Cla012534 (gene) Watermelon (97103) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cla012534
Type	gene
Organism	Citrullus. lanatus (Watermelon (97103) v1)
Description	U6 snRNA-associated Sm-like protein LSm1 (AHRD V1 ***- E2ARW6_CAMFO); contains Interpro domain(s) IPR006649 Like-Sm ribonucleoprotein, eukaryotic and archaea-type, core
Location	Chr7 : 23867181 .. 23867978 (+)

Genome Viewer

Gene Expression

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDS

Hold the cursor over a type above to highlight its positions in the sequence below.

TTCTTTCTTCGTCTTCTAATTTATTCCCATGCTACAGGCAAATTGCTGGTCCTGTGTCTTGATGAACGATGTTTCATTGGCACTTTCTGTTCCTTCGATCATTATGGTATTTCTTTCATTCATTCATTCATTATATATATTCCTATTATGCAAATTCTCATCAGAATTTTTAAAAATTTGTGCAGGGAGTATTGTTCTTGAGAGTGCTTTTGAAAGAACTGTTGTTGAGAATCAGTATTGTGATAACCCCATTGGCCTTTTGGTAGTTCGAGCCGAGAATATTATTTTAATTGGGGAGCTGGTAATCTCATTTTCTTTTTCCTTAATTTAATTTAATTTAATTTAATTAATTAATTTCTAACTCCAAATTCCTTCAATTTCAATTCTTAATTTCAGGACCTCAGCTTGCCCCAACTTCCTCCACATATGACTTCTGTCTCTCTCCCTCAGATTCTAACCGTAAGTAACTATCTACCTCTTCTGACCCTGTGTCAAATCCAACACAGAATCTCCTCCTCTAATACACAAACTTAACCCCGAGTTTGATAGTTTTTTTTTTTTTGTCTATTTTTGGACATGGAGATTCACATGTCTACTTACGAAAGATTTTAAAACCATTCGAAAGAATGAGCTTTGGAAGACAGTTCTGATTGTAACAAAATTTTGAACCTTACATTTGAGCAATTCTAAAAGACTGGCTGGGGATGAATGCAGGCTAGGAAAGCAGAAAGGGAGTCATTAGTGCTTAAAAGAACCTTGAAAAAATGGATGGAGGATCTCCTTGAAGAAGATATGTGA

mRNA sequence

TTCTTTCTTCGTCTTCTAATTTATTCCCATGCTACAGGCAAATTGCTGGTCCTGTGTCTTGATGAACGATGTTTCATTGGCACTTTCTGTTCCTTCGATCATTATGGGAGTATTGTTCTTGAGAGTGCTTTTGAAAGAACTGTTGTTGAGAATCAGTATTGTGATAACCCCATTGGCCTTTTGGTAGTTCGAGCCGAGAATATTATTTTAATTGGGGAGCTGGACCTCAGCTTGCCCCAACTTCCTCCACATATGACTTCTGTCTCTCTCCCTCAGATTCTAACCGCTAGGAAAGCAGAAAGGGAGTCATTAGTGCTTAAAAGAACCTTGAAAAAATGGATGGAGGATCTCCTTGAAGAAGATATGTGA

Coding sequence (CDS)

TTCTTTCTTCGTCTTCTAATTTATTCCCATGCTACAGGCAAATTGCTGGTCCTGTGTCTTGATGAACGATGTTTCATTGGCACTTTCTGTTCCTTCGATCATTATGGGAGTATTGTTCTTGAGAGTGCTTTTGAAAGAACTGTTGTTGAGAATCAGTATTGTGATAACCCCATTGGCCTTTTGGTAGTTCGAGCCGAGAATATTATTTTAATTGGGGAGCTGGACCTCAGCTTGCCCCAACTTCCTCCACATATGACTTCTGTCTCTCTCCCTCAGATTCTAACCGCTAGGAAAGCAGAAAGGGAGTCATTAGTGCTTAAAAGAACCTTGAAAAAATGGATGGAGGATCTCCTTGAAGAAGATATGTGA

Protein sequence

FFLRLLIYSHATGKLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLLVVRAENIILIGELDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLKKWMEDLLEEDM

Homology

[Close]

BLAST of Cla012534 vs. Swiss-Prot
Match: LSM1B_ARATH (Sm-like protein LSM1B OS=Arabidopsis thaliana GN=LSM1B PE=1 SV=1)

HSP 1 Score: 108.2 bits (269), Expect = 6.3e-23
Identity = 57/116 (49.14%), Postives = 73/116 (62.93%), Query Frame = 1


Query: 2   FLRLLIYSHATGKLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLL 61
           +L   + S+   KLLVL  D R  +GT  SFD + + VLE A ER +V  QYCD P+GL 
Sbjct: 10  YLSTSLASYLDRKLLVLLRDGRKLMGTLRSFDQFANAVLEGACERVIVGEQYCDIPLGLY 69

Query: 62  VVRAENIILIGELDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLKKWMEDL 118
           V+R EN++LIGELD    +LPPHM  VS  +I  A+K ERE+  L+ T++K ME L
Sbjct: 70  VIRGENVVLIGELDTEREELPPHMIRVSEAEIKRAQKVEREASELRGTMRKRMEFL 125

[Close]

BLAST of Cla012534 vs. Swiss-Prot
Match: LSM1A_ARATH (Sm-like protein LSM1A OS=Arabidopsis thaliana GN=LSM1A PE=1 SV=1)

HSP 1 Score: 104.0 bits (258), Expect = 1.2e-21
Identity = 52/116 (44.83%), Postives = 73/116 (62.93%), Query Frame = 1


Query: 2   FLRLLIYSHATGKLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLL 61
           F    + ++   KLLVL  D R  +G   SFD + + VLE A+ER +V + YCD P+GL 
Sbjct: 10  FFSTSLAAYLDKKLLVLLRDGRKLMGLLRSFDQFANAVLEEAYERVIVGDLYCDIPLGLY 69

Query: 62  VVRAENIILIGELDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLKKWMEDL 118
           ++R EN++LIGELD+   +LP HM  V   +I  A+KAE+E ++LK T++K ME L
Sbjct: 70  IIRGENVVLIGELDVEKEELPAHMVQVPEAEIKRAQKAEKEEMLLKGTMRKRMEFL 125

[Close]

BLAST of Cla012534 vs. Swiss-Prot
Match: LSM1_BOVIN (U6 snRNA-associated Sm-like protein LSm1 OS=Bos taurus GN=LSM1 PE=2 SV=1)

HSP 1 Score: 63.9 bits (154), Expect = 1.4e-09
Identity = 37/98 (37.76%), Postives = 53/98 (54.08%), Query Frame = 1


Query: 14  KLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLLVVRAENIILIGE 73
           K LVL  D R  IG   S D + ++VL    ER  V  +Y D P G+ VVR EN++L+GE
Sbjct: 17  KHLVLLRDGRTLIGFLRSIDQFANLVLHQTVERIHVGKKYGDIPRGIFVVRGENVVLLGE 76

Query: 74  LDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLK 112
           +DL      P +  VS+ +IL  ++ E+++ +    LK
Sbjct: 77  IDLEKESDTP-LQQVSIEEILEEQRVEQQTKLEAEKLK 113

[Close]

BLAST of Cla012534 vs. Swiss-Prot
Match: LSM1_HUMAN (U6 snRNA-associated Sm-like protein LSm1 OS=Homo sapiens GN=LSM1 PE=1 SV=1)

HSP 1 Score: 63.9 bits (154), Expect = 1.4e-09
Identity = 37/98 (37.76%), Postives = 53/98 (54.08%), Query Frame = 1


Query: 14  KLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLLVVRAENIILIGE 73
           K LVL  D R  IG   S D + ++VL    ER  V  +Y D P G+ VVR EN++L+GE
Sbjct: 17  KHLVLLRDGRTLIGFLRSIDQFANLVLHQTVERIHVGKKYGDIPRGIFVVRGENVVLLGE 76

Query: 74  LDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLK 112
           +DL      P +  VS+ +IL  ++ E+++ +    LK
Sbjct: 77  IDLEKESDTP-LQQVSIEEILEEQRVEQQTKLEAEKLK 113

[Close]

BLAST of Cla012534 vs. Swiss-Prot
Match: LSM1_MOUSE (U6 snRNA-associated Sm-like protein LSm1 OS=Mus musculus GN=Lsm1 PE=1 SV=1)

HSP 1 Score: 62.8 bits (151), Expect = 3.1e-09
Identity = 36/98 (36.73%), Postives = 53/98 (54.08%), Query Frame = 1


Query: 14  KLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLLVVRAENIILIGE 73
           K LVL  D R  IG   S D + ++VL    ER  V  +Y D P G+ VVR EN++L+GE
Sbjct: 17  KHLVLLRDGRTLIGFLRSIDQFANLVLHQTVERIHVGKKYGDIPRGIFVVRGENVVLLGE 76

Query: 74  LDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLK 112
           +DL      P +  VS+ +IL  ++ ++++ +    LK
Sbjct: 77  IDLEKESDTP-LQQVSIEEILEEQRVQQQTRLEAEKLK 113

[Close]

BLAST of Cla012534 vs. TrEMBL
Match: V4SS25_9ROSI (Uncharacterized protein OS=Citrus clementina GN=CICLE_v10026767mg PE=4 SV=1)

HSP 1 Score: 115.9 bits (289), Expect = 3.4e-23
Identity = 59/116 (50.86%), Postives = 80/116 (68.97%), Query Frame = 1


Query: 2   FLRLLIYSHATGKLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLL 61
           +L   + S+   KLLVL  D R  +GT CSFD + + VLE A ER +V + YCD P+GL 
Sbjct: 10  YLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLY 69

Query: 62  VVRAENIILIGELDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLKKWMEDL 118
           V+R EN++LIGELDL   +LPPH+T VS+ +I  A+KAERE+  LK +++K ME L
Sbjct: 70  VIRGENVVLIGELDLERDELPPHLTHVSVAEIKRAQKAEREASDLKGSMRKRMEFL 125

[Close]

BLAST of Cla012534 vs. TrEMBL
Match: A0A022Q0J9_ERYGU (Uncharacterized protein OS=Erythranthe guttata GN=MIMGU_mgv1a016277mg PE=4 SV=1)

HSP 1 Score: 115.9 bits (289), Expect = 3.4e-23
Identity = 61/113 (53.98%), Postives = 76/113 (67.26%), Query Frame = 1


Query: 9   SHATGKLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLLVVRAENI 68
           S+   KLLVL  D R  +G   SFD + + VLE A ER +V   YCD P+GL V+R EN+
Sbjct: 17  SYLDKKLLVLLRDGRKLLGILRSFDQFANAVLEGACERVIVGELYCDIPLGLYVIRGENV 76

Query: 69  ILIGELDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLKKWMEDLLEED 122
           +LIGELDL   +LPPHMT VS  +I  A+KAERE+  LK T+KKWM D L+ D
Sbjct: 77  VLIGELDLEKDELPPHMTRVSAEEIKRAQKAEREASELKGTMKKWM-DFLDMD 128

[Close]

BLAST of Cla012534 vs. TrEMBL
Match: A0A0B0P6G1_GOSAR (U6 snRNA-associated Sm-like protein LSm1 OS=Gossypium arboreum GN=F383_25771 PE=4 SV=1)

HSP 1 Score: 114.4 bits (285), Expect = 9.8e-23
Identity = 60/116 (51.72%), Postives = 79/116 (68.10%), Query Frame = 1


Query: 2   FLRLLIYSHATGKLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLL 61
           +L   + S+   KLLVL  D R  +GT  SFD + + VLE A ER +V + YCD P+GL 
Sbjct: 10  YLSTSLASYLDRKLLVLLRDGRKLMGTLRSFDQFANAVLEGACERVIVGDLYCDIPLGLY 69

Query: 62  VVRAENIILIGELDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLKKWMEDL 118
           V+R EN++LIGELDL   +LPPHMT VS+ +I  A+KAERE+  LK T++K ME L
Sbjct: 70  VIRGENVVLIGELDLEREELPPHMTHVSVAEIRRAQKAEREATDLKGTMRKRMEFL 125

[Close]

BLAST of Cla012534 vs. TrEMBL
Match: A0A0D2TQ67_GOSRA (Uncharacterized protein OS=Gossypium raimondii GN=B456_009G145700 PE=4 SV=1)

HSP 1 Score: 114.4 bits (285), Expect = 9.8e-23
Identity = 60/116 (51.72%), Postives = 79/116 (68.10%), Query Frame = 1


Query: 2   FLRLLIYSHATGKLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLL 61
           +L   + S+   KLLVL  D R  +GT  SFD + + VLE A ER +V + YCD P+GL 
Sbjct: 10  YLSTSLASYLDRKLLVLLRDGRKLMGTLRSFDQFANAVLEGACERVIVGDLYCDIPLGLY 69

Query: 62  VVRAENIILIGELDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLKKWMEDL 118
           V+R EN++LIGELDL   +LPPHMT VS+ +I  A+KAERE+  LK T++K ME L
Sbjct: 70  VIRGENVVLIGELDLEREELPPHMTHVSVAEIRRAQKAEREATDLKGTMRKRMEFL 125

[Close]

BLAST of Cla012534 vs. TrEMBL
Match: A0A067FNE1_CITSI (Uncharacterized protein (Fragment) OS=Citrus sinensis GN=CISIN_1g0321082mg PE=4 SV=1)

HSP 1 Score: 114.0 bits (284), Expect = 1.3e-22
Identity = 57/104 (54.81%), Postives = 75/104 (72.12%), Query Frame = 1


Query: 14  KLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLLVVRAENIILIGE 73
           KLLVL  D R  +GT CSFD + + VLE A ER +V + YCD P+GL V+R EN++LIGE
Sbjct: 1   KLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLYVIRGENVVLIGE 60

Query: 74  LDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLKKWMEDL 118
           LDL   +LPPH+T VS+ +I  A+KAERE+  LK +++K ME L
Sbjct: 61  LDLERDELPPHLTHVSVAEIKRAQKAEREASDLKGSMRKRMEFL 104

[Close]

BLAST of Cla012534 vs. NCBI nr
Match: gi|659120707|ref|XP_008460317.1| (PREDICTED: probable U6 snRNA-associated Sm-like protein LSm1 [Cucumis melo])

HSP 1 Score: 119.0 bits (297), Expect = 5.7e-24
Identity = 62/99 (62.63%), Postives = 72/99 (72.73%), Query Frame = 1


Query: 7   IYSHATGKLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIG-LLVVRA 66
           I  +   KLLVL LD R   G   SFDH+G++VLE+ FER VV N YCDNP+G LLV+RA
Sbjct: 24  IREYVDRKLLVLLLDGRSIFGILRSFDHFGNLVLETVFERIVVGNHYCDNPMGGLLVLRA 83

Query: 67  ENIILIGELDLSLPQLPPHMTSVSLPQILTARKAERESL 105
           ENIILIGELD  LPQLPPH+TS+ LPQILT  K    +L
Sbjct: 84  ENIILIGELDPCLPQLPPHITSLPLPQILTVSKLSNSTL 122

[Close]

BLAST of Cla012534 vs. NCBI nr
Match: gi|848919213|ref|XP_012856715.1| (PREDICTED: sm-like protein LSM1B [Erythranthe guttata])

HSP 1 Score: 115.9 bits (289), Expect = 4.9e-23
Identity = 61/113 (53.98%), Postives = 76/113 (67.26%), Query Frame = 1


Query: 9   SHATGKLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLLVVRAENI 68
           S+   KLLVL  D R  +G   SFD + + VLE A ER +V   YCD P+GL V+R EN+
Sbjct: 17  SYLDKKLLVLLRDGRKLLGILRSFDQFANAVLEGACERVIVGELYCDIPLGLYVIRGENV 76

Query: 69  ILIGELDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLKKWMEDLLEED 122
           +LIGELDL   +LPPHMT VS  +I  A+KAERE+  LK T+KKWM D L+ D
Sbjct: 77  VLIGELDLEKDELPPHMTRVSAEEIKRAQKAEREASELKGTMKKWM-DFLDMD 128

[Close]

BLAST of Cla012534 vs. NCBI nr
Match: gi|567868157|ref|XP_006426701.1| (hypothetical protein CICLE_v10026767mg [Citrus clementina])

HSP 1 Score: 115.9 bits (289), Expect = 4.9e-23
Identity = 59/116 (50.86%), Postives = 80/116 (68.97%), Query Frame = 1


Query: 2   FLRLLIYSHATGKLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLL 61
           +L   + S+   KLLVL  D R  +GT CSFD + + VLE A ER +V + YCD P+GL 
Sbjct: 10  YLSTSLASYLDKKLLVLLRDGRKLMGTLCSFDQFANAVLEGACERVIVGDLYCDIPLGLY 69

Query: 62  VVRAENIILIGELDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLKKWMEDL 118
           V+R EN++LIGELDL   +LPPH+T VS+ +I  A+KAERE+  LK +++K ME L
Sbjct: 70  VIRGENVVLIGELDLERDELPPHLTHVSVAEIKRAQKAEREASDLKGSMRKRMEFL 125

[Close]

BLAST of Cla012534 vs. NCBI nr
Match: gi|823223323|ref|XP_012444399.1| (PREDICTED: sm-like protein LSM1B [Gossypium raimondii])

HSP 1 Score: 114.4 bits (285), Expect = 1.4e-22
Identity = 60/116 (51.72%), Postives = 79/116 (68.10%), Query Frame = 1


Query: 2   FLRLLIYSHATGKLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLL 61
           +L   + S+   KLLVL  D R  +GT  SFD + + VLE A ER +V + YCD P+GL 
Sbjct: 10  YLSTSLASYLDRKLLVLLRDGRKLMGTLRSFDQFANAVLEGACERVIVGDLYCDIPLGLY 69

Query: 62  VVRAENIILIGELDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLKKWMEDL 118
           V+R EN++LIGELDL   +LPPHMT VS+ +I  A+KAERE+  LK T++K ME L
Sbjct: 70  VIRGENVVLIGELDLEREELPPHMTHVSVAEIRRAQKAEREATDLKGTMRKRMEFL 125

[Close]

BLAST of Cla012534 vs. NCBI nr
Match: gi|728839513|gb|KHG18956.1| (U6 snRNA-associated Sm-like protein LSm1 [Gossypium arboreum])

HSP 1 Score: 114.4 bits (285), Expect = 1.4e-22
Identity = 60/116 (51.72%), Postives = 79/116 (68.10%), Query Frame = 1


Query: 2   FLRLLIYSHATGKLLVLCLDERCFIGTFCSFDHYGSIVLESAFERTVVENQYCDNPIGLL 61
           +L   + S+   KLLVL  D R  +GT  SFD + + VLE A ER +V + YCD P+GL 
Sbjct: 10  YLSTSLASYLDRKLLVLLRDGRKLMGTLRSFDQFANAVLEGACERVIVGDLYCDIPLGLY 69

Query: 62  VVRAENIILIGELDLSLPQLPPHMTSVSLPQILTARKAERESLVLKRTLKKWMEDL 118
           V+R EN++LIGELDL   +LPPHMT VS+ +I  A+KAERE+  LK T++K ME L
Sbjct: 70  VIRGENVVLIGELDLEREELPPHMTHVSVAEIRRAQKAEREATDLKGTMRKRMEFL 125

The following BLAST results are available for this feature:

BLAST of Cla012534 vs. Swiss-Prot


Match Name	E-value	Identity	Description
LSM1B_ARATH	6.3e-23	49.14	Sm-like protein LSM1B OS=Arabidopsis thaliana GN=LSM1B PE=1 SV=1	[more]
LSM1A_ARATH	1.2e-21	44.83	Sm-like protein LSM1A OS=Arabidopsis thaliana GN=LSM1A PE=1 SV=1	[more]
LSM1_BOVIN	1.4e-09	37.76	U6 snRNA-associated Sm-like protein LSm1 OS=Bos taurus GN=LSM1 PE=2 SV=1	[more]
LSM1_HUMAN	1.4e-09	37.76	U6 snRNA-associated Sm-like protein LSm1 OS=Homo sapiens GN=LSM1 PE=1 SV=1	[more]
LSM1_MOUSE	3.1e-09	36.73	U6 snRNA-associated Sm-like protein LSm1 OS=Mus musculus GN=Lsm1 PE=1 SV=1	[more]

BLAST of Cla012534 vs. TrEMBL


Match Name	E-value	Identity	Description
V4SS25_9ROSI	3.4e-23	50.86	Uncharacterized protein OS=Citrus clementina GN=CICLE_v10026767mg PE=4 SV=1	[more]
A0A022Q0J9_ERYGU	3.4e-23	53.98	Uncharacterized protein OS=Erythranthe guttata GN=MIMGU_mgv1a016277mg PE=4 SV=1	[more]
A0A0B0P6G1_GOSAR	9.8e-23	51.72	U6 snRNA-associated Sm-like protein LSm1 OS=Gossypium arboreum GN=F383_25771 PE=...	[more]
A0A0D2TQ67_GOSRA	9.8e-23	51.72	Uncharacterized protein OS=Gossypium raimondii GN=B456_009G145700 PE=4 SV=1	[more]
A0A067FNE1_CITSI	1.3e-22	54.81	Uncharacterized protein (Fragment) OS=Citrus sinensis GN=CISIN_1g0321082mg PE=4 ...	[more]

BLAST of Cla012534 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|659120707\|ref\|XP_008460317.1\|	5.7e-24	62.63	PREDICTED: probable U6 snRNA-associated Sm-like protein LSm1 [Cucumis melo]	[more]
gi\|848919213\|ref\|XP_012856715.1\|	4.9e-23	53.98	PREDICTED: sm-like protein LSM1B [Erythranthe guttata]	[more]
gi\|567868157\|ref\|XP_006426701.1\|	4.9e-23	50.86	hypothetical protein CICLE_v10026767mg [Citrus clementina]	[more]
gi\|823223323\|ref\|XP_012444399.1\|	1.4e-22	51.72	PREDICTED: sm-like protein LSM1B [Gossypium raimondii]	[more]
gi\|728839513\|gb\|KHG18956.1\|	1.4e-22	51.72	U6 snRNA-associated Sm-like protein LSm1 [Gossypium arboreum]	[more]

Annotated Terms

The following terms have been associated with this gene:

Vocabulary: **INTERPRO**
Term	Definition
IPR001163	LSM_dom_euk/arc
IPR010920	LSM_dom_sf

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0008150	biological_process
biological_process	GO:0000290	deadenylation-dependent decapping of nuclear-transcribed mRNA
biological_process	GO:0006397	mRNA processing
biological_process	GO:0016070	RNA metabolic process
biological_process	GO:0010228	vegetative to reproductive phase transition of meristem
biological_process	GO:0007020	microtubule nucleation
biological_process	GO:0000956	nuclear-transcribed mRNA catabolic process
cellular_component	GO:0005634	nucleus
cellular_component	GO:0030529	intracellular ribonucleoprotein complex
cellular_component	GO:0005794	Golgi apparatus
cellular_component	GO:0016021	integral component of membrane
cellular_component	GO:0005575	cellular_component
cellular_component	GO:0019013	viral nucleocapsid
cellular_component	GO:0000932	cytoplasmic mRNA processing body
cellular_component	GO:1990726	Lsm1-7-Pat1 complex
molecular_function	GO:0000339	RNA cap binding
molecular_function	GO:0003674	molecular_function

Relationships

The following mRNA feature(s) are a part of this gene:


Feature Name	Unique Name	Type
Cla012534	Cla012534.1	mRNA

InterPro

Analysis Name: InterPro Annotations of watermelon (97103)
Date Performed: 2016-09-28


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR001163	LSM domain, eukaryotic/archaea-type	PFAM	PF01423	LSM	coord: 14..72 score: 5.
IPR001163	LSM domain, eukaryotic/archaea-type	SMART	SM00651	Sm3	coord: 6..73 score: 0
IPR010920	LSM domain	unknown	SSF50182	Sm-like ribonucleoproteins	coord: 7..75 score: 1.16
None	No IPR available	GENE3D	G3DSA:2.30.30.100		coord: 9..76 score: 6.5
None	No IPR available	PANTHER	PTHR15588	LSM1	coord: 14..115 score: 3.1
None	No IPR available	PANTHER	PTHR15588:SF10	SUBFAMILY NOT NAMED	coord: 14..115 score: 3.1

Synteny

The following gene(s) are orthologous to this gene:


Gene	Orthologue	Organism	Block
Cla012534	Cla97C07G141370	Watermelon (97103) v2	wmwmbB173
Cla012534	Cla97C09G163170	Watermelon (97103) v2	wmwmbB184
Cla012534	Csa7G448830	Cucumber (Chinese Long) v2	cuwmB586
Cla012534	MELO3C024338	Melon (DHL92) v3.5.1	mewmB230
Cla012534	ClCG07G014510	Watermelon (Charleston Gray)	wcgwmB371
Cla012534	CSPI07G22370	Wild cucumber (PI 183967)	cpiwmB606
Cla012534	Cucsa.360100	Cucumber (Gy14) v1	cgywmB650
Cla012534	CmaCh17G006750	Cucurbita maxima (Rimu)	cmawmB342
Cla012534	CmoCh08G007810	Cucurbita moschata (Rifu)	cmowmB852
Cla012534	CmoCh17G006550	Cucurbita moschata (Rifu)	cmowmB338
Cla012534	Lsi02G028850	Bottle gourd (USVL1VR-Ls)	lsiwmB192
Cla012534	Cp4.1LG03g15060	Cucurbita pepo (Zucchini)	cpewmB600
Cla012534	Cp4.1LG17g04060	Cucurbita pepo (Zucchini)	cpewmB327
Cla012534	CsGy7G020670	Cucumber (Gy14) v2	cgybwmB548
Cla012534	MELO3C030863.2	Melon (DHL92) v3.6.1	medwmB356
Cla012534	MELO3C024338.2	Melon (DHL92) v3.6.1	medwmB225
Cla012534	Carg13926	Silver-seed gourd	carwmB0599
Cla012534	Carg18971	Silver-seed gourd	carwmB0764
Cla012534	CsaV3_7G034290	Cucumber (Chinese Long) v3	cucwmB615
Cla012534	Bhi09G000238	Wax gourd	wgowmB612

The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:


Gene	Organism	Block
Cla012534	Silver-seed gourd	carwmB0192
Cla012534	Silver-seed gourd	carwmB0462
Cla012534	Cucumber (Chinese Long) v3	cucwmB225
Cla012534	Wax gourd	wgowmB184
Cla012534	Watermelon (97103) v1	wmwmB014
Cla012534	Cucumber (Gy14) v1	cgywmB268
Cla012534	Cucurbita maxima (Rimu)	cmawmB232
Cla012534	Cucurbita maxima (Rimu)	cmawmB430
Cla012534	Cucurbita maxima (Rimu)	cmawmB865
Cla012534	Cucurbita moschata (Rifu)	cmowmB218
Cla012534	Cucurbita moschata (Rifu)	cmowmB423
Cla012534	Melon (DHL92) v3.5.1	mewmB358
Cla012534	Watermelon (Charleston Gray)	wcgwmB022
Cla012534	Cucumber (Chinese Long) v2	cuwmB218
Cla012534	Cucurbita pepo (Zucchini)	cpewmB149
Cla012534	Cucurbita pepo (Zucchini)	cpewmB557
Cla012534	Bottle gourd (USVL1VR-Ls)	lsiwmB438
Cla012534	Cucumber (Gy14) v2	cgybwmB204