Lag0017596 (gene) Sponge gourd (AG‐4) v1

Overview


Name	Lag0017596
Type	gene
Organism	Luffa acutangula (Sponge gourd (AG‐4) v1)
Description	General transcription factor IIH subunit 5-like
Location	chr5: 5811701 .. 5813300 (-)
RNA-Seq Expression	Lag0017596
Synteny	Lag0017596

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideexonCDS

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

ATGCTCGACTCGATTAAAATCTCTGAGAACTCAATATTCTTGATTAATCACTTGGAAATTGGAATGCAGGGACCCTTTCAGTTAAATTTGTTCTGCTGCCGGTTGAGGGTGGACGTTTTTGACATCATGGTTAATGCCATTAAAGGGCTATTCATCTCCTGGTAAATGCCTTCTACATTACTTCAAAGATAGATATCTATTCAGGGTGCACTCTCCTACTGTTTGATTATGGAATCTAGTTTGTTTCTGTTTGTTGTTTCATTCTTCTCTTTGGAATTGTTATGGCATTTGAATGACAGGTCTTTGAAGAGACTTGAAACTTCCATTGTGATATTGTCCATTAATACTCGGGCTTATGTTCTTTTCTTCATTTGTTTCCCTTTTTCTTGATGATATCTTCTGAAACACTGGGATAGGGATGGAGTCTTTAGGATTTTGAAATGACAGCTTCTTAAAGAGACCTGAAAGTTCACTGTGATGTTGTCTACTAATACTTGGGGTCAAGTTCTCTTCTTCATTTTCTTCCCTCCTTTGCTTGATTATCTCTTTTGAACATTGGGATAGAGTCTTTGGATTTGGTATGACATTCAGAATGACTCGAGCTTCCAAAAGACTAGAAACTTTCGTTGCGTTGTTGTTTATTACTTGGAATCTTGTTCATTTCTTTCTCCCTGTTTTCTTGATGATCTCTTCTGAACACTGGGATAGAGTCATTGAGATGTTGCTATGAGTTGTTGTTTCTCTTTTAAGTAAACAGTTGACCTTGGTAGATCCCTTGGTTCATAATTTTTTTTATTAGCCATAGTTTTCTGAGCTTGATATATGTTTTTGTATTCTATCATGTGTCATTCACAAATGGTTATTGATTTCTATGTCTGGAAGTGACCATGATTTTTATGGATGTTATTTGTTTCTCAACCAGTTTGATAACCATTGGGTTTTTGTCTTTTGAAAATTGAGTTTGTTTTCTCACAATTTCTTTAAAATGGTTCATTTTTCTTAAGGACACATGAATTCTTAGCCAAATTTCAAAAACAAAAATAAGTTTTTTTTAGTTTTCAAAACTTGGCTTGAATTTTGAAAATATTTGTAAAAGGTAGATAACAAATAAAAGAAACTAGGGGTGGAAGGAGTGTTAGCTTAATTTTCAAAAATCAAAAACAAAAAACCAAATGGTTATTAGATGGGACCTTAGTGATCGAACTTTGTTTATACGTCAGTCTTTATGTCCAAAGCTGATATGCATTTGATGTTACCTTTCTTTCCCATCTTGAATTGGGATCGTTTGATGCAACTTTATCCTAGTTTTGCTGAGGGAGGTTGGATTGATCAAGATATGTGGAATTTCTTACTTTTCACTATGAATAGATTCTAGGCATTTTTCCCTGTTCTCAAGAGAAATTATTTTCTTCCTTTGTGCAGTGACATACCTATGGCACAATTTATCATCAATTACAATGCTTCATTGCCTTCATCCCACAGATTTATCATCCATATTTTGGATAATACCCACATGTTTGTACAACCCCATGTAGCTGAGATGATTCGAAATGCCATTTCAGAATTTCGAGATCAGAATTCTTATGAGAAACCTACTTGA

mRNA sequence

ATGCTCGACTCGATTAAAATCTCTGAGAACTCAATATTCTTGATTAATCACTTGGAAATTGGAATGCAGGGACCCTTTCAGTTAAATTTGTTCTGCTGCCGGTTGAGGGTGGACGTTTTTGACATCATGGTTAATGCCATTAAAGGGCTATTCATCTCCTGTGACATACCTATGGCACAATTTATCATCAATTACAATGCTTCATTGCCTTCATCCCACAGATTTATCATCCATATTTTGGATAATACCCACATGTTTGTACAACCCCATGTAGCTGAGATGATTCGAAATGCCATTTCAGAATTTCGAGATCAGAATTCTTATGAGAAACCTACTTGA

Coding sequence (CDS)

ATGCTCGACTCGATTAAAATCTCTGAGAACTCAATATTCTTGATTAATCACTTGGAAATTGGAATGCAGGGACCCTTTCAGTTAAATTTGTTCTGCTGCCGGTTGAGGGTGGACGTTTTTGACATCATGGTTAATGCCATTAAAGGGCTATTCATCTCCTGTGACATACCTATGGCACAATTTATCATCAATTACAATGCTTCATTGCCTTCATCCCACAGATTTATCATCCATATTTTGGATAATACCCACATGTTTGTACAACCCCATGTAGCTGAGATGATTCGAAATGCCATTTCAGAATTTCGAGATCAGAATTCTTATGAGAAACCTACTTGA

Protein sequence

MLDSIKISENSIFLINHLEIGMQGPFQLNLFCCRLRVDVFDIMVNAIKGLFISCDIPMAQFIINYNASLPSSHRFIIHILDNTHMFVQPHVAEMIRNAISEFRDQNSYEKPT

Homology

[Close]

BLAST of Lag0017596 vs. NCBI nr
Match: KAG6596831.1 (General transcription and DNA repair factor IIH subunit TFB5, partial [Cucurbita argyrosperma subsp. sororia])

HSP 1 Score: 143.3 bits (360), Expect = 1.3e-30
Identity = 68/73 (93.15%), Postives = 72/73 (98.63%), Query Frame = 0


Query: 40  FDIMVNAIKGLFISCDIPMAQFIINYNASLPSSHRFIIHILDNTHMFVQPHVAEMIRNAI 99
           FDIMVNAIKGLFISCDIPM QFIINYNASLP+SHRFIIHILDNTHMFVQP+VA+MIRNA+
Sbjct: 182 FDIMVNAIKGLFISCDIPMGQFIINYNASLPASHRFIIHILDNTHMFVQPNVADMIRNAM 241

Query: 100 SEFRDQNSYEKPT 113
           SEFRDQNSYEKPT
Sbjct: 242 SEFRDQNSYEKPT 254

[Close]

BLAST of Lag0017596 vs. NCBI nr
Match: KAG7028360.1 (RNA polymerase II transcription factor B subunit 5, partial [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 143.3 bits (360), Expect = 1.3e-30
Identity = 68/73 (93.15%), Postives = 72/73 (98.63%), Query Frame = 0


Query: 40  FDIMVNAIKGLFISCDIPMAQFIINYNASLPSSHRFIIHILDNTHMFVQPHVAEMIRNAI 99
           FDIMVNAIKGLFISCDIPM QFIINYNASLP+SHRFIIHILDNTHMFVQP+VA+MIRNA+
Sbjct: 197 FDIMVNAIKGLFISCDIPMGQFIINYNASLPASHRFIIHILDNTHMFVQPNVADMIRNAM 256

Query: 100 SEFRDQNSYEKPT 113
           SEFRDQNSYEKPT
Sbjct: 257 SEFRDQNSYEKPT 269

[Close]

BLAST of Lag0017596 vs. NCBI nr
Match: XP_038876808.1 (general transcription and DNA repair factor IIH subunit TFB5 [Benincasa hispida] >XP_038876809.1 general transcription and DNA repair factor IIH subunit TFB5 [Benincasa hispida])

HSP 1 Score: 138.7 bits (348), Expect = 3.2e-29
Identity = 66/70 (94.29%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 43  MVNAIKGLFISCDIPMAQFIINYNASLPSSHRFIIHILDNTHMFVQPHVAEMIRNAISEF 102
           MVNAIKGLFISCD+PMAQFIINYNASLP+SHRFIIHILDNTHMFVQPHVA+MIRNAISEF
Sbjct: 1   MVNAIKGLFISCDVPMAQFIINYNASLPTSHRFIIHILDNTHMFVQPHVADMIRNAISEF 60

Query: 103 RDQNSYEKPT 113
           RDQ SYEKPT
Sbjct: 61  RDQISYEKPT 70

[Close]

BLAST of Lag0017596 vs. NCBI nr
Match: XP_008448918.1 (PREDICTED: RNA polymerase II transcription factor B subunit 5 [Cucumis melo] >XP_008448919.1 PREDICTED: RNA polymerase II transcription factor B subunit 5 [Cucumis melo])

HSP 1 Score: 137.9 bits (346), Expect = 5.4e-29
Identity = 65/70 (92.86%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 43  MVNAIKGLFISCDIPMAQFIINYNASLPSSHRFIIHILDNTHMFVQPHVAEMIRNAISEF 102
           MVNAIKG+FISCD+PMAQFIINYNASLP+SHRFIIHILDNTHMFVQPHVA+MIRNAISEF
Sbjct: 1   MVNAIKGMFISCDVPMAQFIINYNASLPASHRFIIHILDNTHMFVQPHVADMIRNAISEF 60

Query: 103 RDQNSYEKPT 113
           RDQ SYEKPT
Sbjct: 61  RDQISYEKPT 70

[Close]

BLAST of Lag0017596 vs. NCBI nr
Match: XP_022943513.1 (RNA polymerase II transcription factor B subunit 5 [Cucurbita moschata] >XP_022943520.1 RNA polymerase II transcription factor B subunit 5 [Cucurbita moschata] >XP_023005606.1 RNA polymerase II transcription factor B subunit 5 isoform X1 [Cucurbita maxima] >XP_023005608.1 RNA polymerase II transcription factor B subunit 5 isoform X1 [Cucurbita maxima])

HSP 1 Score: 137.1 bits (344), Expect = 9.2e-29
Identity = 65/70 (92.86%), Postives = 69/70 (98.57%), Query Frame = 0


Query: 43  MVNAIKGLFISCDIPMAQFIINYNASLPSSHRFIIHILDNTHMFVQPHVAEMIRNAISEF 102
           MVNAIKGLFISCDIPM QFIINYNASLP+SHRFIIHILDNTHMFVQP+VA+MIRNA+SEF
Sbjct: 1   MVNAIKGLFISCDIPMGQFIINYNASLPASHRFIIHILDNTHMFVQPNVADMIRNAMSEF 60

Query: 103 RDQNSYEKPT 113
           RDQNSYEKPT
Sbjct: 61  RDQNSYEKPT 70

[Close]

BLAST of Lag0017596 vs. ExPASy Swiss-Prot
Match: Q6NNM0 (General transcription and DNA repair factor IIH subunit TFB5 OS=Arabidopsis thaliana OX=3702 GN=TFB5 PE=3 SV=1)

HSP 1 Score: 119.4 bits (298), Expect = 2.6e-26
Identity = 53/70 (75.71%), Postives = 64/70 (91.43%), Query Frame = 0


Query: 43  MVNAIKGLFISCDIPMAQFIINYNASLPSSHRFIIHILDNTHMFVQPHVAEMIRNAISEF 102
           MVNAIKG+F+SCDIPM QFI+N N S+P S +FIIH+LD+TH+FVQPHV +MIR+AIS+F
Sbjct: 1   MVNAIKGVFVSCDIPMTQFIVNMNNSMPPSQKFIIHVLDSTHLFVQPHVEQMIRSAISDF 60

Query: 103 RDQNSYEKPT 113
           RDQNSYEKPT
Sbjct: 61  RDQNSYEKPT 70

[Close]

BLAST of Lag0017596 vs. ExPASy Swiss-Prot
Match: Q5ZKH0 (General transcription factor IIH subunit 5 OS=Gallus gallus OX=9031 GN=GTF2H5 PE=3 SV=1)

HSP 1 Score: 55.8 bits (133), Expect = 3.5e-07
Identity = 26/66 (39.39%), Postives = 38/66 (57.58%), Query Frame = 0


Query: 43  MVNAIKGLFISCDIPMAQFIINYNASLPSSHRFIIHILDNTHMFVQPHVAEMIRNAISEF 102
           MVN +KG+ I CD  M QF++  + S     +FII  LD TH+FV   +   ++  + E 
Sbjct: 1   MVNVLKGVLIECDPAMKQFLLYLDESNALGKKFIIQDLDETHVFVLAELVNFLQERVGEL 60

Query: 103 RDQNSY 109
            DQNS+
Sbjct: 61  MDQNSF 66

[Close]

BLAST of Lag0017596 vs. ExPASy Swiss-Prot
Match: Q2T9Z5 (General transcription factor IIH subunit 5 OS=Bos taurus OX=9913 GN=GTF2H5 PE=3 SV=1)

HSP 1 Score: 54.3 bits (129), Expect = 1.0e-06
Identity = 24/66 (36.36%), Postives = 40/66 (60.61%), Query Frame = 0


Query: 43  MVNAIKGLFISCDIPMAQFIINYNASLPSSHRFIIHILDNTHMFVQPHVAEMIRNAISEF 102
           MVN +KG+ I CD  M QF++  + S     +FII  +D+TH+FV   +  +++  + E 
Sbjct: 1   MVNVLKGVLIECDPAMKQFLLYLDESNALGKKFIIQDIDDTHVFVIAELVNVLQERVGEL 60

Query: 103 RDQNSY 109
            DQN++
Sbjct: 61  MDQNAF 66

[Close]

BLAST of Lag0017596 vs. ExPASy Swiss-Prot
Match: Q6ZYL4 (General transcription factor IIH subunit 5 OS=Homo sapiens OX=9606 GN=GTF2H5 PE=1 SV=1)

HSP 1 Score: 54.3 bits (129), Expect = 1.0e-06
Identity = 24/66 (36.36%), Postives = 40/66 (60.61%), Query Frame = 0


Query: 43  MVNAIKGLFISCDIPMAQFIINYNASLPSSHRFIIHILDNTHMFVQPHVAEMIRNAISEF 102
           MVN +KG+ I CD  M QF++  + S     +FII  +D+TH+FV   +  +++  + E 
Sbjct: 1   MVNVLKGVLIECDPAMKQFLLYLDESNALGKKFIIQDIDDTHVFVIAELVNVLQERVGEL 60

Query: 103 RDQNSY 109
            DQN++
Sbjct: 61  MDQNAF 66

[Close]

BLAST of Lag0017596 vs. ExPASy Swiss-Prot
Match: Q8K2X8 (General transcription factor IIH subunit 5 OS=Mus musculus OX=10090 GN=Gtf2h5 PE=1 SV=1)

HSP 1 Score: 53.1 bits (126), Expect = 2.3e-06
Identity = 23/66 (34.85%), Postives = 40/66 (60.61%), Query Frame = 0


Query: 43  MVNAIKGLFISCDIPMAQFIINYNASLPSSHRFIIHILDNTHMFVQPHVAEMIRNAISEF 102
           MVN +KG+ I CD  M QF++  + +     +FII  +D+TH+FV   +  +++  + E 
Sbjct: 1   MVNVLKGVLIECDPAMKQFLLYLDEANALGKKFIIQDIDDTHVFVIAELVNVLQERVGEL 60

Query: 103 RDQNSY 109
            DQN++
Sbjct: 61  MDQNAF 66

The following BLAST results are available for this feature:

BLAST of Lag0017596 vs. NCBI nr


Match Name	E-value	Identity	Description
KAG6596831.1	1.3e-30	93.15	General transcription and DNA repair factor IIH subunit TFB5, partial [Cucurbita...	[more]
KAG7028360.1	1.3e-30	93.15	RNA polymerase II transcription factor B subunit 5, partial [Cucurbita argyrospe...	[more]
XP_038876808.1	3.2e-29	94.29	general transcription and DNA repair factor IIH subunit TFB5 [Benincasa hispida]...	[more]
XP_008448918.1	5.4e-29	92.86	PREDICTED: RNA polymerase II transcription factor B subunit 5 [Cucumis melo] >XP...	[more]
XP_022943513.1	9.2e-29	92.86	RNA polymerase II transcription factor B subunit 5 [Cucurbita moschata] >XP_0229...	[more]

BLAST of Lag0017596 vs. ExPASy Swiss-Prot


Match Name	E-value	Identity	Description
Q6NNM0	2.6e-26	75.71	General transcription and DNA repair factor IIH subunit TFB5 OS=Arabidopsis thal...	[more]
Q5ZKH0	3.5e-07	39.39	General transcription factor IIH subunit 5 OS=Gallus gallus OX=9031 GN=GTF2H5 PE...	[more]
Q2T9Z5	1.0e-06	36.36	General transcription factor IIH subunit 5 OS=Bos taurus OX=9913 GN=GTF2H5 PE=3 ...	[more]
Q6ZYL4	1.0e-06	36.36	General transcription factor IIH subunit 5 OS=Homo sapiens OX=9606 GN=GTF2H5 PE=...	[more]
Q8K2X8	2.3e-06	34.85	General transcription factor IIH subunit 5 OS=Mus musculus OX=10090 GN=Gtf2h5 PE...	[more]

InterPro

Analysis Name: InterPro Annotations of Sponge gourd (AG-4) v1
Date Performed: 2022-08-01

Position :

Zoom :

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IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR009400	TFIIH subunit TTDA/Tfb5	SMART	SM01395	Tbf5_2	coord: 43..110 e-value: 3.5E-33 score: 126.3
IPR009400	TFIIH subunit TTDA/Tfb5	PFAM	PF06331	Tfb5	coord: 43..110 e-value: 9.1E-27 score: 92.9
IPR009400	TFIIH subunit TTDA/Tfb5	PANTHER	PTHR28580	GENERAL TRANSCRIPTION FACTOR IIH SUBUNIT 5	coord: 43..112
IPR035935	TFB5-like superfamily	GENE3D	3.30.70.1220		coord: 43..110 e-value: 1.2E-25 score: 91.2
IPR035935	TFB5-like superfamily	SUPERFAMILY	142897	TFB5-like	coord: 48..111
None	No IPR available	PANTHER	PTHR28580:SF1	GENERAL TRANSCRIPTION FACTOR IIH SUBUNIT 5	coord: 43..112

Relationships

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


Feature Name	Unique Name	Type
Lag0017596.1	Lag0017596.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006294	nucleotide-excision repair, preincision complex assembly
biological_process	GO:0070816	phosphorylation of RNA polymerase II C-terminal domain
biological_process	GO:0006367	transcription initiation from RNA polymerase II promoter
biological_process	GO:0006289	nucleotide-excision repair
cellular_component	GO:0005669	transcription factor TFIID complex
cellular_component	GO:0000439	transcription factor TFIIH core complex
cellular_component	GO:0005675	transcription factor TFIIH holo complex