ClCG01G004820 (gene) Watermelon (Charleston Gray) v2.5

Overview


Name	ClCG01G004820
Type	gene
Organism	Citrullus lanatus subsp. vulgaris cv. Charleston Gray (Watermelon (Charleston Gray) v2.5)
Description	U6 snRNA phosphodiesterase
Location	CG_Chr01: 5112142 .. 5112513 (+)
RNA-Seq Expression	ClCG01G004820
Synteny	ClCG01G004820

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.

ATGGATGCTCTGAGGGTTTCGTATGGAGGAAGCTCATCAGATGAAGAAGTGGATACAGTCTCCCCTTCATCAGGATCAACGTCAACATCAACATCAACACCACAACCCTTCGATGAGATTGTGAGCTTTTTACCTCTGCCTCCACCACCTCTCTCACTTCTCCATTTTCCAAATTCCTCCTGTAGTGCCCTTTTTCCTCCTTACATTTGCATTCTTTATTTTTTTCTCTTTGTAACATTGCTCATCAACTCTTTCACTATTTCTTGTTTAGCTGTTTTGGATGAGTTGCCAATTGATCAAGTGACTAGGGTTCGAAGCTTTCCTCATGTTCAAGGAAACTATGCCCTACACCTTTACATCCCAGGTATGTGA

mRNA sequence

ATGGATGCTCTGAGGGTTTCGTATGGAGGAAGCTCATCAGATGAAGAAGTGGATACAGTCTCCCCTTCATCAGGATCAACGTCAACATCAACATCAACACCACAACCCTTCGATGAGATTGTGAGCTTTTTACCTCTGCCTCCACCACCTCTCTCACTTCTCCATTTTCCAAATTCCTCCTGTAGTGCCCTTTTTCCTCCTTACATTTGCATTCTTTATTTTTTTCTCTTTGTAACATTGCTCATCAACTCTTTCACTATTTCTTGTTTAGCTGTTTTGGATGAGTTGCCAATTGATCAAGTGACTAGGGTTCGAAGCTTTCCTCATGTTCAAGGAAACTATGCCCTACACCTTTACATCCCAGGTATGTGA

Coding sequence (CDS)

ATGGATGCTCTGAGGGTTTCGTATGGAGGAAGCTCATCAGATGAAGAAGTGGATACAGTCTCCCCTTCATCAGGATCAACGTCAACATCAACATCAACACCACAACCCTTCGATGAGATTGTGAGCTTTTTACCTCTGCCTCCACCACCTCTCTCACTTCTCCATTTTCCAAATTCCTCCTGTAGTGCCCTTTTTCCTCCTTACATTTGCATTCTTTATTTTTTTCTCTTTGTAACATTGCTCATCAACTCTTTCACTATTTCTTGTTTAGCTGTTTTGGATGAGTTGCCAATTGATCAAGTGACTAGGGTTCGAAGCTTTCCTCATGTTCAAGGAAACTATGCCCTACACCTTTACATCCCAGGTATGTGA

Protein sequence

MDALRVSYGGSSSDEEVDTVSPSSGSTSTSTSTPQPFDEIVSFLPLPPPPLSLLHFPNSSCSALFPPYICILYFFLFVTLLINSFTISCLAVLDELPIDQVTRVRSFPHVQGNYALHLYIPGM

Homology

[Close]

BLAST of ClCG01G004820 vs. NCBI nr
Match: XP_008467330.1 (PREDICTED: U6 snRNA phosphodiesterase [Cucumis melo])

HSP 1 Score: 132.1 bits (331), Expect = 3.3e-27
Identity = 77/121 (63.64%), Postives = 81/121 (66.94%), Query Frame = 0


Query: 1   MDALRVSYGGSSSDEEVDTVSPSSGSTSTSTSTPQPFDEIVSFLPLPPPPLSLLHFPNSS 60
           MDALR SYGGSSSDEEVDTVSPS    S STSTPQ FDE VS LPLPPPPLSLL+FPNS+
Sbjct: 1   MDALRASYGGSSSDEEVDTVSPS----SASTSTPQFFDETVSSLPLPPPPLSLLNFPNST 60

Query: 61  CSALFPPYICILYFFLFVTLLINSFTISCLAVLDELPIDQVTRVRSFPHVQGNYALHLYI 120
           C                              VLD+LPIDQ TRVRSFPHVQGNYALH+YI
Sbjct: 61  C------------------------------VLDDLPIDQATRVRSFPHVQGNYALHVYI 87

Query: 121 P 122
           P
Sbjct: 121 P 87

[Close]

BLAST of ClCG01G004820 vs. NCBI nr
Match: KAA0055091.1 (U6 snRNA phosphodiesterase [Cucumis melo var. makuwa])

HSP 1 Score: 132.1 bits (331), Expect = 3.3e-27
Identity = 77/121 (63.64%), Postives = 81/121 (66.94%), Query Frame = 0


Query: 1   MDALRVSYGGSSSDEEVDTVSPSSGSTSTSTSTPQPFDEIVSFLPLPPPPLSLLHFPNSS 60
           MDALR SYGGSSSDEEVDTVSPS    S STSTPQ FDE VS LPLPPPPLSLL+FPNS+
Sbjct: 1   MDALRASYGGSSSDEEVDTVSPS----SASTSTPQFFDETVSSLPLPPPPLSLLNFPNST 60

Query: 61  CSALFPPYICILYFFLFVTLLINSFTISCLAVLDELPIDQVTRVRSFPHVQGNYALHLYI 120
           C                              VLD+LPIDQ TRVRSFPHVQGNYALH+YI
Sbjct: 61  C------------------------------VLDDLPIDQATRVRSFPHVQGNYALHVYI 87

Query: 121 P 122
           P
Sbjct: 121 P 87

[Close]

BLAST of ClCG01G004820 vs. NCBI nr
Match: XP_004143673.1 (U6 snRNA phosphodiesterase [Cucumis sativus] >KGN50332.1 hypothetical protein Csa_000253 [Cucumis sativus])

HSP 1 Score: 128.3 bits (321), Expect = 4.7e-26
Identity = 74/121 (61.16%), Postives = 79/121 (65.29%), Query Frame = 0


Query: 1   MDALRVSYGGSSSDEEVDTVSPSSGSTSTSTSTPQPFDEIVSFLPLPPPPLSLLHFPNSS 60
           MDALR SYGGSSSDEEVDTVSP     S STS PQ  DE V+FLPLPPPPLSLL+FPNS+
Sbjct: 1   MDALRASYGGSSSDEEVDTVSP----PSASTSAPQFLDETVTFLPLPPPPLSLLNFPNST 60

Query: 61  CSALFPPYICILYFFLFVTLLINSFTISCLAVLDELPIDQVTRVRSFPHVQGNYALHLYI 120
           C                              VLD+LPIDQ TRVRSFPHVQGNYALH+YI
Sbjct: 61  C------------------------------VLDDLPIDQATRVRSFPHVQGNYALHVYI 87

Query: 121 P 122
           P
Sbjct: 121 P 87

[Close]

BLAST of ClCG01G004820 vs. NCBI nr
Match: XP_038875355.1 (U6 snRNA phosphodiesterase isoform X2 [Benincasa hispida])

HSP 1 Score: 127.9 bits (320), Expect = 6.1e-26
Identity = 75/121 (61.98%), Postives = 79/121 (65.29%), Query Frame = 0


Query: 1   MDALRVSYGGSSSDEEVDTVSPSSGSTSTSTSTPQPFDEIVSFLPLPPPPLSLLHFPNSS 60
           MDALR SYGGSSSDEE DTVSPS  S STS STPQ  DE VSFLPLPPP  SLLHFPNS+
Sbjct: 1   MDALRASYGGSSSDEEADTVSPS--SASTSASTPQLSDETVSFLPLPPPSPSLLHFPNST 60

Query: 61  CSALFPPYICILYFFLFVTLLINSFTISCLAVLDELPIDQVTRVRSFPHVQGNYALHLYI 120
                                         ++LD+LPIDQ TRVRSFPHVQGNYALHLYI
Sbjct: 61  ------------------------------SILDDLPIDQATRVRSFPHVQGNYALHLYI 89

Query: 121 P 122
           P
Sbjct: 121 P 89

[Close]

BLAST of ClCG01G004820 vs. NCBI nr
Match: XP_038875354.1 (U6 snRNA phosphodiesterase isoform X1 [Benincasa hispida])

HSP 1 Score: 127.9 bits (320), Expect = 6.1e-26
Identity = 75/121 (61.98%), Postives = 79/121 (65.29%), Query Frame = 0


Query: 1   MDALRVSYGGSSSDEEVDTVSPSSGSTSTSTSTPQPFDEIVSFLPLPPPPLSLLHFPNSS 60
           MDALR SYGGSSSDEE DTVSPS  S STS STPQ  DE VSFLPLPPP  SLLHFPNS+
Sbjct: 1   MDALRASYGGSSSDEEADTVSPS--SASTSASTPQLSDETVSFLPLPPPSPSLLHFPNST 60

Query: 61  CSALFPPYICILYFFLFVTLLINSFTISCLAVLDELPIDQVTRVRSFPHVQGNYALHLYI 120
                                         ++LD+LPIDQ TRVRSFPHVQGNYALHLYI
Sbjct: 61  ------------------------------SILDDLPIDQATRVRSFPHVQGNYALHLYI 89

Query: 121 P 122
           P
Sbjct: 121 P 89

[Close]

BLAST of ClCG01G004820 vs. ExPASy TrEMBL
Match: A0A5A7UND6 (U6 snRNA phosphodiesterase OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold231G00170 PE=4 SV=1)

HSP 1 Score: 132.1 bits (331), Expect = 1.6e-27
Identity = 77/121 (63.64%), Postives = 81/121 (66.94%), Query Frame = 0


Query: 1   MDALRVSYGGSSSDEEVDTVSPSSGSTSTSTSTPQPFDEIVSFLPLPPPPLSLLHFPNSS 60
           MDALR SYGGSSSDEEVDTVSPS    S STSTPQ FDE VS LPLPPPPLSLL+FPNS+
Sbjct: 1   MDALRASYGGSSSDEEVDTVSPS----SASTSTPQFFDETVSSLPLPPPPLSLLNFPNST 60

Query: 61  CSALFPPYICILYFFLFVTLLINSFTISCLAVLDELPIDQVTRVRSFPHVQGNYALHLYI 120
           C                              VLD+LPIDQ TRVRSFPHVQGNYALH+YI
Sbjct: 61  C------------------------------VLDDLPIDQATRVRSFPHVQGNYALHVYI 87

Query: 121 P 122
           P
Sbjct: 121 P 87

[Close]

BLAST of ClCG01G004820 vs. ExPASy TrEMBL
Match: A0A1S3CTB0 (U6 snRNA phosphodiesterase OS=Cucumis melo OX=3656 GN=LOC103504707 PE=3 SV=1)

HSP 1 Score: 132.1 bits (331), Expect = 1.6e-27
Identity = 77/121 (63.64%), Postives = 81/121 (66.94%), Query Frame = 0


Query: 1   MDALRVSYGGSSSDEEVDTVSPSSGSTSTSTSTPQPFDEIVSFLPLPPPPLSLLHFPNSS 60
           MDALR SYGGSSSDEEVDTVSPS    S STSTPQ FDE VS LPLPPPPLSLL+FPNS+
Sbjct: 1   MDALRASYGGSSSDEEVDTVSPS----SASTSTPQFFDETVSSLPLPPPPLSLLNFPNST 60

Query: 61  CSALFPPYICILYFFLFVTLLINSFTISCLAVLDELPIDQVTRVRSFPHVQGNYALHLYI 120
           C                              VLD+LPIDQ TRVRSFPHVQGNYALH+YI
Sbjct: 61  C------------------------------VLDDLPIDQATRVRSFPHVQGNYALHVYI 87

Query: 121 P 122
           P
Sbjct: 121 P 87

[Close]

BLAST of ClCG01G004820 vs. ExPASy TrEMBL
Match: A0A0A0KPH5 (U6 snRNA phosphodiesterase OS=Cucumis sativus OX=3659 GN=Csa_5G167730 PE=3 SV=1)

HSP 1 Score: 128.3 bits (321), Expect = 2.3e-26
Identity = 74/121 (61.16%), Postives = 79/121 (65.29%), Query Frame = 0


Query: 1   MDALRVSYGGSSSDEEVDTVSPSSGSTSTSTSTPQPFDEIVSFLPLPPPPLSLLHFPNSS 60
           MDALR SYGGSSSDEEVDTVSP     S STS PQ  DE V+FLPLPPPPLSLL+FPNS+
Sbjct: 1   MDALRASYGGSSSDEEVDTVSP----PSASTSAPQFLDETVTFLPLPPPPLSLLNFPNST 60

Query: 61  CSALFPPYICILYFFLFVTLLINSFTISCLAVLDELPIDQVTRVRSFPHVQGNYALHLYI 120
           C                              VLD+LPIDQ TRVRSFPHVQGNYALH+YI
Sbjct: 61  C------------------------------VLDDLPIDQATRVRSFPHVQGNYALHVYI 87

Query: 121 P 122
           P
Sbjct: 121 P 87

[Close]

BLAST of ClCG01G004820 vs. ExPASy TrEMBL
Match: A0A6J1EQH7 (U6 snRNA phosphodiesterase OS=Cucurbita moschata OX=3662 GN=LOC111435686 PE=3 SV=1)

HSP 1 Score: 114.4 bits (285), Expect = 3.4e-22
Identity = 69/121 (57.02%), Postives = 74/121 (61.16%), Query Frame = 0


Query: 1   MDALRVSYGGSSSDEEVDTVSPSSGSTSTSTSTPQPFDEIVSFLPLPPPPLSLLHFPNSS 60
           M+AL  SYGGSSSDE+VDTVSPS  S S S S PQ  DE  SFLPLPPPPLSLL FPNS+
Sbjct: 1   MEALMASYGGSSSDEDVDTVSPS--SASASASLPQLSDETESFLPLPPPPLSLLDFPNST 60

Query: 61  CSALFPPYICILYFFLFVTLLINSFTISCLAVLDELPIDQVTRVRSFPHVQGNYALHLYI 120
                                         + LD+LPI Q  RVRSFPHVQGNYALHLYI
Sbjct: 61  ------------------------------SALDDLPIGQAARVRSFPHVQGNYALHLYI 89

Query: 121 P 122
           P
Sbjct: 121 P 89

[Close]

BLAST of ClCG01G004820 vs. ExPASy TrEMBL
Match: A0A6J1HYN3 (U6 snRNA phosphodiesterase OS=Cucurbita maxima OX=3661 GN=LOC111468846 PE=3 SV=1)

HSP 1 Score: 112.1 bits (279), Expect = 1.7e-21
Identity = 68/125 (54.40%), Postives = 74/125 (59.20%), Query Frame = 0


Query: 1   MDALRVSYGGSSSDEEVDTVSPSSGSTSTSTST----PQPFDEIVSFLPLPPPPLSLLHF 60
           M+AL  SYGGSSSDE+ DTVSPSS S S S S     PQ  DE  SFLPLPPPPLSLL F
Sbjct: 1   MEALMASYGGSSSDEDADTVSPSSASASASASASASLPQLSDETESFLPLPPPPLSLLDF 60

Query: 61  PNSSCSALFPPYICILYFFLFVTLLINSFTISCLAVLDELPIDQVTRVRSFPHVQGNYAL 120
           PNS+                              + LD+LPI Q  RVRSFPHVQGNYA+
Sbjct: 61  PNST------------------------------SALDDLPIGQAARVRSFPHVQGNYAV 95

Query: 121 HLYIP 122
           HLYIP
Sbjct: 121 HLYIP 95

[Close]

BLAST of ClCG01G004820 vs. TAIR 10
Match: AT5G51170.1 (unknown protein; CONTAINS InterPro DOMAIN/s: Uncharacterised protein family UPF0406 (InterPro:IPR019146); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink). )

HSP 1 Score: 58.5 bits (140), Expect = 4.3e-09
Identity = 43/121 (35.54%), Postives = 55/121 (45.45%), Query Frame = 0


Query: 1   MDALRVSYGGSSSDEEVDTVSPSSGSTSTSTSTPQPFDEIVSFLPLPPPPLSLLHFPNSS 60
           M+ALR SYG SSSD + D +SP+S  T+ S             + LPPPPL+LL      
Sbjct: 1   MEALRASYGDSSSDSDTDDLSPASPVTANSGEKDS--------ISLPPPPLALLD----- 60

Query: 61  CSALFPPYICILYFFLFVTLLINSFTISCLAVLDELPIDQVTRVRSFPHVQGNYALHLYI 120
                                    +I     LD    +   RVR+FPHV GNYALH+Y+
Sbjct: 61  -------------------------SIVSTGSLDFFSTEPGVRVRNFPHVDGNYALHVYV 83

Query: 121 P 122
           P
Sbjct: 121 P 83

[Close]

BLAST of ClCG01G004820 vs. TAIR 10
Match: AT5G51170.2 (unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: Uncharacterised protein family UPF0406 (InterPro:IPR019146); Has 166 Blast hits to 166 proteins in 77 species: Archae - 0; Bacteria - 0; Metazoa - 100; Fungi - 19; Plants - 35; Viruses - 0; Other Eukaryotes - 12 (source: NCBI BLink). )

HSP 1 Score: 58.5 bits (140), Expect = 4.3e-09
Identity = 43/121 (35.54%), Postives = 55/121 (45.45%), Query Frame = 0


Query: 1   MDALRVSYGGSSSDEEVDTVSPSSGSTSTSTSTPQPFDEIVSFLPLPPPPLSLLHFPNSS 60
           M+ALR SYG SSSD + D +SP+S  T+ S             + LPPPPL+LL      
Sbjct: 1   MEALRASYGDSSSDSDTDDLSPASPVTANSGEKDS--------ISLPPPPLALLD----- 60

Query: 61  CSALFPPYICILYFFLFVTLLINSFTISCLAVLDELPIDQVTRVRSFPHVQGNYALHLYI 120
                                    +I     LD    +   RVR+FPHV GNYALH+Y+
Sbjct: 61  -------------------------SIVSTGSLDFFSTEPGVRVRNFPHVDGNYALHVYV 83

Query: 121 P 122
           P
Sbjct: 121 P 83

The following BLAST results are available for this feature:

BLAST of ClCG01G004820 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_008467330.1	3.3e-27	63.64	PREDICTED: U6 snRNA phosphodiesterase [Cucumis melo]	[more]
KAA0055091.1	3.3e-27	63.64	U6 snRNA phosphodiesterase [Cucumis melo var. makuwa]	[more]
XP_004143673.1	4.7e-26	61.16	U6 snRNA phosphodiesterase [Cucumis sativus] >KGN50332.1 hypothetical protein Cs...	[more]
XP_038875355.1	6.1e-26	61.98	U6 snRNA phosphodiesterase isoform X2 [Benincasa hispida]	[more]
XP_038875354.1	6.1e-26	61.98	U6 snRNA phosphodiesterase isoform X1 [Benincasa hispida]	[more]

BLAST of ClCG01G004820 vs. NCBI nr


Match Name	E-value	Identity	Description

BLAST of ClCG01G004820 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A5A7UND6	1.6e-27	63.64	U6 snRNA phosphodiesterase OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaff...	[more]
A0A1S3CTB0	1.6e-27	63.64	U6 snRNA phosphodiesterase OS=Cucumis melo OX=3656 GN=LOC103504707 PE=3 SV=1	[more]
A0A0A0KPH5	2.3e-26	61.16	U6 snRNA phosphodiesterase OS=Cucumis sativus OX=3659 GN=Csa_5G167730 PE=3 SV=1	[more]
A0A6J1EQH7	3.4e-22	57.02	U6 snRNA phosphodiesterase OS=Cucurbita moschata OX=3662 GN=LOC111435686 PE=3 SV...	[more]
A0A6J1HYN3	1.7e-21	54.40	U6 snRNA phosphodiesterase OS=Cucurbita maxima OX=3661 GN=LOC111468846 PE=3 SV=1	[more]

BLAST of ClCG01G004820 vs. TAIR 10


Match Name	E-value	Identity	Description
AT5G51170.1	4.3e-09	35.54	unknown protein; CONTAINS InterPro DOMAIN/s: Uncharacterised protein family UPF0...	[more]
AT5G51170.2	4.3e-09	35.54	unknown protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biologic...	[more]

InterPro

Analysis Name: InterPro Annotations of Watermelon (Charleston Gray) v2.5
Date Performed: 2022-01-31


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 1..36
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 12..36

Relationships

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


Feature Name	Unique Name	Type
ClCG01G004820.2	ClCG01G004820.2	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0016070	RNA metabolic process
molecular_function	GO:0000175	3'-5'-exoribonuclease activity