CcUC06G122460.1 (mRNA) Watermelon (PI 537277) v1

Overview


Name	CcUC06G122460.1
Type	mRNA
Organism	Citrullus colocynthis (Watermelon (PI 537277) v1)
Description	DNA-directed RNA polymerase subunit beta
Location	CicolChr06: 24829471 .. 24830140 (+)
Sequence length	575
RNA-Seq Expression	CcUC06G122460.1
Synteny	CcUC06G122460.1

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonfive_prime_UTRCDSpolypeptidethree_prime_UTR

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

AAATCCGTATTGCCCACTTGTTCTCTGTCATTCATGAAAAAGGATGCGGCCGTAATTGAATTCCGCGAGCATTCATTTCAGTTTTCCATAATTGTCCAACCAGAGATAGACAATGGCGATGGTAGATTCAAGTTTTATCGTCATCCGTGTCTCCGCCGTACCTTATCCCCTCTCGAACAACAATAATGGCAGAAAATTCAGAATCACGTCGGCAAAACGTACACAAGATTCCGATTCAGATTATTCCACTTCATCAACACAAGCAAAGCAACTCAAATTTCCATCATTCAGAGTTTCAAATCCACTTCTCGCCCGATCTGTAGTCTCTATTCTCGGATTAGGGTTCGTCGACGCAGGGTATGAAAATTTTACTTCTAATTTCGATTGAGAATTGCTTTGTTTGTTGTTGTTTCCATTGAAATTGAAGTCGAATTAGGGTTTGGAATGATTAGGTACAGTGGAGATTGGTCTAGAATTGGAGCGATTACGAAGGAGAGCGAAGATTTGCTTAAGATTGGAGCTTTTTTGGTGGTTCCGTTTTGCGTATTTCTGGTTTTTTCTTTCTCGAAATTAGATTCGGATTCTTCGTGAGTGTACGGATAATGCATTTTGTAAACAGGTTAGAAATAATTGAAATTATGAACGGTAGGTAAGGTAAAGTTGTTTTTTT

mRNA sequence

AAATCCGTATTGCCCACTTGTTCTCTGTCATTCATGAAAAAGGATGCGGCCGTAATTGAATTCCGCGAGCATTCATTTCAGTTTTCCATAATTGTCCAACCAGAGATAGACAATGGCGATGGTAGATTCAAGTTTTATCGTCATCCGTGTCTCCGCCGTACCTTATCCCCTCTCGAACAACAATAATGGCAGAAAATTCAGAATCACGTCGGCAAAACGTACACAAGATTCCGATTCAGATTATTCCACTTCATCAACACAAGCAAAGCAACTCAAATTTCCATCATTCAGAGTTTCAAATCCACTTCTCGCCCGATCTGTAGTCTCTATTCTCGGATTAGGGTTCGTCGACGCAGGGTACAGTGGAGATTGGTCTAGAATTGGAGCGATTACGAAGGAGAGCGAAGATTTGCTTAAGATTGGAGCTTTTTTGGTGGTTCCGTTTTGCGTATTTCTGGTTTTTTCTTTCTCGAAATTAGATTCGGATTCTTCGTGAGTGTACGGATAATGCATTTTGTAAACAGGTTAGAAATAATTGAAATTATGAACGGTAGGTAAGGTAAAGTTGTTTTTTT

Coding sequence (CDS)

ATGGCGATGGTAGATTCAAGTTTTATCGTCATCCGTGTCTCCGCCGTACCTTATCCCCTCTCGAACAACAATAATGGCAGAAAATTCAGAATCACGTCGGCAAAACGTACACAAGATTCCGATTCAGATTATTCCACTTCATCAACACAAGCAAAGCAACTCAAATTTCCATCATTCAGAGTTTCAAATCCACTTCTCGCCCGATCTGTAGTCTCTATTCTCGGATTAGGGTTCGTCGACGCAGGGTACAGTGGAGATTGGTCTAGAATTGGAGCGATTACGAAGGAGAGCGAAGATTTGCTTAAGATTGGAGCTTTTTTGGTGGTTCCGTTTTGCGTATTTCTGGTTTTTTCTTTCTCGAAATTAGATTCGGATTCTTCGTGA

Protein sequence

MAMVDSSFIVIRVSAVPYPLSNNNNGRKFRITSAKRTQDSDSDYSTSSTQAKQLKFPSFRVSNPLLARSVVSILGLGFVDAGYSGDWSRIGAITKESEDLLKIGAFLVVPFCVFLVFSFSKLDSDSS

Homology

[Close]

BLAST of CcUC06G122460.1 vs. NCBI nr
Match: XP_004146667.1 (uncharacterized protein LOC101206545 [Cucumis sativus] >KGN65187.1 hypothetical protein Csa_020133 [Cucumis sativus])

HSP 1 Score: 206.5 bits (524), Expect = 1.4e-49
Identity = 110/127 (86.61%), Postives = 113/127 (88.98%), Query Frame = 0


Query: 1   MAMVDSSFIVIRVSAVPYPLSNNNNGRKFRITSAKRTQDSDSDYSTSSTQAKQLKFPSFR 60
           MAMVDSSFI I  S VP+PL NNNNGRKF ITSAKRTQDSDSD S SSTQ  Q KFPS R
Sbjct: 1   MAMVDSSFIFIGFSPVPHPLLNNNNGRKFGITSAKRTQDSDSD-SASSTQPNQFKFPSLR 60

Query: 61  VSNPLLARSVVSILGLGFVDAGYSGDWSRIGAITKESEDLLKIGAFLVVPFCVFLVFSFS 120
           VSNPLLARSVVS+LGLGFVDAGYSGDWSRIGAITKE+EDLLKIGA LVVPFCVFLVFSFS
Sbjct: 61  VSNPLLARSVVSVLGLGFVDAGYSGDWSRIGAITKETEDLLKIGALLVVPFCVFLVFSFS 120

Query: 121 KLDSDSS 128
           K DSDSS
Sbjct: 121 KYDSDSS 126

[Close]

BLAST of CcUC06G122460.1 vs. NCBI nr
Match: XP_008443827.1 (PREDICTED: uncharacterized protein LOC103487329 [Cucumis melo])

HSP 1 Score: 203.4 bits (516), Expect = 1.2e-48
Identity = 110/130 (84.62%), Postives = 115/130 (88.46%), Query Frame = 0


Query: 1   MAMVDSSFIVIRVSAVPYPLSN---NNNGRKFRITSAKRTQDSDSDYSTSSTQAKQLKFP 60
           MAMVDSSFI I +SAVP+PL N   NNNGRKF ITSAKRTQDSD   STSSTQ  Q KFP
Sbjct: 1   MAMVDSSFIFIGISAVPHPLLNNNKNNNGRKFGITSAKRTQDSD---STSSTQPNQFKFP 60

Query: 61  SFRVSNPLLARSVVSILGLGFVDAGYSGDWSRIGAITKESEDLLKIGAFLVVPFCVFLVF 120
           S RVSNPLLARSVVS+LGLGFVDAGYSGDWSRIGAITKE+E+LLKIGAFLVVPFCVFLVF
Sbjct: 61  SLRVSNPLLARSVVSVLGLGFVDAGYSGDWSRIGAITKETEELLKIGAFLVVPFCVFLVF 120

Query: 121 SFSKLDSDSS 128
           SFSK DSDSS
Sbjct: 121 SFSKFDSDSS 127

[Close]

BLAST of CcUC06G122460.1 vs. NCBI nr
Match: XP_038879768.1 (uncharacterized protein LOC120071517 [Benincasa hispida])

HSP 1 Score: 200.7 bits (509), Expect = 7.7e-48
Identity = 105/127 (82.68%), Postives = 114/127 (89.76%), Query Frame = 0


Query: 1   MAMVDSSFIVIRVSAVPYPLSNNNNGRKFRITSAKRTQDSDSDYSTSSTQAKQLKFPSFR 60
           MAMV+SSFI I VS VPYPLSNNN+ RKFRITSAK T+DSDSD     +++ QLKFPS R
Sbjct: 27  MAMVNSSFIFIGVSTVPYPLSNNNHSRKFRITSAKLTEDSDSD-----SKSSQLKFPSLR 86

Query: 61  VSNPLLARSVVSILGLGFVDAGYSGDWSRIGAITKESEDLLKIGAFLVVPFCVFLVFSFS 120
           VSNPLLARSVVS+LGLGFVDAGYSGDWSRIG ITKESE+LLKIGAFLVVPFCVFLVFSFS
Sbjct: 87  VSNPLLARSVVSVLGLGFVDAGYSGDWSRIGVITKESEELLKIGAFLVVPFCVFLVFSFS 146

Query: 121 KLDSDSS 128
           +LDSDSS
Sbjct: 147 RLDSDSS 148

[Close]

BLAST of CcUC06G122460.1 vs. NCBI nr
Match: XP_023531156.1 (uncharacterized protein LOC111793484 [Cucurbita pepo subsp. pepo])

HSP 1 Score: 171.4 bits (433), Expect = 5.0e-39
Identity = 96/128 (75.00%), Postives = 109/128 (85.16%), Query Frame = 0


Query: 1   MAMVDSSFIVIRVSAVPYP-LSNNNNGRKFRITSAKRTQDSDSDYSTSSTQAKQLKFPSF 60
           M + DS+FI   +SA+P+P L +NNN RKF  TSAKRT DSDSD S SST   QLKFPS 
Sbjct: 1   MPIADSTFIFTGLSALPHPLLLSNNNARKFGTTSAKRTGDSDSD-SISST---QLKFPSL 60

Query: 61  RVSNPLLARSVVSILGLGFVDAGYSGDWSRIGAITKESEDLLKIGAFLVVPFCVFLVFSF 120
           RV+NPLLARSVV++LGLGFVDAGYSGDWSRIGAITKE+EDLLKIGAFLVVPFCVFL+FSF
Sbjct: 61  RVANPLLARSVVAVLGLGFVDAGYSGDWSRIGAITKETEDLLKIGAFLVVPFCVFLIFSF 120

Query: 121 SKLDSDSS 128
           S+  +DSS
Sbjct: 121 SE-QTDSS 123

[Close]

BLAST of CcUC06G122460.1 vs. NCBI nr
Match: XP_022933449.1 (uncharacterized protein LOC111440861 [Cucurbita moschata] >KAG6587801.1 hypothetical protein SDJN03_16366, partial [Cucurbita argyrosperma subsp. sororia] >KAG7035696.1 hypothetical protein SDJN02_02494, partial [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 169.9 bits (429), Expect = 1.5e-38
Identity = 94/128 (73.44%), Postives = 106/128 (82.81%), Query Frame = 0


Query: 1   MAMVDSSFIVIRVSAVPYP-LSNNNNGRKFRITSAKRTQDSDSDYSTSSTQAKQLKFPSF 60
           M + DSSFI   +SA+P+P L +NNN RKF  TSAKRT DSDS  ST      QLKFPS 
Sbjct: 1   MPIADSSFIFTGLSALPHPLLLSNNNARKFGTTSAKRTGDSDSISST------QLKFPSL 60

Query: 61  RVSNPLLARSVVSILGLGFVDAGYSGDWSRIGAITKESEDLLKIGAFLVVPFCVFLVFSF 120
           RV+NPLLARSVV++LGLGFVDAGYSGDWSRIGAITKE+EDLLKIGAFLVVPFCVFL+FSF
Sbjct: 61  RVANPLLARSVVAVLGLGFVDAGYSGDWSRIGAITKETEDLLKIGAFLVVPFCVFLIFSF 120

Query: 121 SKLDSDSS 128
           S+  +DSS
Sbjct: 121 SE-QTDSS 121

[Close]

BLAST of CcUC06G122460.1 vs. ExPASy TrEMBL
Match: A0A0A0LWH4 (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_1G257930 PE=4 SV=1)

HSP 1 Score: 206.5 bits (524), Expect = 6.8e-50
Identity = 110/127 (86.61%), Postives = 113/127 (88.98%), Query Frame = 0


Query: 1   MAMVDSSFIVIRVSAVPYPLSNNNNGRKFRITSAKRTQDSDSDYSTSSTQAKQLKFPSFR 60
           MAMVDSSFI I  S VP+PL NNNNGRKF ITSAKRTQDSDSD S SSTQ  Q KFPS R
Sbjct: 1   MAMVDSSFIFIGFSPVPHPLLNNNNGRKFGITSAKRTQDSDSD-SASSTQPNQFKFPSLR 60

Query: 61  VSNPLLARSVVSILGLGFVDAGYSGDWSRIGAITKESEDLLKIGAFLVVPFCVFLVFSFS 120
           VSNPLLARSVVS+LGLGFVDAGYSGDWSRIGAITKE+EDLLKIGA LVVPFCVFLVFSFS
Sbjct: 61  VSNPLLARSVVSVLGLGFVDAGYSGDWSRIGAITKETEDLLKIGALLVVPFCVFLVFSFS 120

Query: 121 KLDSDSS 128
           K DSDSS
Sbjct: 121 KYDSDSS 126

[Close]

BLAST of CcUC06G122460.1 vs. ExPASy TrEMBL
Match: A0A1S3B903 (uncharacterized protein LOC103487329 OS=Cucumis melo OX=3656 GN=LOC103487329 PE=4 SV=1)

HSP 1 Score: 203.4 bits (516), Expect = 5.7e-49
Identity = 110/130 (84.62%), Postives = 115/130 (88.46%), Query Frame = 0


Query: 1   MAMVDSSFIVIRVSAVPYPLSN---NNNGRKFRITSAKRTQDSDSDYSTSSTQAKQLKFP 60
           MAMVDSSFI I +SAVP+PL N   NNNGRKF ITSAKRTQDSD   STSSTQ  Q KFP
Sbjct: 1   MAMVDSSFIFIGISAVPHPLLNNNKNNNGRKFGITSAKRTQDSD---STSSTQPNQFKFP 60

Query: 61  SFRVSNPLLARSVVSILGLGFVDAGYSGDWSRIGAITKESEDLLKIGAFLVVPFCVFLVF 120
           S RVSNPLLARSVVS+LGLGFVDAGYSGDWSRIGAITKE+E+LLKIGAFLVVPFCVFLVF
Sbjct: 61  SLRVSNPLLARSVVSVLGLGFVDAGYSGDWSRIGAITKETEELLKIGAFLVVPFCVFLVF 120

Query: 121 SFSKLDSDSS 128
           SFSK DSDSS
Sbjct: 121 SFSKFDSDSS 127

[Close]

BLAST of CcUC06G122460.1 vs. ExPASy TrEMBL
Match: A0A6J1EZT4 (uncharacterized protein LOC111440861 OS=Cucurbita moschata OX=3662 GN=LOC111440861 PE=4 SV=1)

HSP 1 Score: 169.9 bits (429), Expect = 7.0e-39
Identity = 94/128 (73.44%), Postives = 106/128 (82.81%), Query Frame = 0


Query: 1   MAMVDSSFIVIRVSAVPYP-LSNNNNGRKFRITSAKRTQDSDSDYSTSSTQAKQLKFPSF 60
           M + DSSFI   +SA+P+P L +NNN RKF  TSAKRT DSDS  ST      QLKFPS 
Sbjct: 1   MPIADSSFIFTGLSALPHPLLLSNNNARKFGTTSAKRTGDSDSISST------QLKFPSL 60

Query: 61  RVSNPLLARSVVSILGLGFVDAGYSGDWSRIGAITKESEDLLKIGAFLVVPFCVFLVFSF 120
           RV+NPLLARSVV++LGLGFVDAGYSGDWSRIGAITKE+EDLLKIGAFLVVPFCVFL+FSF
Sbjct: 61  RVANPLLARSVVAVLGLGFVDAGYSGDWSRIGAITKETEDLLKIGAFLVVPFCVFLIFSF 120

Query: 121 SKLDSDSS 128
           S+  +DSS
Sbjct: 121 SE-QTDSS 121

[Close]

BLAST of CcUC06G122460.1 vs. ExPASy TrEMBL
Match: A0A6J1KT82 (uncharacterized protein LOC111498016 OS=Cucurbita maxima OX=3661 GN=LOC111498016 PE=4 SV=1)

HSP 1 Score: 169.5 bits (428), Expect = 9.2e-39
Identity = 94/128 (73.44%), Postives = 105/128 (82.03%), Query Frame = 0


Query: 1   MAMVDSSFIVIRVSAVPYPL-SNNNNGRKFRITSAKRTQDSDSDYSTSSTQAKQLKFPSF 60
           M + DSSFI   +SA+P+PL  +NNN RKF  TSAKRT DSDS  ST      QLKFPS 
Sbjct: 1   MPIADSSFIFTGLSALPHPLILSNNNARKFGTTSAKRTGDSDSISST------QLKFPSL 60

Query: 61  RVSNPLLARSVVSILGLGFVDAGYSGDWSRIGAITKESEDLLKIGAFLVVPFCVFLVFSF 120
           RVSNPLLARSVV++LGLGFVDAGYSGDWSRIGAITKE+ED LKIGAFLVVPFCVFL+FSF
Sbjct: 61  RVSNPLLARSVVAVLGLGFVDAGYSGDWSRIGAITKETEDFLKIGAFLVVPFCVFLIFSF 120

Query: 121 SKLDSDSS 128
           S+  +DSS
Sbjct: 121 SE-QTDSS 121

[Close]

BLAST of CcUC06G122460.1 vs. ExPASy TrEMBL
Match: A0A6J1C0R6 (uncharacterized protein LOC111007301 OS=Momordica charantia OX=3673 GN=LOC111007301 PE=4 SV=1)

HSP 1 Score: 152.9 bits (385), Expect = 8.9e-34
Identity = 86/125 (68.80%), Postives = 94/125 (75.20%), Query Frame = 0


Query: 3   MVDSSFIVIRVSAVPYPLSNNNNGRKFRITSAKRTQDSDSDYSTSSTQAKQLKFPSFRVS 62
           M DS+FI    SAV   L N NN R FR   AKRT DS    +T S Q  Q +FPS RV 
Sbjct: 1   MADSTFIFSGPSAVSRSLFNVNNRRNFRTALAKRTDDST---ATKSNQENQFEFPSLRVP 60

Query: 63  NPLLARSVVSILGLGFVDAGYSGDWSRIGAITKESEDLLKIGAFLVVPFCVFLVFSFSKL 122
           NPL+AR VVS+LGLGFVDAGYSGDWSRIGAITKESEDLLKIGAFLVVPFCVFL+ SF+K 
Sbjct: 61  NPLVARFVVSVLGLGFVDAGYSGDWSRIGAITKESEDLLKIGAFLVVPFCVFLISSFAK- 120

Query: 123 DSDSS 128
            +DSS
Sbjct: 121 QTDSS 121

[Close]

BLAST of CcUC06G122460.1 vs. TAIR 10
Match: AT4G30845.1 (unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: chloroplast; Has 16 Blast hits to 16 proteins in 8 species: Archae - 0; Bacteria - 0; Metazoa - 0; Fungi - 0; Plants - 16; Viruses - 0; Other Eukaryotes - 0 (source: NCBI BLink). )

HSP 1 Score: 93.2 bits (230), Expect = 1.6e-19
Identity = 49/104 (47.12%), Postives = 67/104 (64.42%), Query Frame = 0


Query: 22  NNNNGRKFRITSAKRTQDSDSDYSTSSTQAKQLKFPSFRVSNPLLARSVVSILGLGFVDA 81
           N+N  R F   +         D+S  S + + +     +V N ++ARS +++L LGF+DA
Sbjct: 15  NDNKLRSF--ANGVTIMSKRRDFSEKSNEERPIL--RIKVPNTIVARSAIAVLSLGFIDA 74

Query: 82  GYSGDWSRIGAITKESEDLLKIGAFLVVPFCVFLVFSFSKLDSD 126
           GYSGDWSRIG I+KE+E+LLKI AFLVVP C+FL  SFS   +D
Sbjct: 75  GYSGDWSRIGVISKETEELLKIAAFLVVPLCIFLALSFSNDSTD 114

The following BLAST results are available for this feature:

BLAST of CcUC06G122460.1 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_004146667.1	1.4e-49	86.61	uncharacterized protein LOC101206545 [Cucumis sativus] >KGN65187.1 hypothetical ...	[more]
XP_008443827.1	1.2e-48	84.62	PREDICTED: uncharacterized protein LOC103487329 [Cucumis melo]	[more]
XP_038879768.1	7.7e-48	82.68	uncharacterized protein LOC120071517 [Benincasa hispida]	[more]
XP_023531156.1	5.0e-39	75.00	uncharacterized protein LOC111793484 [Cucurbita pepo subsp. pepo]	[more]
XP_022933449.1	1.5e-38	73.44	uncharacterized protein LOC111440861 [Cucurbita moschata] >KAG6587801.1 hypothet...	[more]

BLAST of CcUC06G122460.1 vs. NCBI nr


Match Name	E-value	Identity	Description

BLAST of CcUC06G122460.1 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A0A0LWH4	6.8e-50	86.61	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_1G257930 PE=4 SV=1	[more]
A0A1S3B903	5.7e-49	84.62	uncharacterized protein LOC103487329 OS=Cucumis melo OX=3656 GN=LOC103487329 PE=...	[more]
A0A6J1EZT4	7.0e-39	73.44	uncharacterized protein LOC111440861 OS=Cucurbita moschata OX=3662 GN=LOC1114408...	[more]
A0A6J1KT82	9.2e-39	73.44	uncharacterized protein LOC111498016 OS=Cucurbita maxima OX=3661 GN=LOC111498016...	[more]
A0A6J1C0R6	8.9e-34	68.80	uncharacterized protein LOC111007301 OS=Momordica charantia OX=3673 GN=LOC111007...	[more]

BLAST of CcUC06G122460.1 vs. TAIR 10


Match Name	E-value	Identity	Description
AT4G30845.1	1.6e-19	47.12	unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biologic...	[more]

InterPro

Analysis Name: InterPro Annotations of Watermelon (PI 537277) v1
Date Performed: 2022-01-31

Position :

Zoom :

x 1


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	PANTHER	PTHR38389	DNA-DIRECTED RNA POLYMERASE SUBUNIT BETA	coord: 1..124

Relationships

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


Feature Name	Unique Name	Type
CcUC06G122460	CcUC06G122460	gene

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


Feature Name	Unique Name	Type
CcUC06G122460.1-exon	CcUC06G122460.1-exon-CicolChr06:24829471..24829827	exon
CcUC06G122460.1-exon	CcUC06G122460.1-exon-CicolChr06:24829923..24830140	exon

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


Feature Name	Unique Name	Type
CcUC06G122460.1-five_prime_utr	CcUC06G122460.1-five_prime_utr-CicolChr06:24829471..24829582	five_prime_UTR

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


Feature Name	Unique Name	Type
CcUC06G122460.1-cds	CcUC06G122460.1-cds-CicolChr06:24829583..24829827	CDS
CcUC06G122460.1-cds	CcUC06G122460.1-cds-CicolChr06:24829923..24830061	CDS

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


Feature Name	Unique Name	Type
CcUC06G122460.1-three_prime_utr	CcUC06G122460.1-three_prime_utr-CicolChr06:24830062..24830140	three_prime_UTR

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


Feature Name	Unique Name	Type
CcUC06G122460.1	CcUC06G122460.1-protein	polypeptide

GO Annotation

GO Assignments

This mRNA is annotated with the following GO terms.

Category	Term Accession	Term Name
cellular_component	GO:0016021	integral component of membrane