Lag0018445 (gene) Sponge gourd (AG‐4) v1

Overview
NameLag0018445
Typegene
OrganismLuffa acutangula (Sponge gourd (AG‐4) v1)
DescriptionDNA-directed RNA polymerase V subunit 5A
Locationchr5: 27581751 .. 27582851 (+)
RNA-Seq ExpressionLag0018445
SyntenyLag0018445
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.
ATGAATGATTGGTGGGAGGTCTTGATGATACGGGTTCGAAAGGTTCAAGTGACTCTGCCCATCCCATCAAAAACTAAAAAGTGACTCGGTCCACGGTACCTTGCTTGAGATAAAAACTAATAATTCATAACTTTTTATGATTGGTAGAAGGAATATTTTGATTTTCTTTTTCTTTTTTGTTGTTATAAAAGGCCCAACTTTCATGGAGAAAAAACGAAAGAAGGAATATCTTGAACTTTCTAGGGCTCTTTTCCTCATCTTTTATGACTTGAGTAACAGGAGTTACTGCGTTAAAGGACAAAAACAGCGTATCTCTATTACATTACATTACCTTAGCCTCTTGGATCATTTTGTCCTTATGAGATTACAGCGAGCTAAATAGGTTTTAAAGTTATTAAAGGTTCCAGTCTTCCTGTTAGGAAAATAGGAATTCTGAAAACCATAATACCTGGTATACAAATGAATTAAAGTAATACAACAATTCCTGCTAAGTGCAAGTGCTTTATAAATTCTCATGGGCTTTCTGAAACTACCAACAGTTGCTTCAAGTTTTTATGCGTACTTTTGATATAATGCAGCTTCCTCGTTTGTTACGTACGGATGCTATTGCTAGATATTATGGACTTGAGAAGGGGCGGGTTGTGAAAGTGTCTTATGATGGTGATATGACTAGGTCACATGTAACTTACCGCTGTGTCTGGTGATGGGCCTATACATGCAGGTTTCGCCGACCAACTTTTGGATTTTTTTCTCCCTAGAATTTGATTACTTTTGTCCTAGATATCTTTGTTCCAGAACTCCTTGTATTTACTAGGTTTTCAGTGCAGATTTCATGATTACAGGCTTTGCAAGAAATTTGTATCCACAATTACTGCAGACATGAGTAAAAGGTACTTGCAATGCAACTCCCTCCCATCCCGTTCCCGGATATTTTGAAATATGCAAGTTGTGTATGAAAGAAAAGCAGGGAAGCTAGTTGTAGGAGATGTATTTATATCTTTTGACATCTTTAGATCCCTTCATGTGAGAGATATGGCCATTCTCATGAGAACAATTCCTAATCTTCACTCAACCTGTGTGAAGGGACAGATTTGGGGTTAG

mRNA sequence

ATGAATGATTGGTGGGAGGTCTTGATGATACGGCTTCCTCGTTTGTTACGTACGGATGCTATTGCTAGATATTATGGACTTGAGAAGGGGCGGGTTGTGAAAGTGTCTTATGATGGTGATATGACTAGGTCACATAACTCCTTGTATTTACTAGGTTTTCAGTGCAGATTTCATGATTACAGGCTTTGCAAGAAATTTGTATCCACAATTACTGCAGACATGAGTAAAAGATCCCTTCATGTGAGAGATATGGCCATTCTCATGAGAACAATTCCTAATCTTCACTCAACCTGTGTGAAGGGACAGATTTGGGGTTAG

Coding sequence (CDS)

ATGAATGATTGGTGGGAGGTCTTGATGATACGGCTTCCTCGTTTGTTACGTACGGATGCTATTGCTAGATATTATGGACTTGAGAAGGGGCGGGTTGTGAAAGTGTCTTATGATGGTGATATGACTAGGTCACATAACTCCTTGTATTTACTAGGTTTTCAGTGCAGATTTCATGATTACAGGCTTTGCAAGAAATTTGTATCCACAATTACTGCAGACATGAGTAAAAGATCCCTTCATGTGAGAGATATGGCCATTCTCATGAGAACAATTCCTAATCTTCACTCAACCTGTGTGAAGGGACAGATTTGGGGTTAG

Protein sequence

MNDWWEVLMIRLPRLLRTDAIARYYGLEKGRVVKVSYDGDMTRSHNSLYLLGFQCRFHDYRLCKKFVSTITADMSKRSLHVRDMAILMRTIPNLHSTCVKGQIWG
Homology
[Close]
BLAST of Lag0018445 vs. NCBI nr
Match: KAA0053863.1 (DNA-directed RNA polymerase V subunit 5A [Cucumis melo var. makuwa] >TYK25540.1 DNA-directed RNA polymerase V subunit 5A [Cucumis melo var. makuwa])

HSP 1 Score: 72.4 bits (176), Expect = 2.6e-09
Identity = 41/70 (58.57%), Postives = 50/70 (71.43%), Query Frame = 0 

Query: 11  RLPRLLRTDAIARYYGLEKGRVVKVSYDGDMTRSHNSLYLLGFQCR-FHDYRLCKKFVST 70
           +LPR+LRTDAIARYYGLEKG+VVKV+YDGDMT +H      GF+ + F      K+ VST
Sbjct: 186 QLPRMLRTDAIARYYGLEKGQVVKVTYDGDMTSAH------GFRVQIFMIMGFFKQSVST 245

Query: 71  ITADMSKRSL 80
           ITA M  + L
Sbjct: 246 ITAAMLNKVL 249

[Close]
BLAST of Lag0018445 vs. NCBI nr
Match: XP_022950954.1 (DNA-directed RNA polymerase V subunit 5A isoform X1 [Cucurbita moschata])

HSP 1 Score: 69.7 bits (169), Expect = 1.7e-08
Identity = 30/35 (85.71%), Postives = 35/35 (100.00%), Query Frame = 0 

Query: 11  RLPRLLRTDAIARYYGLEKGRVVKVSYDGDMTRSH 46
           +LPR+LRTDAIARYYGLEKG++VKV+YDGDMTRSH
Sbjct: 186 QLPRMLRTDAIARYYGLEKGQIVKVTYDGDMTRSH 220

[Close]
BLAST of Lag0018445 vs. NCBI nr
Match: XP_023539155.1 (DNA-directed RNA polymerase V subunit 5A [Cucurbita pepo subsp. pepo])

HSP 1 Score: 69.7 bits (169), Expect = 1.7e-08
Identity = 30/35 (85.71%), Postives = 35/35 (100.00%), Query Frame = 0 

Query: 11  RLPRLLRTDAIARYYGLEKGRVVKVSYDGDMTRSH 46
           +LPR+LRTDAIARYYGLEKG++VKV+YDGDMTRSH
Sbjct: 186 QLPRMLRTDAIARYYGLEKGQIVKVTYDGDMTRSH 220

[Close]
BLAST of Lag0018445 vs. NCBI nr
Match: XP_022950955.1 (DNA-directed RNA polymerase V subunit 5A isoform X2 [Cucurbita moschata])

HSP 1 Score: 69.7 bits (169), Expect = 1.7e-08
Identity = 30/35 (85.71%), Postives = 35/35 (100.00%), Query Frame = 0 

Query: 11  RLPRLLRTDAIARYYGLEKGRVVKVSYDGDMTRSH 46
           +LPR+LRTDAIARYYGLEKG++VKV+YDGDMTRSH
Sbjct: 186 QLPRMLRTDAIARYYGLEKGQIVKVTYDGDMTRSH 220

[Close]
BLAST of Lag0018445 vs. NCBI nr
Match: XP_004136650.1 (DNA-directed RNA polymerase V subunit 5A [Cucumis sativus] >KGN59468.1 hypothetical protein Csa_000810 [Cucumis sativus])

HSP 1 Score: 68.9 bits (167), Expect = 2.9e-08
Identity = 30/35 (85.71%), Postives = 35/35 (100.00%), Query Frame = 0 

Query: 11  RLPRLLRTDAIARYYGLEKGRVVKVSYDGDMTRSH 46
           +LPR+LRTDAIARYYGLEKG+VVKV+YDGDMTR+H
Sbjct: 186 QLPRMLRTDAIARYYGLEKGQVVKVTYDGDMTRAH 220

[Close]
BLAST of Lag0018445 vs. ExPASy Swiss-Prot
Match: Q9M1J2 (DNA-directed RNA polymerase V subunit 5A OS=Arabidopsis thaliana OX=3702 GN=NRPE5A PE=1 SV=1)

HSP 1 Score: 55.5 bits (132), Expect = 4.3e-07
Identity = 25/45 (55.56%), Postives = 34/45 (75.56%), Query Frame = 0 

Query: 11  RLPRLLRTDAIARYYGLEKGRVVKVSYDGDMTRSHNSLYLLGFQC 56
           +LPR+ + DAI RYYGLEKG+VVKV+Y G++T SH     + F+C
Sbjct: 181 QLPRISKKDAIVRYYGLEKGQVVKVNYRGELTESH-----VAFRC 220

[Close]
BLAST of Lag0018445 vs. ExPASy Swiss-Prot
Match: Q9ZVB9 (DNA-directed RNA polymerases IV and V subunit 5B OS=Arabidopsis thaliana OX=3702 GN=NRPD5B PE=1 SV=1)

HSP 1 Score: 45.4 bits (106), Expect = 4.5e-04
Identity = 19/35 (54.29%), Postives = 26/35 (74.29%), Query Frame = 0 

Query: 11  RLPRLLRTDAIARYYGLEKGRVVKVSYDGDMTRSH 46
           +LPRL   D I RYYGLE G+V+KV+Y  +++ SH
Sbjct: 177 QLPRLSSKDPIVRYYGLETGQVMKVTYKDELSESH 211

The following BLAST results are available for this feature:
BLAST of Lag0018445 vs. NCBI nr
Match NameE-valueIdentityDescription
KAA0053863.12.6e-0958.57DNA-directed RNA polymerase V subunit 5A [Cucumis melo var. makuwa] >TYK25540.1 ... [more]
XP_022950954.11.7e-0885.71DNA-directed RNA polymerase V subunit 5A isoform X1 [Cucurbita moschata][more]
XP_023539155.11.7e-0885.71DNA-directed RNA polymerase V subunit 5A [Cucurbita pepo subsp. pepo][more]
XP_022950955.11.7e-0885.71DNA-directed RNA polymerase V subunit 5A isoform X2 [Cucurbita moschata][more]
XP_004136650.12.9e-0885.71DNA-directed RNA polymerase V subunit 5A [Cucumis sativus] >KGN59468.1 hypotheti... [more]
BLAST of Lag0018445 vs. ExPASy Swiss-Prot
Match NameE-valueIdentityDescription
Q9M1J24.3e-0755.56DNA-directed RNA polymerase V subunit 5A OS=Arabidopsis thaliana OX=3702 GN=NRPE... [more]
Q9ZVB94.5e-0454.29DNA-directed RNA polymerases IV and V subunit 5B OS=Arabidopsis thaliana OX=3702... [more]
InterPro
Analysis Name: InterPro Annotations of Sponge gourd (AG-4) v1
Date Performed: 2022-08-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR035913RPB5-like RNA polymerase subunit superfamilyGENE3D3.90.940.20coord: 5..63
e-value: 3.2E-6
score: 28.7
IPR035913RPB5-like RNA polymerase subunit superfamilySUPERFAMILY55287RPB5-like RNA polymerase subunitcoord: 8..44
IPR000783RNA polymerase, subunit H/Rpb5 C-terminalPFAMPF01191RNA_pol_Rpb5_Ccoord: 11..43
e-value: 2.9E-7
score: 30.2

Relationships

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

Feature NameUnique NameType
Lag0018445.1Lag0018445.1mRNA


GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006351 transcription, DNA-templated
cellular_component GO:0016021 integral component of membrane
cellular_component GO:0055029 nuclear DNA-directed RNA polymerase complex
molecular_function GO:0003677 DNA binding
molecular_function GO:0003899 DNA-directed 5'-3' RNA polymerase activity