Cla012979.1 (mRNA) Watermelon (97103) v1 | Cucurbit Genomics Database (CuGenDB)

Overview


Name	Cla012979
Type	mRNA
Organism	Citrullus. lanatus (Watermelon (97103) v1)
Description	Cleavage and polyadenylation specificity factor subunit 3 (AHRD V1 **-- B0WXD2_CULQU)
Location	Chr9 : 22156826 .. 22158592 (-)
Sequence length	201

Genome Viewer

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.

ATGAAAAACGTCAAACGTAGGCTTGCAAGGTATGCCAAATGTTACTTGCTCATTGAACATGTGCAAATATACTTCAAATATTTGCTATGCTTAACCAACACATATAGTAATGCTAAATTAACTCCAAGGCAACAAATCAATCAACATATTTAGCTGCAATGCGTACTGAACATGTCAATCAACCTCTTAGCTCATACAAGCCTTGATCTTCAATGAATATAAGTTTGGAAGGCCAAAATACAACATAAGAGAAATGAAATATAGAGAAAATAGAGGGGAAGTGGAGAGGAGGCTAAAGATTTCTTGGTGTTGGGGTGTTCTTTCATCTAATGTCGAAGGGTCTCTTTTATAGAGTCTCGAGAGCACTATGGCGCTAAGGATGGCTCTGTGGCACTATCCCTTTCCTTAAATTTCTTTTTTCTTTATTTGCAGCAGTGCTGCAATGCTCTTGGTAGTGCCGCAGTTCTAAGGGACAACACCGCGACGCTTCTTGAAACTTCAGCTACTGCCTTCAATGCCATGGATGGTGCTACACGGTGCTGTGGCAAAGGTGCATCCACGGTCATTTTCTCCTTCATTTGACCTAGTTTCCTCTTTTGGGCTTTACGCTTTAGTTTCAATTAAGCTTGGTTTTTGTCCAAATCTCAATTCTACCACCTTATTGCCGGAGACCTACAGAATCATCAAATAAACACATAAAGTACACAAACAAACTTGAATTAAACTGAGTCAGATAGTACATTTTAGGTGTTATCATTGGTCTTCTAGTGAAATAAAGGAGAGTTTCCTGTTGGCTGTTCCTGATGGTTTTTCATTGGTATGGCACTTTAGCATTTGTGTTCACTGCAAAAATATTTTTATTGTTAATCTTCCAATATTTGTCTTCTGCAGGTCTACATATGCAACAACCATACGTGATTCTAAATATGGCCGTGAGAGAGAATTTCTTAAAGCTGTATGTATAAATTAATTAATAAAATTATTTTCCCGGATTTGCCTTTTCTGCGCCTTCAAGGTTTTTTTAGAAATTGGATAAGTTGATTTTTCATTCATGTTATGCGTTCTGGTATAATAATAATTCAGGAGCCAGGAGGACATCATTAAGGTATATTGAAGTTGCATCATGTTCCAAGTACAACTTGGCATATTGGTGATATTAGGGATAGACTTCAGAATGATATATTTTATGTCCCTCGGTGAAGAAAAGAAAATATTCTGTTTTGTTTTAGGGTTTATTTTGTGATGGTTCAAGACTGTAGGTTGGTTGATGCCTTTTTGTGTAGGATATTGCATGTCATAGCTGTAGACTAACTAATCATAGTTGAGGACTGTGATATAATATAGAAACTGGTTACGACTTATGAGTGGCTATTGAGCATTGGTTGGTGACTTAAATCCGTCATAAACTCTTAATTGTTCAAGAGATACTGAATTATTTTAACTTTAAAATTTATAACTTATAGCAATGGAATTATTTGAAACATGATCGTTTTCCCGAATGATTTGATATAGGTTCATAATTGTGTGGCTAGTGGAGGGAAGGTCCTTATTCCTACTTTTGCACTTGGACGGGCTCAGGTACTTTACTGAATATTGGGTGTGGCTTTTAAATCTTTTACTGCCATCTGCATCTCTCATGACTAATTTGCTCTTGTTATATATAAAACTTTCCATTATGAACAGGAACTCTGTATCTTGTTGGATGACTATTGGGAGCGTATGAGTCTGAAGGTTCCGATATACTATTCAGCAGGTCCCTTTGAATAA

mRNA sequence

ATGAAAAACGTCAAACGTAGGCTTGCAAGGAGCCAGGAGGACATCATTAAGGTTCATAATTGTGTGGCTAGTGGAGGGAAGGTCCTTATTCCTACTTTTGCACTTGGACGGGCTCAGGAACTCTGTATCTTGTTGGATGACTATTGGGAGCGTATGAGTCTGAAGGTTCCGATATACTATTCAGCAGGTCCCTTTGAATAA

Coding sequence (CDS)

ATGAAAAACGTCAAACGTAGGCTTGCAAGGAGCCAGGAGGACATCATTAAGGTTCATAATTGTGTGGCTAGTGGAGGGAAGGTCCTTATTCCTACTTTTGCACTTGGACGGGCTCAGGAACTCTGTATCTTGTTGGATGACTATTGGGAGCGTATGAGTCTGAAGGTTCCGATATACTATTCAGCAGGTCCCTTTGAATAA

Protein sequence

MKNVKRRLARSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAGPFE

Homology

[Close]

BLAST of Cla012979 vs. Swiss-Prot
Match: CPS3B_ARATH (Cleavage and polyadenylation specificity factor subunit 3-II OS=Arabidopsis thaliana GN=CPSF73-II PE=1 SV=2)

HSP 1 Score: 88.6 bits (218), Expect = 2.8e-17
Identity = 39/54 (72.22%), Postives = 45/54 (83.33%), Query Frame = 1


Query: 10  RSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           R +E +  VH CVA GGK LIP+FALGRAQELC+LLDDYWERM++KVPIY+S+G
Sbjct: 216 REREFLQAVHKCVAGGGKALIPSFALGRAQELCMLLDDYWERMNIKVPIYFSSG 269

[Close]

BLAST of Cla012979 vs. Swiss-Prot
Match: INT11_HUMAN (Integrator complex subunit 11 OS=Homo sapiens GN=CPSF3L PE=1 SV=2)

HSP 1 Score: 80.5 bits (197), Expect = 7.6e-15
Identity = 37/54 (68.52%), Postives = 42/54 (77.78%), Query Frame = 1


Query: 10  RSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           R ++ + KVH  V  GGKVLIP FALGRAQELCILL+ +WERM+LKVPIY+S G
Sbjct: 217 RERDFLKKVHETVERGGKVLIPVFALGRAQELCILLETFWERMNLKVPIYFSTG 270

[Close]

BLAST of Cla012979 vs. Swiss-Prot
Match: INT11_MOUSE (Integrator complex subunit 11 OS=Mus musculus GN=Cpsf3l PE=1 SV=1)

HSP 1 Score: 80.5 bits (197), Expect = 7.6e-15
Identity = 37/54 (68.52%), Postives = 42/54 (77.78%), Query Frame = 1


Query: 10  RSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           R ++ + KVH  V  GGKVLIP FALGRAQELCILL+ +WERM+LKVPIY+S G
Sbjct: 217 RERDFLKKVHETVERGGKVLIPVFALGRAQELCILLETFWERMNLKVPIYFSTG 270

[Close]

BLAST of Cla012979 vs. Swiss-Prot
Match: INT11_RAT (Integrator complex subunit 11 OS=Rattus norvegicus GN=Cpsf3l PE=2 SV=1)

HSP 1 Score: 80.5 bits (197), Expect = 7.6e-15
Identity = 37/54 (68.52%), Postives = 42/54 (77.78%), Query Frame = 1


Query: 10  RSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           R ++ + KVH  V  GGKVLIP FALGRAQELCILL+ +WERM+LKVPIY+S G
Sbjct: 217 RERDFLKKVHETVERGGKVLIPVFALGRAQELCILLETFWERMNLKVPIYFSTG 270

[Close]

BLAST of Cla012979 vs. Swiss-Prot
Match: INT11_PONAB (Integrator complex subunit 11 OS=Pongo abelii GN=CPSF3L PE=2 SV=2)

HSP 1 Score: 80.5 bits (197), Expect = 7.6e-15
Identity = 37/54 (68.52%), Postives = 42/54 (77.78%), Query Frame = 1


Query: 10  RSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           R ++ + KVH  V  GGKVLIP FALGRAQELCILL+ +WERM+LKVPIY+S G
Sbjct: 217 RERDFLKKVHETVERGGKVLIPVFALGRAQELCILLETFWERMNLKVPIYFSTG 270

[Close]

BLAST of Cla012979 vs. TrEMBL
Match: B9HVV0_POPTR (Metallo-beta-lactamase family protein OS=Populus trichocarpa GN=POPTR_0010s11650g PE=4 SV=2)

HSP 1 Score: 96.7 bits (239), Expect = 1.1e-17
Identity = 45/57 (78.95%), Postives = 50/57 (87.72%), Query Frame = 1


Query: 7   RLARSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           + AR +E +  VH CVA GGKVLIPTFALGRAQELCILLDDYWERM+LKVPIY+SAG
Sbjct: 213 KYAREREFLKAVHECVAGGGKVLIPTFALGRAQELCILLDDYWERMNLKVPIYFSAG 269

[Close]

BLAST of Cla012979 vs. TrEMBL
Match: U5G1X1_POPTR (Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0010s11650g PE=4 SV=1)

HSP 1 Score: 96.7 bits (239), Expect = 1.1e-17
Identity = 45/57 (78.95%), Postives = 50/57 (87.72%), Query Frame = 1


Query: 7   RLARSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           + AR +E +  VH CVA GGKVLIPTFALGRAQELCILLDDYWERM+LKVPIY+SAG
Sbjct: 52  KYAREREFLKAVHECVAGGGKVLIPTFALGRAQELCILLDDYWERMNLKVPIYFSAG 108

[Close]

BLAST of Cla012979 vs. TrEMBL
Match: M0SCM1_MUSAM (Uncharacterized protein OS=Musa acuminata subsp. malaccensis PE=4 SV=1)

HSP 1 Score: 96.7 bits (239), Expect = 1.1e-17
Identity = 45/57 (78.95%), Postives = 50/57 (87.72%), Query Frame = 1


Query: 7   RLARSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           + AR +E +  VH CVA GGKVLIPTFALGRAQELCILLDDYWERM+LKVPIY+SAG
Sbjct: 224 KYAREREFLRAVHKCVAGGGKVLIPTFALGRAQELCILLDDYWERMNLKVPIYFSAG 280

[Close]

BLAST of Cla012979 vs. TrEMBL
Match: A0A061E8Z1_THECC (Cleavage and polyadenylation specificity factor 73 kDa subunit-II OS=Theobroma cacao GN=TCM_011055 PE=4 SV=1)

HSP 1 Score: 96.3 bits (238), Expect = 1.5e-17
Identity = 44/57 (77.19%), Postives = 51/57 (89.47%), Query Frame = 1


Query: 7   RLARSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           R  R +E +  VHNCVA+GGKVLIPTFALGRAQELCILL+DYWERM+LKVPIY+S+G
Sbjct: 212 RYGREREFLKAVHNCVAAGGKVLIPTFALGRAQELCILLEDYWERMNLKVPIYFSSG 268

[Close]

BLAST of Cla012979 vs. TrEMBL
Match: A0A0A0LQW3_CUCSA (Uncharacterized protein OS=Cucumis sativus GN=Csa_2G435430 PE=4 SV=1)

HSP 1 Score: 95.5 bits (236), Expect = 2.6e-17
Identity = 44/57 (77.19%), Postives = 50/57 (87.72%), Query Frame = 1


Query: 7   RLARSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           + AR +E +  VHNC+ASGGKVLIPTFALGRAQELC+LLDDYWERM+LK PIY SAG
Sbjct: 213 KYAREREFLKAVHNCLASGGKVLIPTFALGRAQELCVLLDDYWERMNLKFPIYVSAG 269

[Close]

BLAST of Cla012979 vs. NCBI nr
Match: gi|823255818|ref|XP_012460570.1| (PREDICTED: cleavage and polyadenylation specificity factor subunit 3-II [Gossypium raimondii])

HSP 1 Score: 97.4 bits (241), Expect = 9.7e-18
Identity = 45/57 (78.95%), Postives = 51/57 (89.47%), Query Frame = 1


Query: 7   RLARSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           R  R +E +  VHNCVA+GGKVLIPTFALGRAQELCILL+DYWERM+LKVPIY+SAG
Sbjct: 212 RYGREREFLKAVHNCVAAGGKVLIPTFALGRAQELCILLEDYWERMNLKVPIYFSAG 268

[Close]

BLAST of Cla012979 vs. NCBI nr
Match: gi|566190304|ref|XP_002314781.2| (metallo-beta-lactamase family protein [Populus trichocarpa])

HSP 1 Score: 96.7 bits (239), Expect = 1.6e-17
Identity = 45/57 (78.95%), Postives = 50/57 (87.72%), Query Frame = 1


Query: 7   RLARSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           + AR +E +  VH CVA GGKVLIPTFALGRAQELCILLDDYWERM+LKVPIY+SAG
Sbjct: 213 KYAREREFLKAVHECVAGGGKVLIPTFALGRAQELCILLDDYWERMNLKVPIYFSAG 269

[Close]

BLAST of Cla012979 vs. NCBI nr
Match: gi|743822724|ref|XP_011021767.1| (PREDICTED: cleavage and polyadenylation specificity factor subunit 3-II isoform X2 [Populus euphratica])

HSP 1 Score: 96.7 bits (239), Expect = 1.6e-17
Identity = 45/57 (78.95%), Postives = 50/57 (87.72%), Query Frame = 1


Query: 7   RLARSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           + AR +E +  VH CVA GGKVLIPTFALGRAQELCILLDDYWERM+LKVPIY+SAG
Sbjct: 185 KYAREREFLKAVHECVAGGGKVLIPTFALGRAQELCILLDDYWERMNLKVPIYFSAG 241

[Close]

BLAST of Cla012979 vs. NCBI nr
Match: gi|695009560|ref|XP_009391419.1| (PREDICTED: cleavage and polyadenylation specificity factor subunit 3-II [Musa acuminata subsp. malaccensis])

HSP 1 Score: 96.7 bits (239), Expect = 1.6e-17
Identity = 45/57 (78.95%), Postives = 50/57 (87.72%), Query Frame = 1


Query: 7   RLARSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           + AR +E +  VH CVA GGKVLIPTFALGRAQELCILLDDYWERM+LKVPIY+SAG
Sbjct: 213 KYAREREFLRAVHKCVAGGGKVLIPTFALGRAQELCILLDDYWERMNLKVPIYFSAG 269

[Close]

BLAST of Cla012979 vs. NCBI nr
Match: gi|1021027988|gb|KZM85775.1| (hypothetical protein DCAR_026803 [Daucus carota subsp. sativus])

HSP 1 Score: 96.7 bits (239), Expect = 1.6e-17
Identity = 45/57 (78.95%), Postives = 50/57 (87.72%), Query Frame = 1


Query: 7   RLARSQEDIIKVHNCVASGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYYSAG 64
           + AR +E +  VH CV +GGKVLIPTFALGRAQELCILLDDYWERMSLKVPIY+SAG
Sbjct: 213 KYAREREFLDAVHKCVTNGGKVLIPTFALGRAQELCILLDDYWERMSLKVPIYFSAG 269

The following BLAST results are available for this feature:

BLAST of Cla012979 vs. Swiss-Prot


Match Name	E-value	Identity	Description
CPS3B_ARATH	2.8e-17	72.22	Cleavage and polyadenylation specificity factor subunit 3-II OS=Arabidopsis thal...	[more]
INT11_HUMAN	7.6e-15	68.52	Integrator complex subunit 11 OS=Homo sapiens GN=CPSF3L PE=1 SV=2	[more]
INT11_MOUSE	7.6e-15	68.52	Integrator complex subunit 11 OS=Mus musculus GN=Cpsf3l PE=1 SV=1	[more]
INT11_RAT	7.6e-15	68.52	Integrator complex subunit 11 OS=Rattus norvegicus GN=Cpsf3l PE=2 SV=1	[more]
INT11_PONAB	7.6e-15	68.52	Integrator complex subunit 11 OS=Pongo abelii GN=CPSF3L PE=2 SV=2	[more]

BLAST of Cla012979 vs. TrEMBL


Match Name	E-value	Identity	Description
B9HVV0_POPTR	1.1e-17	78.95	Metallo-beta-lactamase family protein OS=Populus trichocarpa GN=POPTR_0010s11650...	[more]
U5G1X1_POPTR	1.1e-17	78.95	Uncharacterized protein OS=Populus trichocarpa GN=POPTR_0010s11650g PE=4 SV=1	[more]
M0SCM1_MUSAM	1.1e-17	78.95	Uncharacterized protein OS=Musa acuminata subsp. malaccensis PE=4 SV=1	[more]
A0A061E8Z1_THECC	1.5e-17	77.19	Cleavage and polyadenylation specificity factor 73 kDa subunit-II OS=Theobroma c...	[more]
A0A0A0LQW3_CUCSA	2.6e-17	77.19	Uncharacterized protein OS=Cucumis sativus GN=Csa_2G435430 PE=4 SV=1	[more]

BLAST of Cla012979 vs. NCBI nr


Match Name	E-value	Identity	Description
gi\|823255818\|ref\|XP_012460570.1\|	9.7e-18	78.95	PREDICTED: cleavage and polyadenylation specificity factor subunit 3-II [Gossypi...	[more]
gi\|566190304\|ref\|XP_002314781.2\|	1.6e-17	78.95	metallo-beta-lactamase family protein [Populus trichocarpa]	[more]
gi\|743822724\|ref\|XP_011021767.1\|	1.6e-17	78.95	PREDICTED: cleavage and polyadenylation specificity factor subunit 3-II isoform ...	[more]
gi\|695009560\|ref\|XP_009391419.1\|	1.6e-17	78.95	PREDICTED: cleavage and polyadenylation specificity factor subunit 3-II [Musa ac...	[more]
gi\|1021027988\|gb\|KZM85775.1\|	1.6e-17	78.95	hypothetical protein DCAR_026803 [Daucus carota subsp. sativus]	[more]

Annotated Terms

The following terms have been associated with this mRNA:

Vocabulary: **INTERPRO**
Term	Definition
IPR001279	Metallo-B-lactamas

GO Annotation

GO Assignments

This mRNA is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0010197	polar nucleus fusion
cellular_component	GO:0005634	nucleus
molecular_function	GO:0003674	molecular_function

Relationships

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


Feature Name	Unique Name	Type
Cla012979	Cla012979	gene

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


Feature Name	Unique Name	Type
Cla012979	Cla012979.1-protein	polypeptide

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


Feature Name	Unique Name	Type
Cla012979.1.cds4	Cla012979.1.cds4	CDS
Cla012979.1.cds3	Cla012979.1.cds3	CDS
Cla012979.1.cds2	Cla012979.1.cds2	CDS
Cla012979.1.cds1	Cla012979.1.cds1	CDS

InterPro

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


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR001279	Metallo-beta-lactamase	GENE3D	G3DSA:3.60.15.10		coord: 9..52 score: 5.
IPR001279	Metallo-beta-lactamase	unknown	SSF56281	Metallo-hydrolase/oxidoreductase	coord: 17..61 score: 3.16
None	No IPR available	PANTHER	PTHR11203	CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR	coord: 5..63 score: 9.5
None	No IPR available	PANTHER	PTHR11203:SF37	INTEGRATOR COMPLEX SUBUNIT 11	coord: 5..63 score: 9.5