CuGenDBv2

Gene ID	Sed0006806
Organism	Sechium edule (Chayote v1)
Description	U6 snRNA-associated Sm-like protein LSm1
Genome location	LG06:46440465..46440887
RNA-Seq Expression	Sed0006806
Synteny	Sed0006806
Gene Ontology terms	GO:0000290 - deadenylation-dependent decapping of nuclear-transcribed mRNA (biological process) GO:0000932 - P-body (cellular component) GO:1990726 - Lsm1-7-Pat1 complex (cellular component) GO:0000339 - RNA cap binding (molecular function)
InterPro domains	IPR010920 - LSM domain superfamily IPR044642 - U6 snRNA-associated Sm-like protein Lsm1/8

Homology

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GenBank top hits

e value

%identity

Alignment

KAG6581771.1 Sm-like protein LSM1B, partial [Cucurbita argyrosperma subsp. sororia]

1.1e-13

56.47

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Query:  MYNV--GNIVISDAFERIIVGHL---RPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWM
        MYNV   N V+  AFERI+  +    +P+GLLV RG+N + +GE+D S  ELPPH+T V+LP+IL ARKAE  SS LK  LKKWM
Subjt:  MYNV--GNIVISDAFERIIVGHL---RPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWM

XP_022980750.1 sm-like protein LSM1B [Cucurbita maxima]

1.4e-13

55.7

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Query:  GNIVISDAFERIIVGHL---RPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWM
        GN+V+  AFERI   +    +P+GLLV RG+N + +GE+D S  ELPPH+T V+LP+IL ARKAE  SS+ K  LKKWM
Subjt:  GNIVISDAFERIIVGHL---RPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWM

XP_023527036.1 sm-like protein LSM1B isoform X1 [Cucurbita pepo subsp. pepo]

8.2e-14

56.96

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Query:  GNIVISDAFERIIVGHL---RPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWM
        GN V+  AFERI+  +    +P+GLLV RG+N + +GE+D S  ELPPH+T V+LP+IL ARKAE  SS LK  LKKWM
Subjt:  GNIVISDAFERIIVGHL---RPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWM

XP_023527037.1 sm-like protein LSM1B isoform X2 [Cucurbita pepo subsp. pepo]

8.2e-14

56.96

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Query:  GNIVISDAFERIIVGHL---RPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWM
        GN V+  AFERI+  +    +P+GLLV RG+N + +GE+D S  ELPPH+T V+LP+IL ARKAE  SS LK  LKKWM
Subjt:  GNIVISDAFERIIVGHL---RPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWM

XP_038894529.1 sm-like protein LSM1B [Benincasa hispida]

4.3e-15

63.29

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Query:  GNIVISDAFERIIVGHL---RPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWM
        G IV+  AFERIIV +     PIGLLV R EN++L+GE DPSL +LPPHMT V+LP+ILTARKAE  S  L+  LKKWM
Subjt:  GNIVISDAFERIIVGHL---RPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWM

TrEMBL top hits

e value

%identity

Alignment

A0A022Q0J9 U6 snRNA-associated Sm-like protein LSm1

2.6e-13

58.54

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Query:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD
        N V+  A ER+IVG L    P+GL V RGENVVL+GELD    ELPPHMT+V+  EI  A+KAE  +S LK  +KKWM FLD
Subjt:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD

A0A4D8ZY98 U6 snRNA-associated Sm-like protein LSm1

2.8e-12

54.88

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Query:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD
        N+V+  A ER+IVG L    P+GL V RGENVVL+GELDP  +ELPP+M +V+ PEI +A+K E  +S L   +KK M FLD
Subjt:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD

A0A5C7HX26 U6 snRNA-associated Sm-like protein LSm1

4.4e-13

57.32

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Query:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD
        N+V+  A ERIIVG L    P+GL V RGENVVL+GELD    ELPPHMT+V+  EI  A+KAE  ++LLK +++K M FLD
Subjt:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD

A0A6J1GV01 sm-like protein LSM1B

6.8e-14

56.96

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Query:  GNIVISDAFERIIVGHL---RPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWM
        GN V+  AFERI+  +    +P+GLLV RG+N + +GE+D S  ELPPH+T V+LP+IL ARKAE  SS LK  LKKWM
Subjt:  GNIVISDAFERIIVGHL---RPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWM

A0A6J1IXE4 sm-like protein LSM1B

6.8e-14

55.7

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Query:  GNIVISDAFERIIVGHL---RPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWM
        GN+V+  AFERI   +    +P+GLLV RG+N + +GE+D S  ELPPH+T V+LP+IL ARKAE  SS+ K  LKKWM
Subjt:  GNIVISDAFERIIVGHL---RPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWM

SwissProt top hits

e value

%identity

Alignment

Q8LFL8 Sm-like protein LSM1B

6.1e-12

51.22

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Query:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD
        N V+  A ER+IVG      P+GL V RGENVVL+GELD    ELPPHM +V+  EI  A+K E  +S L+  ++K M FLD
Subjt:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD

Q945P8 Sm-like protein LSM1A

4.2e-13

52.44

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Query:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD
        N V+ +A+ER+IVG L    P+GL + RGENVVL+GELD    ELP HM +V   EI  A+KAE    LLK  ++K M FLD
Subjt:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD

Arabidopsis top hits

e value

%identity

Alignment

AT1G19120.1 Small nuclear ribonucleoprotein family protein

3.0e-14

52.44

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Query:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD
        N V+ +A+ER+IVG L    P+GL + RGENVVL+GELD    ELP HM +V   EI  A+KAE    LLK  ++K M FLD
Subjt:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD

AT3G14080.1 Small nuclear ribonucleoprotein family protein

4.3e-13

51.22

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Query:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD
        N V+  A ER+IVG      P+GL V RGENVVL+GELD    ELPPHM +V+  EI  A+K E  +S L+  ++K M FLD
Subjt:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD

AT3G14080.2 Small nuclear ribonucleoprotein family protein

4.3e-13

51.22

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Query:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD
        N V+  A ER+IVG      P+GL V RGENVVL+GELD    ELPPHM +V+  EI  A+K E  +S L+  ++K M FLD
Subjt:  NIVISDAFERIIVGHLR---PIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD

Sequences

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CDS sequence

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ATGTACAATGTAGGCAATATTGTTATTTCGGATGCATTTGAAAGAATTATTGTCGGACATCTCCGGCCTATAGGCCTGCTCGTACAACGAGGGGAAAACGTTGTTCTACT
CGGGGAACTGGATCCCAGTTTGCTTGAACTTCCTCCGCATATGACTAAGGTCACACTGCCAGAGATCTTGACGGCTAGGAAAGCAGAGGACGGCTCATCACTGCTTAAAA
TAAACTTGAAGAAATGGATGGCTTTTCTTGACTGA

mRNA sequence

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Protein sequence

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MYNVGNIVISDAFERIIVGHLRPIGLLVQRGENVVLLGELDPSLLELPPHMTKVTLPEILTARKAEDGSSLLKINLKKWMAFLD

Sed0006806 (gene) of Chayote v1 genome