Lsi03G002550 (gene) Bottle gourd (USVL1VR-Ls) v1

Overview


Name	Lsi03G002550
Type	gene
Organism	Lagenaria siceraria (Bottle gourd (USVL1VR-Ls) v1)
Description	DNA-directed RNA polymerase II subunit 4
Location	chr03: 3190532 .. 3192947 (+)
RNA-Seq Expression	Lsi03G002550
Synteny	Lsi03G002550

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptidethree_prime_UTR

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

ATGTCTGGGGAGGAGGAAGAAAATGCTGCTGAGCTTAAAATTGGAGATGGTAGACATCTATATATAAATTATGATTTTCCATCTATATTCAAAGAGATTTTAAGTTGCTCATACTTTTATGTTGATGGGTTTCCTTCATATATTTGTAAAATTAGAATTTGCTAAGCAACTGATGTGTTTAATCTTTTATTTTGCTTAAAAAATTAGAAACTTAATTTATTATGTTATTCCCCATGCTTATTATAATTTATATGTATCATTAATACAAAGTCTTTGAACCTTCTAGTTGCAAATAGGTAGACTGTTATTATGTTTTTAACAACGCTTATAGATATAGTTTAGACTGGGAAAATGTGGAGTTGATGTACTAATTTATCTTCAAGCAGTTTTGTGGGTAGTGCGGTAATGATCTCTTAGTCCTGAGAGGAGAAAGATACTAAACTTCCTTGGCTCTTTGGACCATTAGTTTATGTGATTATATCTTGTAGCCATGTAGTATCTCATAACTTTCTCAGATATTGTTCCGTAAGTTATAGATGTTAGACCTAGTGCCTTATAGGTGGCTGGACACGTTTATCAAAAGAAGATTCTTTTGCATACACCTTCCCATTATTTTTTATGATATCGTGTTATTATTTTTCATAATTCGTTCTCAATATTTTGAGCTAGCTCATTTACTACATCAAAGGAATACTTTCCTTAACATGTTGTTAAAGGCTCAAATGGCTGAATGCTTTGAGTATTCTTATACGTTGGATTAATATTATGTTGGTTCTTAGGTTTTTTAAGTTTTAGATGAAGATGTGCGATCCATGCAAAATCTAAATTGTTATCTATAATTACTCTTGGCGAAAAGTTATTCAACTATTGTAAGCTTTTCCATTTTTTATGACTCTATGATAATGCAGACCCAAGAATAGCCAAATCTTTGGTGTACATTCTAAGCTTTGTAAATAACTGACATTTATTTTCTTTTGGCTGCTTGCAGAGTTCTTAAAGGCCAAATGTCTAATGAATTGTGAAGTTTCTCTAATCCTTGAACATAAATATGAACAACTTCAACAAATGTCTGAGGATCCAACGAATCAAGTTTCCCAGTGAGTTTTATGTATATCCTTTATTGATTTATGAGTTAATTTAGAGTCTCTCTTGGTTGTTGAGATAACTAAAATATATAGCTAAATTACGATAATCATTTTGTCTTGACATAAAATGATGAGAGATTTTTAATTATGGTCATATTCTGCAGAGTGTTTGAAAAGTCACTACAATATGTGAAACGCTTCAGCCGTTATAAGAACCCTGATGCTGTTAGACAAGTTCGAGAGTATCCTTAATACTGTATAAGTTGATGTTTTTCATTTTATGGGATCATTTCATTTTATGGGATGGGGGAAAGGAAGGGCGCATAATCCACCTTATGCTATAACTAATTCCATTTTGAACTATTACTTTACAATTACCATTTTTTTGTTAGCCAAGAACTCTTCAGTTAATTAATTTTTGGAAAATTCTTAATAATTAACAACGATACTATTTATCACCTCGATGATGAATGGAAAGTTTGGGTTCCACTGTTTAGAAGTGTACAAAATAATGGTGTAATTAAAATCTTTTGAGAGATTGAATCTTAACTGATATACAGAATTTTAAGCAGGTATCAGTTAGCTGAGTTTGAGGTATGTATTAGGCACTTTTCAATCAGTTTATATACCATTATTATCTCTTTCTTTTTCGGGGAAGATTTATCTTAGTCTTGAAATTTGCAGCTTTGTGTTCTGGGCAACCTTTGCCCTGAAACTGTAGAGGAAGCCATTGCTATGGTACCATCTTTAAAGGTATTTTTTTGTTACTTATGTTGCTTGTAACCGGTAATATAGTATTGATATTTTGCTAACCGTAAATAGGTACAACTTTTTGGAAGTTTACTATTGTATTTATCTTTCAACTTTGCATGAACATGCAGTAAATTTTAAAATAGTATTAAAACTAAGATATAGTTTTTTTTTCCCTCCATTTTTTAAATTTGTCAAATAAGTTTTTGAAAACAAAACTTAATCGCTTGGATCCTGGATGGTTTTGTTGGTTTCAGACTAAAGGAAGGGTGCATGACGATGAAGCAATCGAGAAGATGCTGAATGATCTTTCATTAATCAAAAGATTTGAGTAGTTACCTTCTAAATCCAGGTTAAATATGTGTAATCTATTTTCAGAGGCAAAATTGTACTCTTTATGTAATTTATGATTTATGATTTTATGGATAAGTGTGTAATTGGGCTATTCAACACAGGTGTTTACTTGATATTTTTTTGTCTTGGTCCTGGTGTTAGAATGTACTTCTACATGTGATAATATAATCTTTGAATATTTATGAGGATTTTTATTTTTATTTATTTTTTTGAAATTATTCATGAGG

mRNA sequence

ATGTCTGGGGAGGAGGAAGAAAATGCTGCTGAGCTTAAAATTGGAGATGAGTTCTTAAAGGCCAAATGTCTAATGAATTGTGAAGTTTCTCTAATCCTTGAACATAAATATGAACAACTTCAACAAATGTCTGAGGATCCAACGAATCAAGTTTCCCAAGTGTTTGAAAAGTCACTACAATATGTGAAACGCTTCAGCCGTTATAAGAACCCTGATGCTGTTAGACAAGTTCGAGAGTATCCTTAATACTGTATAAGTTGATGTTTTTCATTTTATGGGATCATTTCATTTTATGGGATGGGGGAAAGGAAGGGCGCATAATCCACCTTATGCTATAACTAATTCCATTTTGAACTATTACTTTACAATTACCATTTTTTTGTTAGCCAAGAACTCTTCAGTTAATTAATTTTTGGAAAATTCTTAATAATTAACAACGATACTATTTATCACCTCGATGATGAATGGAAAGTTTGGGTTCCACTGTTTAGAAGTGTACAAAATAATGGTGTAATTAAAATCTTTTGAGAGATTGAATCTTAACTGATATACAGAATTTTAAGCAGGTATCAGTTAGCTGAGTTTGAGCTTTGTGTTCTGGGCAACCTTTGCCCTGAAACTGTAGAGGAAGCCATTGCTATGGTACCATCTTTAAAGACTAAAGGAAGGGTGCATGACGATGAAGCAATCGAGAAGATGCTGAATGATCTTTCATTAATCAAAAGATTTGAGTAGTTACCTTCTAAATCCAGGTTAAATATGTGTAATCTATTTTCAGAGGCAAAATTGTACTCTTTATGTAATTTATGATTTATGATTTTATGGATAAGTGTGTAATTGGGCTATTCAACACAGGTGTTTACTTGATATTTTTTTGTCTTGGTCCTGGTGTTAGAATGTACTTCTACATGTGATAATATAATCTTTGAATATTTATGAGGATTTTTATTTTTATTTATTTTTTTGAAATTATTCATGAGG

Coding sequence (CDS)

ATGTCTGGGGAGGAGGAAGAAAATGCTGCTGAGCTTAAAATTGGAGATGAGTTCTTAAAGGCCAAATGTCTAATGAATTGTGAAGTTTCTCTAATCCTTGAACATAAATATGAACAACTTCAACAAATGTCTGAGGATCCAACGAATCAAGTTTCCCAAGTGTTTGAAAAGTCACTACAATATGTGAAACGCTTCAGCCGTTATAAGAACCCTGATGCTGTTAGACAAGTTCGAGAGTATCCTTAA

Protein sequence

MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRFSRYKNPDAVRQVREYP

Homology

[Close]

BLAST of Lsi03G002550 vs. ExPASy Swiss-Prot
Match: O48890 (DNA-directed RNA polymerase II subunit 4 OS=Arabidopsis thaliana OX=3702 GN=NRPB4 PE=1 SV=1)

HSP 1 Score: 151.0 bits (380), Expect = 5.8e-36
Identity = 76/79 (96.20%), Postives = 78/79 (98.73%), Query Frame = 0


Query: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
          MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHK+EQLQQ+SEDP NQVSQVFEKSLQ
Sbjct: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKFEQLQQISEDPMNQVSQVFEKSLQ 60

Query: 61 YVKRFSRYKNPDAVRQVRE 80
          YVKRFSRYKNPDAVRQVRE
Sbjct: 61 YVKRFSRYKNPDAVRQVRE 79

[Close]

BLAST of Lsi03G002550 vs. ExPASy Swiss-Prot
Match: O15514 (DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens OX=9606 GN=POLR2D PE=1 SV=1)

HSP 1 Score: 58.2 bits (139), Expect = 5.2e-08
Identity = 31/77 (40.26%), Postives = 51/77 (66.23%), Query Frame = 0


Query: 2  SGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQY 61
          +G+ EE+A++L    EF  A+ L+N EV ++LEH+ +Q +  S +   ++S+VF K+L Y
Sbjct: 10 AGDVEEDASQLIFPKEFETAETLLNSEVHMLLEHRKQQNE--SAEDEQELSEVFMKTLNY 69

Query: 62 VKRFSRYKNPDAVRQVR 79
            RFSR+KN + +  VR
Sbjct: 70 TARFSRFKNRETIASVR 84

[Close]

BLAST of Lsi03G002550 vs. ExPASy Swiss-Prot
Match: Q9D7M8 (DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus OX=10090 GN=Polr2d PE=1 SV=2)

HSP 1 Score: 58.2 bits (139), Expect = 5.2e-08
Identity = 31/77 (40.26%), Postives = 51/77 (66.23%), Query Frame = 0


Query: 2  SGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQY 61
          +G+ EE+A++L    EF  A+ L+N EV ++LEH+ +Q +  S +   ++S+VF K+L Y
Sbjct: 10 AGDVEEDASQLIFPKEFETAETLLNSEVHMLLEHRKQQNE--SAEDEQELSEVFMKTLNY 69

Query: 62 VKRFSRYKNPDAVRQVR 79
            RFSR+KN + +  VR
Sbjct: 70 TARFSRFKNRETIASVR 84

[Close]

BLAST of Lsi03G002550 vs. ExPASy Swiss-Prot
Match: Q54S04 (DNA-directed RNA polymerase II subunit rpb4 OS=Dictyostelium discoideum OX=44689 GN=polr2d PE=3 SV=1)

HSP 1 Score: 48.9 bits (115), Expect = 3.1e-05
Identity = 30/88 (34.09%), Postives = 49/88 (55.68%), Query Frame = 0


Query: 4  EEEENAAELKIGDEFLKAKCLMNCEVSLILEHK----------YEQ---LQQMSEDPTNQ 63
          +EEE+   LK   +   AK L+N EV+++LEH+          + Q   L  +  +  N 
Sbjct: 12 QEEEDLTTLKFPRDLKDAKFLLNSEVAILLEHRKGISESEGTEFPQNTLLIHLYYNSIND 71

Query: 64 VSQVFEKSLQYVKRFSRYKNPDAVRQVR 79
          + + F K+L Y ++FSRYKN  +++QVR
Sbjct: 72 IIRTFHKTLAYAEKFSRYKNKTSIKQVR 99

[Close]

BLAST of Lsi03G002550 vs. ExPASy Swiss-Prot
Match: Q9VEA5 (DNA-directed RNA polymerase II subunit Rpb4 OS=Drosophila melanogaster OX=7227 GN=Rpb4 PE=2 SV=5)

HSP 1 Score: 44.3 bits (103), Expect = 7.7e-04
Identity = 24/73 (32.88%), Postives = 42/73 (57.53%), Query Frame = 0


Query: 6  EENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQYVKRF 65
          +E+AA+L+   EF  A+ L+  EV ++L+H+  + Q  S D   + S+VF K+  Y   F
Sbjct: 11 DEDAADLQFPKEFENAETLLISEVHMLLDHR--KRQNESADEEQEFSEVFMKTYAYTDSF 70

Query: 66 SRYKNPDAVRQVR 79
           ++KN + +   R
Sbjct: 71 RKFKNKETIMSAR 81

[Close]

BLAST of Lsi03G002550 vs. ExPASy TrEMBL
Match: A0A059ALU0 (RPOL4c domain-containing protein OS=Eucalyptus grandis OX=71139 GN=EUGRSUZ_I00318 PE=4 SV=1)

HSP 1 Score: 157.9 bits (398), Expect = 1.8e-35
Identity = 79/81 (97.53%), Postives = 80/81 (98.77%), Query Frame = 0


Query: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
          MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMS+DP NQVSQVFEKSLQ
Sbjct: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSDDPMNQVSQVFEKSLQ 60

Query: 61 YVKRFSRYKNPDAVRQVREYP 82
          YVKRFSRYKNPDAVRQVREYP
Sbjct: 61 YVKRFSRYKNPDAVRQVREYP 81

[Close]

BLAST of Lsi03G002550 vs. ExPASy TrEMBL
Match: A0A5N6Q1Z2 (RPOL4c domain-containing protein OS=Mikania micrantha OX=192012 GN=E3N88_01579 PE=4 SV=1)

HSP 1 Score: 157.9 bits (398), Expect = 1.8e-35
Identity = 79/81 (97.53%), Postives = 80/81 (98.77%), Query Frame = 0


Query: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
          MSGEEEENAAELKIGDEFLKAKCLMNCEVSLIL+HKYEQLQQMSEDP NQVSQVFEKSLQ
Sbjct: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILDHKYEQLQQMSEDPMNQVSQVFEKSLQ 60

Query: 61 YVKRFSRYKNPDAVRQVREYP 82
          YVKRFSRYKNPDAVRQVREYP
Sbjct: 61 YVKRFSRYKNPDAVRQVREYP 81

[Close]

BLAST of Lsi03G002550 vs. ExPASy TrEMBL
Match: A0A2P2JFE6 (RPOL4c domain-containing protein OS=Rhizophora mucronata OX=61149 PE=4 SV=1)

HSP 1 Score: 157.9 bits (398), Expect = 1.8e-35
Identity = 79/81 (97.53%), Postives = 80/81 (98.77%), Query Frame = 0


Query: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
          MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMS+DP NQVSQVFEKSLQ
Sbjct: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSDDPMNQVSQVFEKSLQ 60

Query: 61 YVKRFSRYKNPDAVRQVREYP 82
          YVKRFSRYKNPDAVRQVREYP
Sbjct: 61 YVKRFSRYKNPDAVRQVREYP 81

[Close]

BLAST of Lsi03G002550 vs. ExPASy TrEMBL
Match: V4LB78 (RPOL4c domain-containing protein OS=Eutrema salsugineum OX=72664 GN=EUTSA_v10014976mg PE=4 SV=1)

HSP 1 Score: 157.5 bits (397), Expect = 2.3e-35
Identity = 79/81 (97.53%), Postives = 80/81 (98.77%), Query Frame = 0


Query: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
          MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQ+SEDP NQVSQVFEKSLQ
Sbjct: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQVSEDPMNQVSQVFEKSLQ 60

Query: 61 YVKRFSRYKNPDAVRQVREYP 82
          YVKRFSRYKNPDAVRQVREYP
Sbjct: 61 YVKRFSRYKNPDAVRQVREYP 81

[Close]

BLAST of Lsi03G002550 vs. ExPASy TrEMBL
Match: A0A6J1JVN3 (DNA-directed RNA polymerase II subunit 4-like OS=Cucurbita maxima OX=3661 GN=LOC111489290 PE=4 SV=1)

HSP 1 Score: 156.4 bits (394), Expect = 5.1e-35
Identity = 79/79 (100.00%), Postives = 79/79 (100.00%), Query Frame = 0


Query: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
          MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ
Sbjct: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60

Query: 61 YVKRFSRYKNPDAVRQVRE 80
          YVKRFSRYKNPDAVRQVRE
Sbjct: 61 YVKRFSRYKNPDAVRQVRE 79

[Close]

BLAST of Lsi03G002550 vs. NCBI nr
Match: KAD7478443.1 (hypothetical protein E3N88_01579 [Mikania micrantha])

HSP 1 Score: 157.9 bits (398), Expect = 3.6e-35
Identity = 79/81 (97.53%), Postives = 80/81 (98.77%), Query Frame = 0


Query: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
          MSGEEEENAAELKIGDEFLKAKCLMNCEVSLIL+HKYEQLQQMSEDP NQVSQVFEKSLQ
Sbjct: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILDHKYEQLQQMSEDPMNQVSQVFEKSLQ 60

Query: 61 YVKRFSRYKNPDAVRQVREYP 82
          YVKRFSRYKNPDAVRQVREYP
Sbjct: 61 YVKRFSRYKNPDAVRQVREYP 81

[Close]

BLAST of Lsi03G002550 vs. NCBI nr
Match: KCW54360.1 (hypothetical protein EUGRSUZ_I00318 [Eucalyptus grandis])

HSP 1 Score: 157.9 bits (398), Expect = 3.6e-35
Identity = 79/81 (97.53%), Postives = 80/81 (98.77%), Query Frame = 0


Query: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
          MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMS+DP NQVSQVFEKSLQ
Sbjct: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSDDPMNQVSQVFEKSLQ 60

Query: 61 YVKRFSRYKNPDAVRQVREYP 82
          YVKRFSRYKNPDAVRQVREYP
Sbjct: 61 YVKRFSRYKNPDAVRQVREYP 81

[Close]

BLAST of Lsi03G002550 vs. NCBI nr
Match: ESQ40929.1 (hypothetical protein EUTSA_v10014976mg [Eutrema salsugineum])

HSP 1 Score: 157.5 bits (397), Expect = 4.8e-35
Identity = 79/81 (97.53%), Postives = 80/81 (98.77%), Query Frame = 0


Query: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
          MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQ+SEDP NQVSQVFEKSLQ
Sbjct: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQVSEDPMNQVSQVFEKSLQ 60

Query: 61 YVKRFSRYKNPDAVRQVREYP 82
          YVKRFSRYKNPDAVRQVREYP
Sbjct: 61 YVKRFSRYKNPDAVRQVREYP 81

[Close]

BLAST of Lsi03G002550 vs. NCBI nr
Match: XP_038884885.1 (DNA-directed RNA polymerase II subunit 4 [Benincasa hispida])

HSP 1 Score: 156.4 bits (394), Expect = 1.1e-34
Identity = 79/79 (100.00%), Postives = 79/79 (100.00%), Query Frame = 0


Query: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
          MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ
Sbjct: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60

Query: 61 YVKRFSRYKNPDAVRQVRE 80
          YVKRFSRYKNPDAVRQVRE
Sbjct: 61 YVKRFSRYKNPDAVRQVRE 79

[Close]

BLAST of Lsi03G002550 vs. NCBI nr
Match: XP_004138390.1 (DNA-directed RNA polymerase II subunit 4 [Cucumis sativus] >XP_008456795.1 PREDICTED: DNA-directed RNA polymerase II subunit 4 [Cucumis melo] >XP_011656444.1 DNA-directed RNA polymerase II subunit 4 [Cucumis sativus] >KAA0051957.1 DNA-directed RNA polymerase II subunit 4 [Cucumis melo var. makuwa] >KGN45845.1 hypothetical protein Csa_005663 [Cucumis sativus] >TYK04594.1 DNA-directed RNA polymerase II subunit 4 [Cucumis melo var. makuwa])

HSP 1 Score: 156.4 bits (394), Expect = 1.1e-34
Identity = 79/79 (100.00%), Postives = 79/79 (100.00%), Query Frame = 0


Query: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
          MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ
Sbjct: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60

Query: 61 YVKRFSRYKNPDAVRQVRE 80
          YVKRFSRYKNPDAVRQVRE
Sbjct: 61 YVKRFSRYKNPDAVRQVRE 79

[Close]

BLAST of Lsi03G002550 vs. TAIR 10
Match: AT5G09920.1 (RNA polymerase II, Rpb4, core protein )

HSP 1 Score: 151.0 bits (380), Expect = 4.2e-37
Identity = 76/79 (96.20%), Postives = 78/79 (98.73%), Query Frame = 0


Query: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKYEQLQQMSEDPTNQVSQVFEKSLQ 60
          MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHK+EQLQQ+SEDP NQVSQVFEKSLQ
Sbjct: 1  MSGEEEENAAELKIGDEFLKAKCLMNCEVSLILEHKFEQLQQISEDPMNQVSQVFEKSLQ 60

Query: 61 YVKRFSRYKNPDAVRQVRE 80
          YVKRFSRYKNPDAVRQVRE
Sbjct: 61 YVKRFSRYKNPDAVRQVRE 79

The following BLAST results are available for this feature:

BLAST of Lsi03G002550 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
O48890	5.8e-36	96.20	DNA-directed RNA polymerase II subunit 4 OS=Arabidopsis thaliana OX=3702 GN=NRPB...	[more]
O15514	5.2e-08	40.26	DNA-directed RNA polymerase II subunit RPB4 OS=Homo sapiens OX=9606 GN=POLR2D PE...	[more]
Q9D7M8	5.2e-08	40.26	DNA-directed RNA polymerase II subunit RPB4 OS=Mus musculus OX=10090 GN=Polr2d P...	[more]
Q54S04	3.1e-05	34.09	DNA-directed RNA polymerase II subunit rpb4 OS=Dictyostelium discoideum OX=44689...	[more]
Q9VEA5	7.7e-04	32.88	DNA-directed RNA polymerase II subunit Rpb4 OS=Drosophila melanogaster OX=7227 G...	[more]

BLAST of Lsi03G002550 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A059ALU0	1.8e-35	97.53	RPOL4c domain-containing protein OS=Eucalyptus grandis OX=71139 GN=EUGRSUZ_I0031...	[more]
A0A5N6Q1Z2	1.8e-35	97.53	RPOL4c domain-containing protein OS=Mikania micrantha OX=192012 GN=E3N88_01579 P...	[more]
A0A2P2JFE6	1.8e-35	97.53	RPOL4c domain-containing protein OS=Rhizophora mucronata OX=61149 PE=4 SV=1	[more]
V4LB78	2.3e-35	97.53	RPOL4c domain-containing protein OS=Eutrema salsugineum OX=72664 GN=EUTSA_v10014...	[more]
A0A6J1JVN3	5.1e-35	100.00	DNA-directed RNA polymerase II subunit 4-like OS=Cucurbita maxima OX=3661 GN=LOC...	[more]

BLAST of Lsi03G002550 vs. NCBI nr


Match Name	E-value	Identity	Description
KAD7478443.1	3.6e-35	97.53	hypothetical protein E3N88_01579 [Mikania micrantha]	[more]
KCW54360.1	3.6e-35	97.53	hypothetical protein EUGRSUZ_I00318 [Eucalyptus grandis]	[more]
ESQ40929.1	4.8e-35	97.53	hypothetical protein EUTSA_v10014976mg [Eutrema salsugineum]	[more]
XP_038884885.1	1.1e-34	100.00	DNA-directed RNA polymerase II subunit 4 [Benincasa hispida]	[more]
XP_004138390.1	1.1e-34	100.00	DNA-directed RNA polymerase II subunit 4 [Cucumis sativus] >XP_008456795.1 PREDI...	[more]

BLAST of Lsi03G002550 vs. TAIR 10


Match Name	E-value	Identity	Description
AT5G09920.1	4.2e-37	96.20	RNA polymerase II, Rpb4, core protein	[more]

InterPro

Analysis Name: InterPro Annotations of Bottle gourd (USVL1VR-Ls) v1
Date Performed: 2021-10-18


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR006590	RNA polymerase Rpb4/RPC9, core	SMART	SM00657	rpol4neu2	coord: 16..81 e-value: 0.0021 score: 8.6
IPR005574	RNA polymerase subunit RPB4/RPC9	PFAM	PF03874	RNA_pol_Rpb4	coord: 23..79 e-value: 1.6E-7 score: 31.7
IPR038324	Rpb4/RPC9 superfamily	GENE3D	1.20.1250.40		coord: 2..80 e-value: 2.1E-28 score: 100.7
None	No IPR available	PANTHER	PTHR21297	DNA-DIRECTED RNA POLYMERASE II	coord: 1..79
None	No IPR available	PANTHER	PTHR21297:SF3	DNA-DIRECTED RNA POLYMERASE II SUBUNIT 4-LIKE	coord: 1..79
IPR010997	HRDC-like superfamily	SUPERFAMILY	47819	HRDC-like	coord: 3..80

Relationships

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


Feature Name	Unique Name	Type
Lsi03G002550.1	Lsi03G002550.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0031990	mRNA export from nucleus in response to heat stress
biological_process	GO:0000288	nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay
biological_process	GO:0045948	positive regulation of translational initiation
biological_process	GO:0034402	recruitment of 3'-end processing factors to RNA polymerase II holoenzyme complex
biological_process	GO:0006367	transcription initiation from RNA polymerase II promoter
biological_process	GO:0044237	cellular metabolic process
biological_process	GO:0006352	DNA-templated transcription, initiation
cellular_component	GO:0016021	integral component of membrane
cellular_component	GO:0000932	P-body
cellular_component	GO:0005665	RNA polymerase II, core complex
cellular_component	GO:0030880	RNA polymerase complex
molecular_function	GO:0003899	DNA-directed 5'-3' RNA polymerase activity
molecular_function	GO:0000166	nucleotide binding
molecular_function	GO:0031369	translation initiation factor binding