CuGenDBv2

Gene ID	MS021576
Organism	Momordica charantia cv. TR (Bitter gourd (TR) v1)
Description	U6 snRNA-associated Sm-like protein LSm4
Genome location	scaffold108:291728..292409
RNA-Seq Expression	MS021576
Synteny	MS021576
Gene Ontology terms	GO:0000398 - mRNA splicing, via spliceosome (biological process) GO:0000956 - nuclear-transcribed mRNA catabolic process (biological process) GO:0006298 - mismatch repair (biological process) GO:0005681 - spliceosomal complex (cellular component) GO:0032300 - mismatch repair complex (cellular component) GO:0003723 - RNA binding (molecular function) GO:0005524 - ATP binding (molecular function) GO:0016887 - ATPase activity (molecular function) GO:0030983 - mismatched DNA binding (molecular function)
InterPro domains	IPR001163 - LSM domain, eukaryotic/archaea-type IPR010920 - LSM domain superfamily IPR027141 - Like-Sm (LSM) domain containing protein, LSm4/SmD1/SmD3 IPR034101 - Sm-like protein Lsm4

Homology

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GenBank top hits

e value

%identity

Alignment

KAF5462512.1 hypothetical protein F2P56_018515 [Juglans regia]

2.5e-39

93.9

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Query:  FPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV
        F LQLPLSLLK+AQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEV  +V
Subjt:  FPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV

KAG5567718.1 hypothetical protein RHGRI_003048 [Rhododendron griersonianum]

2.5e-39

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Query:  FPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFM
        F +QLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEV +
Subjt:  FPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFM

KAG5567719.1 hypothetical protein RHGRI_003048 [Rhododendron griersonianum]

2.5e-39

93.9

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Query:  FPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV
        F +QLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEV  +V
Subjt:  FPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV

RVW83060.1 putative U6 snRNA-associated Sm-like protein LSm4 [Vitis vinifera]

1.5e-39

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Query:  FPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFM
        F  QLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEV++
Subjt:  FPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFM

TXG63447.1 hypothetical protein EZV62_010441 [Acer yangbiense]

1.9e-39

93.98

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Query:  NFPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV
        N  LQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEV  +V
Subjt:  NFPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV

TrEMBL top hits

e value

%identity

Alignment

A0A3P6E4Q8 U6 snRNA-associated Sm-like protein LSm4 (Fragment)

3.5e-39

93.9

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Query:  FPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV
        F L LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEV  +V
Subjt:  FPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV

A0A438HF25 U6 snRNA-associated Sm-like protein LSm4

7.1e-40

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Query:  FPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFM
        F  QLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEV++
Subjt:  FPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFM

A0A5C7I284 U6 snRNA-associated Sm-like protein LSm4

9.3e-40

93.98

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Query:  NFPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV
        N  LQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEV  +V
Subjt:  NFPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV

A0A6P3ZAA2 U6 snRNA-associated Sm-like protein LSm4

2.1e-39

96.25

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Query:  LQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV
        LQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEV  +V
Subjt:  LQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV

A0A7J7H2L3 U6 snRNA-associated Sm-like protein LSm4

3.5e-39

92.68

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Query:  FPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV
        F ++LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEV  +V
Subjt:  FPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV

SwissProt top hits

e value

%identity

Alignment

F4K4E3 Sm-like protein LSM4

4.7e-41

96.15

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Query:  LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV
        LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEV  +V
Subjt:  LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV

Q3ZBK6 U6 snRNA-associated Sm-like protein LSm4

1.2e-36

87.84

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Query:  LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEV
        LPLSLLKTAQ HPMLVELKNGETYNGHLV+CD WMNI+LREVICTS+DGD+FWRMPECYIRG+TIKYLR+PDE+
Subjt:  LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEV

Q43582 Probable U6 snRNA-associated Sm-like protein LSm4

6.2e-41

94.87

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Query:  LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV
        LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECY+RGNTIKYLRVPDEV  +V
Subjt:  LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV

Q9LGE6 Probable U6 snRNA-associated Sm-like protein LSm4

1.1e-40

94.87

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Query:  LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV
        LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGD+FWRMPECYIRGNTIKYLRVPDEV  +V
Subjt:  LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV

Q9ZRU9 Probable U6 snRNA-associated Sm-like protein LSm4

4.0e-40

93.59

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Query:  LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV
        LPLSLLKTAQGHPMLVELK+GETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMP+CYIRGNTIKYLRVPDEV  +V
Subjt:  LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV

Arabidopsis top hits

e value

%identity

Alignment

AT1G20580.1 Small nuclear ribonucleoprotein family protein

4.0e-11

36.49

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Query:  LQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPD
        L +P+ LL  A GH + VELK+GE Y G ++ C+   N  L ++  T+KDG +  ++   +IRG+ ++++ +PD
Subjt:  LQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPD

AT1G76300.1 snRNP core protein SMD3

2.0e-10

35.14

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Query:  LQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPD
        L +P+ LL  + GH + VE+K+GE Y G ++ C+   N  L  +  T+KDG +  ++   +IRG+ +++L +PD
Subjt:  LQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPD

AT5G27720.1 Small nuclear ribonucleoprotein family protein

3.4e-42

96.15

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Query:  LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV
        LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEV  +V
Subjt:  LPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV

Sequences

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CDS sequence

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AATTTCCCACTGCAGCTTCCCCTTTCGCTCCTAAAGACTGCTCAAGGGCATCCAATGTTAGTGGAACTGAAAAACGGGGAGACTTACAATGGCCACTTGGTTAATTGTGA
TACATGGATGAACATTCATCTCCGGGAAGTCATCTGCACTTCTAAAGATGGTGACCGGTTTTGGCGAATGCCTGAATGTTATATCCGCGGTAATACAATCAAGTATTTGA
GAGTTCCTGATGAGGTATTCATGGAAGTT

mRNA sequence

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Protein sequence

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NFPLQLPLSLLKTAQGHPMLVELKNGETYNGHLVNCDTWMNIHLREVICTSKDGDRFWRMPECYIRGNTIKYLRVPDEVFMEV

MS021576 (gene) of Bitter gourd (TR) v1 genome