HG10004815 (gene) Bottle gourd (Hangzhou Gourd) v1

Overview


Name	HG10004815
Type	gene
Organism	Lagenaria siceraria cv. Hangzhou Gourd (Bottle gourd (Hangzhou Gourd) v1)
Description	Transcription initiation factor IIF subunit beta
Location	Chr08: 20645103 .. 20647744 (-)
RNA-Seq Expression	HG10004815
Synteny	HG10004815

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideCDS

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

ATGGAAGATGAGCAGGGCGGCGGTAGTAGTAGTAACTTGGATACAGGAAAGGCGGATAGATCAGTGTGGCTGATGAAGTGCCCTTTGTTAGTCGCTAAGTCATGGCAGGCTCATCCTCCATCTGATCCTCTTCCTCTCGCTAAGGTCATTCTTTCTCTCGATCCTCTTCAATCCGACGAGTCCTCTTCTCTCCAGGTAACATCTAATTCTAAACCTGTAAATTGATGTTTAAGTGGTGAACTGATTAAACTCGTTTTCATAGTAGGTTTAGTTGTTTTCTTGGGCTTTAAATCTTGTGAATTATGTTGTTTCGAATTGTGACTTTGATCGATGAATGTTGAAGCGGAACCCTAGATTTTGATTCGTTGTAATTTTGATTCCTTGGGAGGAGTAGCTTGATTTTATGATATGTGTTGCCAAGTTCTTTAACAAATCCGAATAACCAAGCACGGGTCTCACTGCCCGATCAGCGAGTCGGGGTCCAGGGCGACAAGCCCTGGTGGAGCTCGGGGCAATGTGCCCAAACCACGTAAATCTCTGTATTGGCTTCTTCTTGGTCTTTATTCGTTACTTGTCGATTTCATTTCTCTCATAACATTCCTTGTAAATAAGGGGAACGTGATTAGTTTATTTATGTAAGTACTGAGCTTTGGCCTCAAATTGTGCAAGAAGATTCAAATCTTCTTTTGGACTATTTGTTATGAAGCTGAAATAGTTATGAAAGGTTGCAAAAGAAATTTCCTACTTTGGTGTGTGCCGTGAAACCTTGTTTATAGATTTGGTTAAGGCCCTTACTCCCCTCAGTTGAAATTACAATTGGAAGGTTGAGTATCCTAAAAGAGTTAAAATCTTCACTTGGGAGCTCACTAACGGTGATATCAACACTCACGATAAAATTAAAGTCAGGAACACTCTATTTATTTATTAATTAATTAATATAAAAAACTAAGTCTTCCAATGATGATACGGAAAATGCACATGAGATTAGAAAAGGGCTCTTCAAGTGGTTTAACGACAGAGAAATTATACTTGAGCTGGTTAACAAACACATGTTTCAGTTGGGAAATTAATTGGACTGAAGTGATTTCTTTAGCATCTTAAGTAGAAAGGTAGTGGTGTTATCTTATATTTTTGTACTGTTCAGCTGTATTCAGTATTTCGTCAATTGTCTTGATGAAAATTTGGTTTCATCACAAAAAACAATCATTATATGTTCTGATATTTCTATGGCGCTGTTCTATATTTCCCACCTTTTTTTCTCTCTTTTGCTTTGGTTAACTTGTCTTGCTGTTCTTTGTGCTGGCTATTTCTTAACTCTTATAAGTATTTGTTAGACCATACACACTCATATGTACACACACATGCAGACTTGTGGCTCATTATTTATCCTGTTTTGGTCTATCACTGTTTTCCCTTACATGCTTCAAAATGAACCTCAGTTCAAGATGGAGATGGCTGGAACTGAGACTGGAAATGTGCCAAAAAGCTTTTCCTTAAATATGTTTAAAGACTTTGTTCCTATGTGTGTCTTTTCAGAGGCAAATCAAGGTGAGCATCATGATTCTTATCTGTATAGTCCATTCTTTCTTTGACTATGCTGTCACCCTGAATGTAATATGTGAATATTTCTGATATCCGGAAATGTTTCTTCCTCTTTTCTGGATATCCTTTCCTCTGTTATGAACATCAATTTGGACTGGATTATTTTTTATTCGCTTCATTCAGTTTAAGGCCTGATAGAAATTAATTTGTTGGAAAGATGGTTCCACTTGAAATTTACATCTCTGTCCAAAGAATTATATCTCCAGACGTCTTTGTCAAGAAACCTTTAGTGTATGAAATAGCCTGAATTCCGGGGAAGGAGGTACTCAGTATACTGGAATCCTTTCTAGAAAAAATAAATTGCTCTATTTCCAACTTTGAAGGAAATGCATTTTTTTAATAAACGAAGGAAGAAAGTGCACCATTTTCTAATCTCAATGCATAATCCCCTTCCACGGTTACGTCCAATTTTTTTGTGCACCATTCAAGAGAGTTGGAATTATATTTGTTCCGAAGAACGCTGCTTCTTAAAACATTCTCCTCGTTGATGCATCTCCAATATGAATTGTATAATCTCTTTCTTTGTGTCCATGATTCCCAAACCCTATGCCTCGAGTTGGGTATGGGAGACACTTTTCCAAATGGGGCTGCCTTGACTCAGATTTTCTTCTCTCAAGTGAAATCTCTCTCCACACTCTTTGCAAACGTTGCCTGGATTTTAAATAGAGAGAAATAATAGTTTGGATTGATGGAGATAACCACTTAAGCAACAAACTTAATCGCTGTCCTTTGGGCTTGGGTTATTATTCAAATTTGCAATTTCATTAGTCACTTTGTCCTGGAAGGCTCCTGGGACATGCAAGATTTTATGTTTTCACCTATGGGGAGGCCAAGGAGAGATTAGGGCAATAAATAATTCTCAGTCATAGATGCCAACCTGTTTGCTGATTTTGCCTTTCTCTCAGTTGTCGTTGATGCCAACTGAGAAGGATTTGGATAAAATAAGTGACAAACAGAAGCTTGCTGAAATAAGTGAAGGAGCTGCCTCCATTTTCAACTACCTCTCTGTTCAAGCTGAAAGTAATATTGTCATGGCATAA

mRNA sequence

ATGGAAGATGAGCAGGGCGGCGGTAGTAGTAGTAACTTGGATACAGGAAAGGCGGATAGATCAGTGTGGCTGATGAAGTGCCCTTTGTTAGTCGCTAAGTCATGGCAGGCTCATCCTCCATCTGATCCTCTTCCTCTCGCTAAGGTCATTCTTTCTCTCGATCCTCTTCAATCCGACGAGTCCTCTTCTCTCCAGTTGTCGTTGATGCCAACTGAGAAGGATTTGGATAAAATAAGTGACAAACAGAAGCTTGCTGAAATAAGTGAAGGAGCTGCCTCCATTTTCAACTACCTCTCTGTTCAAGCTGAAAGTAATATTGTCATGGCATAA

Coding sequence (CDS)

ATGGAAGATGAGCAGGGCGGCGGTAGTAGTAGTAACTTGGATACAGGAAAGGCGGATAGATCAGTGTGGCTGATGAAGTGCCCTTTGTTAGTCGCTAAGTCATGGCAGGCTCATCCTCCATCTGATCCTCTTCCTCTCGCTAAGGTCATTCTTTCTCTCGATCCTCTTCAATCCGACGAGTCCTCTTCTCTCCAGTTGTCGTTGATGCCAACTGAGAAGGATTTGGATAAAATAAGTGACAAACAGAAGCTTGCTGAAATAAGTGAAGGAGCTGCCTCCATTTTCAACTACCTCTCTGTTCAAGCTGAAAGTAATATTGTCATGGCATAA

Protein sequence

MEDEQGGGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSDESSSLQLSLMPTEKDLDKISDKQKLAEISEGAASIFNYLSVQAESNIVMA

Homology

[Close]

BLAST of HG10004815 vs. NCBI nr
Match: XP_038884084.1 (transcription initiation factor IIF subunit beta-like [Benincasa hispida])

HSP 1 Score: 131.0 bits (328), Expect = 6.4e-27
Identity = 64/68 (94.12%), Postives = 65/68 (95.59%), Query Frame = 0


Query: 1  MEDEQGGGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSDE 60
          MEDE GGGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSDE
Sbjct: 1  MEDENGGGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSDE 60

Query: 61 SSSLQLSL 69
          SSSLQ  +
Sbjct: 61 SSSLQFKM 68

[Close]

BLAST of HG10004815 vs. NCBI nr
Match: XP_022951326.1 (transcription initiation factor IIF subunit beta [Cucurbita moschata] >XP_023537305.1 transcription initiation factor IIF subunit beta [Cucurbita pepo subsp. pepo] >KAG6585564.1 hypothetical protein SDJN03_18297, partial [Cucurbita argyrosperma subsp. sororia] >KAG7020478.1 tfg2, partial [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 129.8 bits (325), Expect = 1.4e-26
Identity = 63/68 (92.65%), Postives = 65/68 (95.59%), Query Frame = 0


Query: 1  MEDEQGGGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSDE 60
          MEDE GGGSSSNLDTGKADRSVWLMKCPLLVAKSWQ+HPPSDPLPLAKVILSLDPLQSDE
Sbjct: 1  MEDENGGGSSSNLDTGKADRSVWLMKCPLLVAKSWQSHPPSDPLPLAKVILSLDPLQSDE 60

Query: 61 SSSLQLSL 69
          SSSLQ  +
Sbjct: 61 SSSLQFKM 68

[Close]

BLAST of HG10004815 vs. NCBI nr
Match: XP_023002475.1 (transcription initiation factor IIF subunit beta [Cucurbita maxima])

HSP 1 Score: 129.8 bits (325), Expect = 1.4e-26
Identity = 63/68 (92.65%), Postives = 65/68 (95.59%), Query Frame = 0


Query: 1  MEDEQGGGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSDE 60
          MEDE GGGSSSNLDTGKADRSVWLMKCPLLVAKSWQ+HPPSDPLPLAKVILSLDPLQSDE
Sbjct: 1  MEDENGGGSSSNLDTGKADRSVWLMKCPLLVAKSWQSHPPSDPLPLAKVILSLDPLQSDE 60

Query: 61 SSSLQLSL 69
          SSSLQ  +
Sbjct: 61 SSSLQFKM 68

[Close]

BLAST of HG10004815 vs. NCBI nr
Match: XP_008444765.1 (PREDICTED: transcription initiation factor IIF subunit beta-like [Cucumis melo] >KAA0065193.1 transcription initiation factor IIF subunit beta-like [Cucumis melo var. makuwa])

HSP 1 Score: 125.2 bits (313), Expect = 3.5e-25
Identity = 63/69 (91.30%), Postives = 65/69 (94.20%), Query Frame = 0


Query: 1  MEDEQG-GGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSD 60
          MED+ G GGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSD
Sbjct: 1  MEDDHGSGGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSD 60

Query: 61 ESSSLQLSL 69
          ESSSLQ  +
Sbjct: 61 ESSSLQFKM 69

[Close]

BLAST of HG10004815 vs. NCBI nr
Match: XP_004152667.1 (transcription initiation factor IIF subunit beta [Cucumis sativus] >KGN62646.1 hypothetical protein Csa_021785 [Cucumis sativus])

HSP 1 Score: 123.2 bits (308), Expect = 1.3e-24
Identity = 63/69 (91.30%), Postives = 64/69 (92.75%), Query Frame = 0


Query: 1  MEDEQG-GGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSD 60
          MEDE G GGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSD LPLAKVILSLDPLQSD
Sbjct: 1  MEDEHGSGGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDSLPLAKVILSLDPLQSD 60

Query: 61 ESSSLQLSL 69
          ESSSLQ  +
Sbjct: 61 ESSSLQFKM 69

[Close]

BLAST of HG10004815 vs. ExPASy TrEMBL
Match: A0A6J1KP21 (Transcription initiation factor IIF subunit beta OS=Cucurbita maxima OX=3661 GN=LOC111496301 PE=3 SV=1)

HSP 1 Score: 129.8 bits (325), Expect = 6.9e-27
Identity = 63/68 (92.65%), Postives = 65/68 (95.59%), Query Frame = 0


Query: 1  MEDEQGGGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSDE 60
          MEDE GGGSSSNLDTGKADRSVWLMKCPLLVAKSWQ+HPPSDPLPLAKVILSLDPLQSDE
Sbjct: 1  MEDENGGGSSSNLDTGKADRSVWLMKCPLLVAKSWQSHPPSDPLPLAKVILSLDPLQSDE 60

Query: 61 SSSLQLSL 69
          SSSLQ  +
Sbjct: 61 SSSLQFKM 68

[Close]

BLAST of HG10004815 vs. ExPASy TrEMBL
Match: A0A6J1GH97 (Transcription initiation factor IIF subunit beta OS=Cucurbita moschata OX=3662 GN=LOC111454191 PE=3 SV=1)

HSP 1 Score: 129.8 bits (325), Expect = 6.9e-27
Identity = 63/68 (92.65%), Postives = 65/68 (95.59%), Query Frame = 0


Query: 1  MEDEQGGGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSDE 60
          MEDE GGGSSSNLDTGKADRSVWLMKCPLLVAKSWQ+HPPSDPLPLAKVILSLDPLQSDE
Sbjct: 1  MEDENGGGSSSNLDTGKADRSVWLMKCPLLVAKSWQSHPPSDPLPLAKVILSLDPLQSDE 60

Query: 61 SSSLQLSL 69
          SSSLQ  +
Sbjct: 61 SSSLQFKM 68

[Close]

BLAST of HG10004815 vs. ExPASy TrEMBL
Match: A0A5A7VAJ9 (Transcription initiation factor IIF subunit beta OS=Cucumis melo var. makuwa OX=1194695 GN=E6C27_scaffold82G005300 PE=3 SV=1)

HSP 1 Score: 125.2 bits (313), Expect = 1.7e-25
Identity = 63/69 (91.30%), Postives = 65/69 (94.20%), Query Frame = 0


Query: 1  MEDEQG-GGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSD 60
          MED+ G GGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSD
Sbjct: 1  MEDDHGSGGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSD 60

Query: 61 ESSSLQLSL 69
          ESSSLQ  +
Sbjct: 61 ESSSLQFKM 69

[Close]

BLAST of HG10004815 vs. ExPASy TrEMBL
Match: A0A1S3BBV5 (Transcription initiation factor IIF subunit beta OS=Cucumis melo OX=3656 GN=LOC103488014 PE=3 SV=1)

HSP 1 Score: 125.2 bits (313), Expect = 1.7e-25
Identity = 63/69 (91.30%), Postives = 65/69 (94.20%), Query Frame = 0


Query: 1  MEDEQG-GGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSD 60
          MED+ G GGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSD
Sbjct: 1  MEDDHGSGGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSD 60

Query: 61 ESSSLQLSL 69
          ESSSLQ  +
Sbjct: 61 ESSSLQFKM 69

[Close]

BLAST of HG10004815 vs. ExPASy TrEMBL
Match: A0A0A0LRL0 (Transcription initiation factor IIF subunit beta OS=Cucumis sativus OX=3659 GN=Csa_2G363560 PE=3 SV=1)

HSP 1 Score: 123.2 bits (308), Expect = 6.5e-25
Identity = 63/69 (91.30%), Postives = 64/69 (92.75%), Query Frame = 0


Query: 1  MEDEQG-GGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDPLPLAKVILSLDPLQSD 60
          MEDE G GGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSD LPLAKVILSLDPLQSD
Sbjct: 1  MEDEHGSGGSSSNLDTGKADRSVWLMKCPLLVAKSWQAHPPSDSLPLAKVILSLDPLQSD 60

Query: 61 ESSSLQLSL 69
          ESSSLQ  +
Sbjct: 61 ESSSLQFKM 69

[Close]

BLAST of HG10004815 vs. TAIR 10
Match: AT1G75510.1 (Transcription initiation factor IIF, beta subunit )

HSP 1 Score: 50.8 bits (120), Expect = 7.9e-07
Identity = 25/70 (35.71%), Postives = 39/70 (55.71%), Query Frame = 0


Query: 12 NLDTGKADRSVWLMKCPLLVAKSWQAHPPS---------DPLPLAKVILSLDPLQSDESS 71
          NLD  K+DRS+WLMKCP++V K+W     S          P  +AK++  +DPL+ D   
Sbjct: 6  NLDIEKSDRSIWLMKCPVVVDKAWHKIAASSSSSFASSDSPPDMAKIVREVDPLRDDSPP 65

Query: 72 SLQLSLMPTE 73
            ++ ++  E
Sbjct: 66 EFKMYMVGAE 75

[Close]

BLAST of HG10004815 vs. TAIR 10
Match: AT3G52270.1 (Transcription initiation factor IIF, beta subunit )

HSP 1 Score: 45.8 bits (107), Expect = 2.5e-05
Identity = 40/101 (39.60%), Postives = 49/101 (48.51%), Query Frame = 0


Query: 13  LDTGKADRSVWLMKCPLLVAKSWQAHP-------PSDPL-PLAKVILSLDPL-QSDESSS 72
           L+TG A+RS+ LMK P LVA S Q+H        P DP  P AKVIL +DPL   DE + 
Sbjct: 23  LETGLAERSMLLMKAPSLVASSLQSHSFPDDPYRPDDPYRPDAKVILGVDPLAHEDEGTQ 82

Query: 73  LQLSL-------MPTEKDLDKISD---KQKLAEISEGAASI 95
             + L       MP    LD   D        E S+G  S+
Sbjct: 83  FVMELARADSGNMPRRYTLDMSKDFIPMNVFCESSDGKMSV 123

The following BLAST results are available for this feature:

BLAST of HG10004815 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_038884084.1	6.4e-27	94.12	transcription initiation factor IIF subunit beta-like [Benincasa hispida]	[more]
XP_022951326.1	1.4e-26	92.65	transcription initiation factor IIF subunit beta [Cucurbita moschata] >XP_023537...	[more]
XP_023002475.1	1.4e-26	92.65	transcription initiation factor IIF subunit beta [Cucurbita maxima]	[more]
XP_008444765.1	3.5e-25	91.30	PREDICTED: transcription initiation factor IIF subunit beta-like [Cucumis melo] ...	[more]
XP_004152667.1	1.3e-24	91.30	transcription initiation factor IIF subunit beta [Cucumis sativus] >KGN62646.1 h...	[more]

BLAST of HG10004815 vs. NCBI nr


Match Name	E-value	Identity	Description

BLAST of HG10004815 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6J1KP21	6.9e-27	92.65	Transcription initiation factor IIF subunit beta OS=Cucurbita maxima OX=3661 GN=...	[more]
A0A6J1GH97	6.9e-27	92.65	Transcription initiation factor IIF subunit beta OS=Cucurbita moschata OX=3662 G...	[more]
A0A5A7VAJ9	1.7e-25	91.30	Transcription initiation factor IIF subunit beta OS=Cucumis melo var. makuwa OX=...	[more]
A0A1S3BBV5	1.7e-25	91.30	Transcription initiation factor IIF subunit beta OS=Cucumis melo OX=3656 GN=LOC1...	[more]
A0A0A0LRL0	6.5e-25	91.30	Transcription initiation factor IIF subunit beta OS=Cucumis sativus OX=3659 GN=C...	[more]

BLAST of HG10004815 vs. TAIR 10


Match Name	E-value	Identity	Description
AT1G75510.1	7.9e-07	35.71	Transcription initiation factor IIF, beta subunit	[more]
AT3G52270.1	2.5e-05	39.60	Transcription initiation factor IIF, beta subunit	[more]

InterPro

Analysis Name: InterPro Annotations of Bottle gourd (Hangzhou Gourd) v1
Date Performed: 2022-08-01


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
IPR011039	Transcription Factor IIF, Rap30/Rap74, interaction	SUPERFAMILY	50916	Rap30/74 interaction domains	coord: 10..72

Relationships

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


Feature Name	Unique Name	Type
HG10004815.1	HG10004815.1	mRNA

GO Annotation

GO Assignments

This gene is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006367	transcription initiation from RNA polymerase II promoter
biological_process	GO:0006413	translational initiation
cellular_component	GO:0005674	transcription factor TFIIF complex
molecular_function	GO:0003677	DNA binding
molecular_function	GO:0008168	methyltransferase activity
molecular_function	GO:0003743	translation initiation factor activity