNA-Seq Expression	CaUC04G068800
Synteny	CaUC04G068800
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	IPR020568 - Ribosomal protein S5 domain 2-type fold IPR027408 - PNPase/RNase PH domain superfamily

Homology

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GenBank top hits

e value

%identity

Alignment

KAG6588778.1 Exosome complex component RRP42, partial [Cucurbita argyrosperma subsp. sororia]

8.4e-23

72.29

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Query:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK
        +GRGGEEL+TELSVALERCLLGG+SG              +GAGID SSL+VVEGKLCWDLY+EGLV+SS+GNLLDALGAAIK
Subjt:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK

XP_004151651.2 exosome complex component RRP42 [Cucumis sativus]

9.9e-24

74.7

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Query:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK
        +GRGGEELSTELS+ALERCLLGG+SG              SGAGID SSL+VVEGKLCWDLY+EGLV+SSEGNLLDALGAAIK
Subjt:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK

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

9.9e-24

75.9

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Query:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK
        +GRGGEELSTELSVALERCLLGG+SG              SGAGID SSL+VVEGKLCWDLY+EGLV+SSEGNLLDALGAAIK
Subjt:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK

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

6.4e-23

74.7

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Query:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK
        +GRGGEELSTELSVAL+RCLLGG+SG              SGA ID SSL+VVEGKLCWDLY+EGLVISSEGNLLDALGAAIK
Subjt:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK

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

6.4e-23

74.7

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Query:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK
        +GRGGEELSTELSVAL+RCLLGG+SG              SGA ID SSL+VVEGKLCWDLY+EGLVISSEGNLLDALGAAIK
Subjt:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK

TrEMBL top hits

e value

%identity

Alignment

A0A061FPF2 3'-5'-exoribonuclease family protein isoform 7

4.1e-23

70.59

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Query:  MAKGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK
        M +GRGGEELSTELSVAL+RCLLGG+SGS             +G+GID SSLV+VEGK+CWDLY++GLVISS+GNLLDALGAAIK
Subjt:  MAKGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK

A0A0A0LU91 Uncharacterized protein

4.8e-24

74.7

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Query:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK
        +GRGGEELSTELS+ALERCLLGG+SG              SGAGID SSL+VVEGKLCWDLY+EGLV+SSEGNLLDALGAAIK
Subjt:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK

A0A1S3B3T5 exosome complex component RRP42-like

4.8e-24

75.9

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Query:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK
        +GRGGEELSTELSVALERCLLGG+SG              SGAGID SSL+VVEGKLCWDLY+EGLV+SSEGNLLDALGAAIK
Subjt:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK

A0A5A7SRK6 Exosome complex component RRP42-like

4.8e-24

75.9

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Query:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK
        +GRGGEELSTELSVALERCLLGG+SG              SGAGID SSL+VVEGKLCWDLY+EGLV+SSEGNLLDALGAAIK
Subjt:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK

A0A6J1EQ99 exosome complex component RRP42

4.1e-23

72.29

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Query:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK
        +GRGGEEL+TELSVALERCLLGG+SG              +GAGID SSL+VVEGKLCWDLY+EGLV+SS+GNLLDALGAAIK
Subjt:  KGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK

SwissProt top hits	e value	%identity	Alignment
No hits found

Arabidopsis top hits

e value

%identity

Alignment

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

2.3e-23

64.63

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Query:  GRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK
        GRGGEELS+EL++AL+RCLLGG+SG              +GAGI+ SSL++ EGK+CWDLY++GLVISS+GNLLDALGAAIK
Subjt:  GRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK

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

2.3e-23

64.63

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Query:  GRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK
        GRGGEELS+EL++AL+RCLLGG+SG              +GAGI+ SSL++ EGK+CWDLY++GLVISS+GNLLDALGAAIK
Subjt:  GRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIK

Sequences

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CDS sequence

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ATGGCAAAAGGTCGGGGTGGTGAAGAGTTGTCAACAGAACTCTCGGTTGCTCTTGAGCGGTGTCTCTTAGGTGGACAGAGTGGTTCAGTAACTTTTGCACTTGAT
GACAAGTGTGCTTTTGTTGCCTCAGGGGCTGGGATTGACCGTTCATCTCTAGTAGTTGTGGAAGGGAAGCTTTGCTGGGATCTCTATGTTGAGGGCCTGGTAATA
AGTTCAGAGGGCAATCTTCTAGACGCCCTTGGTGCTGCCATTAAGCAGTTTCACTCCCTCTTTTTGCTGGTTATCTAA

mRNA sequence

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Protein sequence

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MAKGRGGEELSTELSVALERCLLGGQSGSVTFALDDKCAFVASGAGIDRSSLVVVEGKLCWDLYVEGLVISSEGNLLDALGAAIKQFHSLFLLVI

CaUC04G068800 (gene) of Watermelon (USVL246-FR2) v1 genome