Clc03G12970.1 (mRNA) Watermelon (cordophanus) v2

Overview


Name	Clc03G12970.1
Type	mRNA
Organism	Citrullus lanatus subsp. cordophanus cv. cordophanus (Watermelon (cordophanus) v2)
Description	Ribonuclease H
Location	ClcChr03: 21244282 .. 21244647 (-)
Sequence length	366
RNA-Seq Expression	Clc03G12970.1
Synteny	Clc03G12970.1

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptide

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

ATGAACAGAAAAGAAGGGGTCGACGTTGAGGCTAAGGTCGAGGCTGAAGTTGGGGCCTGGGTCAAGGCCGGCCCATGGGTCTTTAAGAAAAGGAAACCTAAATCAAAAGGAATTTACAATTTTTCAGGTGATGAGTGGAACGATCAGTCTCCCAGCAACATGAGGGAGGTCGAGGTCGGGGCCATTCAAGGAAGTCAATTGGCAAAGGAATTGGAATTGGTCCCAATCACCTCAGAAGATAGGAGGATAAACATTGGAACCAAGATGGGAACAGAGCAAAAAGAGAGTCTAATCAAATTTCTCAGGCAGAATGCTGACATATTCGCTTGGTCACATAAGGATATGCCTAGGTTGATCCTAATGTAA

mRNA sequence

ATGAACAGAAAAGAAGGGGTCGACGTTGAGGCTAAGGTCGAGGCTGAAGTTGGGGCCTGGGTCAAGGCCGGCCCATGGGTCTTTAAGAAAAGGAAACCTAAATCAAAAGGAATTTACAATTTTTCAGGTGATGAGTGGAACGATCAGTCTCCCAGCAACATGAGGGAGGTCGAGGTCGGGGCCATTCAAGGAAGTCAATTGGCAAAGGAATTGGAATTGGTCCCAATCACCTCAGAAGATAGGAGGATAAACATTGGAACCAAGATGGGAACAGAGCAAAAAGAGAGTCTAATCAAATTTCTCAGGCAGAATGCTGACATATTCGCTTGGTCACATAAGGATATGCCTAGGTTGATCCTAATGTAA

Coding sequence (CDS)

ATGAACAGAAAAGAAGGGGTCGACGTTGAGGCTAAGGTCGAGGCTGAAGTTGGGGCCTGGGTCAAGGCCGGCCCATGGGTCTTTAAGAAAAGGAAACCTAAATCAAAAGGAATTTACAATTTTTCAGGTGATGAGTGGAACGATCAGTCTCCCAGCAACATGAGGGAGGTCGAGGTCGGGGCCATTCAAGGAAGTCAATTGGCAAAGGAATTGGAATTGGTCCCAATCACCTCAGAAGATAGGAGGATAAACATTGGAACCAAGATGGGAACAGAGCAAAAAGAGAGTCTAATCAAATTTCTCAGGCAGAATGCTGACATATTCGCTTGGTCACATAAGGATATGCCTAGGTTGATCCTAATGTAA

Protein sequence

MNRKEGVDVEAKVEAEVGAWVKAGPWVFKKRKPKSKGIYNFSGDEWNDQSPSNMREVEVGAIQGSQLAKELELVPITSEDRRINIGTKMGTEQKESLIKFLRQNADIFAWSHKDMPRLILM

Homology

[Close]

BLAST of Clc03G12970.1 vs. NCBI nr
Match: XP_022156571.1 (uncharacterized protein LOC111023448 [Momordica charantia])

HSP 1 Score: 80.9 bits (198), Expect = 8.5e-12
Identity = 36/69 (52.17%), Postives = 50/69 (72.46%), Query Frame = 0


Query: 48  DQSPSNMREVEVGAIQGSQLAKELELVPITSEDRRINIGTKMGTEQKESLIKFLRQNADI 107
           D  PS    +    +   + A+E+E VP+T+EDRR+NIGTK+G+E++ESLI FLR NAD+
Sbjct: 88  DARPSPGHRLNSTTLDRGEPAEEVESVPLTAEDRRVNIGTKLGSEERESLINFLRSNADV 147

Query: 108 FAWSHKDMP 117
           F WS +DMP
Sbjct: 148 FTWSPEDMP 156

[Close]

BLAST of Clc03G12970.1 vs. NCBI nr
Match: XP_022156048.1 (uncharacterized protein LOC111023016 [Momordica charantia])

HSP 1 Score: 78.2 bits (191), Expect = 5.5e-11
Identity = 37/79 (46.84%), Postives = 53/79 (67.09%), Query Frame = 0


Query: 40  NFSGDEWNDQSPSNMREVEVGAIQGSQLAKELELVPITSEDRRINIGTKMGTEQKESLIK 99
           N + D   +  PS    +    +     A+E+E VP+T E++R+NIGTK+G E++ESLI 
Sbjct: 40  NKATDLSGEARPSPGHRLNSTTLDRGGSAEEVESVPLTVEEQRVNIGTKLGNEERESLIN 99

Query: 100 FLRQNADIFAWSHKDMPRL 119
           FLR NAD+FAWS +DMPR+
Sbjct: 100 FLRSNADVFAWSPEDMPRI 118

[Close]

BLAST of Clc03G12970.1 vs. NCBI nr
Match: XP_022158042.1 (uncharacterized protein LOC111024621 [Momordica charantia])

HSP 1 Score: 76.3 bits (186), Expect = 2.1e-10
Identity = 30/48 (62.50%), Postives = 42/48 (87.50%), Query Frame = 0


Query: 69  KELELVPITSEDRRINIGTKMGTEQKESLIKFLRQNADIFAWSHKDMP 117
           KE+E +P+TS+DRR+NIGT++G +++ SLI FLR N D+FAWSH+DMP
Sbjct: 89  KEVESIPLTSDDRRVNIGTRLGNKKRASLISFLRSNTDVFAWSHEDMP 136

[Close]

BLAST of Clc03G12970.1 vs. NCBI nr
Match: XP_022136647.1 (uncharacterized protein LOC111008302 [Momordica charantia])

HSP 1 Score: 70.9 bits (172), Expect = 8.8e-09
Identity = 29/63 (46.03%), Postives = 46/63 (73.02%), Query Frame = 0


Query: 56  EVEVGAIQGSQLAKELELVPITSEDRRINIGTKMGTEQKESLIKFLRQNADIFAWSHKDM 115
           E ++   + +   +ELELVP+ S +++++IGTK+G   +E LI FLR N+D+FAWSH+DM
Sbjct: 12  EADLPRRESAAPTEELELVPLLSPEKQVSIGTKLGATDREELIHFLRSNSDVFAWSHEDM 71

Query: 116 PRL 119
           P +
Sbjct: 72  PSI 74

[Close]

BLAST of Clc03G12970.1 vs. NCBI nr
Match: XP_022149378.1 (uncharacterized protein LOC111017809 [Momordica charantia])

HSP 1 Score: 68.2 bits (165), Expect = 5.7e-08
Identity = 30/71 (42.25%), Postives = 46/71 (64.79%), Query Frame = 0


Query: 46  WNDQSPSNMREVEVGAIQGSQLAKELELVPITSEDRRINIGTKMGTEQKESLIKFLRQNA 105
           W+    S     +VG  +     +ELELVP+ S +R+++IGTK+G   +E  I FLR N+
Sbjct: 76  WDKSLESKADLPQVGKREFFATTEELELVPLLSPERQVSIGTKLGATDREEFINFLRTNS 135

Query: 106 DIFAWSHKDMP 117
           ++FAWSH++MP
Sbjct: 136 NVFAWSHENMP 146

[Close]

BLAST of Clc03G12970.1 vs. ExPASy TrEMBL
Match: A0A6J1DVC6 (Ribonuclease H OS=Momordica charantia OX=3673 GN=LOC111023448 PE=4 SV=1)

HSP 1 Score: 80.9 bits (198), Expect = 4.1e-12
Identity = 36/69 (52.17%), Postives = 50/69 (72.46%), Query Frame = 0


Query: 48  DQSPSNMREVEVGAIQGSQLAKELELVPITSEDRRINIGTKMGTEQKESLIKFLRQNADI 107
           D  PS    +    +   + A+E+E VP+T+EDRR+NIGTK+G+E++ESLI FLR NAD+
Sbjct: 88  DARPSPGHRLNSTTLDRGEPAEEVESVPLTAEDRRVNIGTKLGSEERESLINFLRSNADV 147

Query: 108 FAWSHKDMP 117
           F WS +DMP
Sbjct: 148 FTWSPEDMP 156

[Close]

BLAST of Clc03G12970.1 vs. ExPASy TrEMBL
Match: A0A6J1DPJ5 (uncharacterized protein LOC111023016 OS=Momordica charantia OX=3673 GN=LOC111023016 PE=4 SV=1)

HSP 1 Score: 78.2 bits (191), Expect = 2.7e-11
Identity = 37/79 (46.84%), Postives = 53/79 (67.09%), Query Frame = 0


Query: 40  NFSGDEWNDQSPSNMREVEVGAIQGSQLAKELELVPITSEDRRINIGTKMGTEQKESLIK 99
           N + D   +  PS    +    +     A+E+E VP+T E++R+NIGTK+G E++ESLI 
Sbjct: 40  NKATDLSGEARPSPGHRLNSTTLDRGGSAEEVESVPLTVEEQRVNIGTKLGNEERESLIN 99

Query: 100 FLRQNADIFAWSHKDMPRL 119
           FLR NAD+FAWS +DMPR+
Sbjct: 100 FLRSNADVFAWSPEDMPRI 118

[Close]

BLAST of Clc03G12970.1 vs. ExPASy TrEMBL
Match: A0A6J1DW49 (uncharacterized protein LOC111024621 OS=Momordica charantia OX=3673 GN=LOC111024621 PE=4 SV=1)

HSP 1 Score: 76.3 bits (186), Expect = 1.0e-10
Identity = 30/48 (62.50%), Postives = 42/48 (87.50%), Query Frame = 0


Query: 69  KELELVPITSEDRRINIGTKMGTEQKESLIKFLRQNADIFAWSHKDMP 117
           KE+E +P+TS+DRR+NIGT++G +++ SLI FLR N D+FAWSH+DMP
Sbjct: 89  KEVESIPLTSDDRRVNIGTRLGNKKRASLISFLRSNTDVFAWSHEDMP 136

[Close]

BLAST of Clc03G12970.1 vs. ExPASy TrEMBL
Match: A0A6J1C617 (Ribonuclease H OS=Momordica charantia OX=3673 GN=LOC111008302 PE=4 SV=1)

HSP 1 Score: 70.9 bits (172), Expect = 4.2e-09
Identity = 29/63 (46.03%), Postives = 46/63 (73.02%), Query Frame = 0


Query: 56  EVEVGAIQGSQLAKELELVPITSEDRRINIGTKMGTEQKESLIKFLRQNADIFAWSHKDM 115
           E ++   + +   +ELELVP+ S +++++IGTK+G   +E LI FLR N+D+FAWSH+DM
Sbjct: 12  EADLPRRESAAPTEELELVPLLSPEKQVSIGTKLGATDREELIHFLRSNSDVFAWSHEDM 71

Query: 116 PRL 119
           P +
Sbjct: 72  PSI 74

[Close]

BLAST of Clc03G12970.1 vs. ExPASy TrEMBL
Match: A0A6J1D6M1 (Ribonuclease H OS=Momordica charantia OX=3673 GN=LOC111017809 PE=4 SV=1)

HSP 1 Score: 68.2 bits (165), Expect = 2.8e-08
Identity = 30/71 (42.25%), Postives = 46/71 (64.79%), Query Frame = 0


Query: 46  WNDQSPSNMREVEVGAIQGSQLAKELELVPITSEDRRINIGTKMGTEQKESLIKFLRQNA 105
           W+    S     +VG  +     +ELELVP+ S +R+++IGTK+G   +E  I FLR N+
Sbjct: 76  WDKSLESKADLPQVGKREFFATTEELELVPLLSPERQVSIGTKLGATDREEFINFLRTNS 135

Query: 106 DIFAWSHKDMP 117
           ++FAWSH++MP
Sbjct: 136 NVFAWSHENMP 146

The following BLAST results are available for this feature:

BLAST of Clc03G12970.1 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_022156571.1	8.5e-12	52.17	uncharacterized protein LOC111023448 [Momordica charantia]	[more]
XP_022156048.1	5.5e-11	46.84	uncharacterized protein LOC111023016 [Momordica charantia]	[more]
XP_022158042.1	2.1e-10	62.50	uncharacterized protein LOC111024621 [Momordica charantia]	[more]
XP_022136647.1	8.8e-09	46.03	uncharacterized protein LOC111008302 [Momordica charantia]	[more]
XP_022149378.1	5.7e-08	42.25	uncharacterized protein LOC111017809 [Momordica charantia]	[more]

BLAST of Clc03G12970.1 vs. NCBI nr


Match Name	E-value	Identity	Description

BLAST of Clc03G12970.1 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6J1DVC6	4.1e-12	52.17	Ribonuclease H OS=Momordica charantia OX=3673 GN=LOC111023448 PE=4 SV=1	[more]
A0A6J1DPJ5	2.7e-11	46.84	uncharacterized protein LOC111023016 OS=Momordica charantia OX=3673 GN=LOC111023...	[more]
A0A6J1DW49	1.0e-10	62.50	uncharacterized protein LOC111024621 OS=Momordica charantia OX=3673 GN=LOC111024...	[more]
A0A6J1C617	4.2e-09	46.03	Ribonuclease H OS=Momordica charantia OX=3673 GN=LOC111008302 PE=4 SV=1	[more]
A0A6J1D6M1	2.8e-08	42.25	Ribonuclease H OS=Momordica charantia OX=3673 GN=LOC111017809 PE=4 SV=1	[more]

BLAST of Clc03G12970.1 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description

Relationships

This mRNA is a part of the following gene feature(s):


Feature Name	Unique Name	Type
Clc03G12970	Clc03G12970	gene

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


Feature Name	Unique Name	Type
Clc03G12970.1-exon	Clc03G12970.1-exon-ClcChr03:21244282..21244647	exon

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


Feature Name	Unique Name	Type
Clc03G12970.1-cds	Clc03G12970.1-cds-ClcChr03:21244282..21244647	CDS

The following polypeptide feature(s) derives from this mRNA:


Feature Name	Unique Name	Type
Clc03G12970.1	Clc03G12970.1-protein	polypeptide

GO Annotation

GO Assignments

This mRNA is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0090304	nucleic acid metabolic process
molecular_function	GO:0003676	nucleic acid binding