Cla97C09G181970 (gene) Watermelon (97103) v2

Overview
NameCla97C09G181970
Typegene
OrganismCitrullus lanatus (Watermelon (97103) v2)
DescriptionGeneral transcription factor IIF subunit 2
LocationCla97Chr09 : 35296494 .. 35296859 (+)
Genome Viewer
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.
ATGGACGTCGACGGCAAATCCATCGACCGTTGCAGTTCCAGAAAACACCAAGGCAACAACAACATCGTTGTTGGAACCGACTTCTTAGAGACTAACAAGGCGGACAGAGCAATGTGGCTCTTAAAATGCCCGCAAGCTGTAACTCGCGCCCTTTCTAATTCCCCCGATGCCCCTTCCCGTCCGGTTGCTAAGGTCATCGTTTCTGTTGACCCGCTGCAATCGAATGACGATGATGATTCTTCCTCTACTGAGGTATATGATGACGTCTTGCTATGGTGTTTTTGGTTTTGGATTGAGGGTTCTCTTCTCACTGCATTGTGTGATTTCCTGTGTTTCTTACTTGCTTCTGCATGCTTTCCATTTTAG

mRNA sequence

ATGGACGTCGACGGCAAATCCATCGACCGTTGCAGTTCCAGAAAACACCAAGGCAACAACAACATCGTTGTTGGAACCGACTTCTTAGAGACTAACAAGGCGGACAGAGCAATGTGGCTCTTAAAATGCCCGCAAGCTGTAACTCGCGCCCTTTCTAATTCCCCCGATGCCCCTTCCCGTCCGGTTGCTAAGGTCATCGTTTCTGTTGACCCGCTGCAATCGAATGACGATGATGATTCTTCCTCTACTGAGGTATATGATGACGTCTTGCTATGGTGTTTTTGGTTTTGGATTGAGGGTTCTCTTCTCACTGCATTGTGTGATTTCCTGTGTTTCTTACTTGCTTCTGCATGCTTTCCATTTTAG

Coding sequence (CDS)

ATGGACGTCGACGGCAAATCCATCGACCGTTGCAGTTCCAGAAAACACCAAGGCAACAACAACATCGTTGTTGGAACCGACTTCTTAGAGACTAACAAGGCGGACAGAGCAATGTGGCTCTTAAAATGCCCGCAAGCTGTAACTCGCGCCCTTTCTAATTCCCCCGATGCCCCTTCCCGTCCGGTTGCTAAGGTCATCGTTTCTGTTGACCCGCTGCAATCGAATGACGATGATGATTCTTCCTCTACTGAGGTATATGATGACGTCTTGCTATGGTGTTTTTGGTTTTGGATTGAGGGTTCTCTTCTCACTGCATTGTGTGATTTCCTGTGTTTCTTACTTGCTTCTGCATGCTTTCCATTTTAG

Protein sequence

MDVDGKSIDRCSSRKHQGNNNIVVGTDFLETNKADRAMWLLKCPQAVTRALSNSPDAPSRPVAKVIVSVDPLQSNDDDDSSSTEVYDDVLLWCFWFWIEGSLLTALCDFLCFLLASACFPF
Homology
[Close]
BLAST of Cla97C09G181970 vs. NCBI nr
Match: XP_008465664.1 (PREDICTED: general transcription factor IIF subunit 2 isoform X1 [Cucumis melo])

HSP 1 Score: 141.0 bits (354), Expect = 2.7e-30
Identity = 71/76 (93.42%), Postives = 72/76 (94.74%), Query Frame = 0 

Query: 1  MDVDGKSIDRCSSRKHQ-GNNNIVVGTDFLETNKADRAMWLLKCPQAVTRALSNSPDAPS 60
          MDVDGKSIDR +SRKHQ  NNNIVVGTDFLETNKADRAMWLLKCPQ VTRALSNSPDAPS
Sbjct: 1  MDVDGKSIDRSTSRKHQTNNNNIVVGTDFLETNKADRAMWLLKCPQVVTRALSNSPDAPS 60

Query: 61 RPVAKVIVSVDPLQSN 76
          RPVAKVIVSVDPLQSN
Sbjct: 61 RPVAKVIVSVDPLQSN 76

[Close]
BLAST of Cla97C09G181970 vs. NCBI nr
Match: XP_008465665.1 (PREDICTED: general transcription factor IIF subunit 2 isoform X2 [Cucumis melo])

HSP 1 Score: 141.0 bits (354), Expect = 2.7e-30
Identity = 71/76 (93.42%), Postives = 72/76 (94.74%), Query Frame = 0 

Query: 1  MDVDGKSIDRCSSRKHQ-GNNNIVVGTDFLETNKADRAMWLLKCPQAVTRALSNSPDAPS 60
          MDVDGKSIDR +SRKHQ  NNNIVVGTDFLETNKADRAMWLLKCPQ VTRALSNSPDAPS
Sbjct: 1  MDVDGKSIDRSTSRKHQTNNNNIVVGTDFLETNKADRAMWLLKCPQVVTRALSNSPDAPS 60

Query: 61 RPVAKVIVSVDPLQSN 76
          RPVAKVIVSVDPLQSN
Sbjct: 61 RPVAKVIVSVDPLQSN 76

[Close]
BLAST of Cla97C09G181970 vs. NCBI nr
Match: XP_004143805.1 (PREDICTED: general transcription factor IIF subunit 2 [Cucumis sativus])

HSP 1 Score: 139.8 bits (351), Expect = 6.0e-30
Identity = 71/76 (93.42%), Postives = 72/76 (94.74%), Query Frame = 0 

Query: 1  MDVDGKSIDRCSSRKHQGNNN-IVVGTDFLETNKADRAMWLLKCPQAVTRALSNSPDAPS 60
          MDVDGKSIDR +SRKHQ NNN IVVGTDFLETNKADRAMWLLKCPQ VTRALSNSPDAPS
Sbjct: 1  MDVDGKSIDRSTSRKHQTNNNSIVVGTDFLETNKADRAMWLLKCPQLVTRALSNSPDAPS 60

Query: 61 RPVAKVIVSVDPLQSN 76
          RPVAKVIVSVDPLQSN
Sbjct: 61 RPVAKVIVSVDPLQSN 76

[Close]
BLAST of Cla97C09G181970 vs. NCBI nr
Match: KGN51216.1 (hypothetical protein Csa_5G492870 [Cucumis sativus])

HSP 1 Score: 139.8 bits (351), Expect = 6.0e-30
Identity = 71/76 (93.42%), Postives = 72/76 (94.74%), Query Frame = 0 

Query: 1  MDVDGKSIDRCSSRKHQGNNN-IVVGTDFLETNKADRAMWLLKCPQAVTRALSNSPDAPS 60
          MDVDGKSIDR +SRKHQ NNN IVVGTDFLETNKADRAMWLLKCPQ VTRALSNSPDAPS
Sbjct: 1  MDVDGKSIDRSTSRKHQTNNNSIVVGTDFLETNKADRAMWLLKCPQLVTRALSNSPDAPS 60

Query: 61 RPVAKVIVSVDPLQSN 76
          RPVAKVIVSVDPLQSN
Sbjct: 61 RPVAKVIVSVDPLQSN 76

[Close]
BLAST of Cla97C09G181970 vs. NCBI nr
Match: XP_022133483.1 (general transcription factor IIF subunit 2-like [Momordica charantia])

HSP 1 Score: 132.1 bits (331), Expect = 1.3e-27
Identity = 68/77 (88.31%), Postives = 68/77 (88.31%), Query Frame = 0 

Query: 1  MDVDGKSIDRCSSRKHQGNNNIV--VGTDFLETNKADRAMWLLKCPQAVTRALSNSPDAP 60
          MDVD K IDRCSSRK Q NNN V   GTDFLETNKADRAMWLLKCPQAVTRALSNSPD P
Sbjct: 1  MDVDDKPIDRCSSRKLQTNNNSVSGTGTDFLETNKADRAMWLLKCPQAVTRALSNSPDGP 60

Query: 61 SRPVAKVIVSVDPLQSN 76
          SRPVAKVIVSVDPLQSN
Sbjct: 61 SRPVAKVIVSVDPLQSN 77

[Close]
BLAST of Cla97C09G181970 vs. TrEMBL
Match: tr|A0A1S3CPE2|A0A1S3CPE2_CUCME (general transcription factor IIF subunit 2 isoform X1 OS=Cucumis melo OX=3656 GN=LOC103503304 PE=4 SV=1)

HSP 1 Score: 141.0 bits (354), Expect = 1.8e-30
Identity = 71/76 (93.42%), Postives = 72/76 (94.74%), Query Frame = 0 

Query: 1  MDVDGKSIDRCSSRKHQ-GNNNIVVGTDFLETNKADRAMWLLKCPQAVTRALSNSPDAPS 60
          MDVDGKSIDR +SRKHQ  NNNIVVGTDFLETNKADRAMWLLKCPQ VTRALSNSPDAPS
Sbjct: 1  MDVDGKSIDRSTSRKHQTNNNNIVVGTDFLETNKADRAMWLLKCPQVVTRALSNSPDAPS 60

Query: 61 RPVAKVIVSVDPLQSN 76
          RPVAKVIVSVDPLQSN
Sbjct: 61 RPVAKVIVSVDPLQSN 76

[Close]
BLAST of Cla97C09G181970 vs. TrEMBL
Match: tr|A0A1S3CPB8|A0A1S3CPB8_CUCME (general transcription factor IIF subunit 2 isoform X2 OS=Cucumis melo OX=3656 GN=LOC103503304 PE=4 SV=1)

HSP 1 Score: 141.0 bits (354), Expect = 1.8e-30
Identity = 71/76 (93.42%), Postives = 72/76 (94.74%), Query Frame = 0 

Query: 1  MDVDGKSIDRCSSRKHQ-GNNNIVVGTDFLETNKADRAMWLLKCPQAVTRALSNSPDAPS 60
          MDVDGKSIDR +SRKHQ  NNNIVVGTDFLETNKADRAMWLLKCPQ VTRALSNSPDAPS
Sbjct: 1  MDVDGKSIDRSTSRKHQTNNNNIVVGTDFLETNKADRAMWLLKCPQVVTRALSNSPDAPS 60

Query: 61 RPVAKVIVSVDPLQSN 76
          RPVAKVIVSVDPLQSN
Sbjct: 61 RPVAKVIVSVDPLQSN 76

[Close]
BLAST of Cla97C09G181970 vs. TrEMBL
Match: tr|A0A0A0KU09|A0A0A0KU09_CUCSA (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_5G492870 PE=4 SV=1)

HSP 1 Score: 139.8 bits (351), Expect = 4.0e-30
Identity = 71/76 (93.42%), Postives = 72/76 (94.74%), Query Frame = 0 

Query: 1  MDVDGKSIDRCSSRKHQGNNN-IVVGTDFLETNKADRAMWLLKCPQAVTRALSNSPDAPS 60
          MDVDGKSIDR +SRKHQ NNN IVVGTDFLETNKADRAMWLLKCPQ VTRALSNSPDAPS
Sbjct: 1  MDVDGKSIDRSTSRKHQTNNNSIVVGTDFLETNKADRAMWLLKCPQLVTRALSNSPDAPS 60

Query: 61 RPVAKVIVSVDPLQSN 76
          RPVAKVIVSVDPLQSN
Sbjct: 61 RPVAKVIVSVDPLQSN 76

[Close]
BLAST of Cla97C09G181970 vs. TrEMBL
Match: tr|A0A2I4FAL6|A0A2I4FAL6_9ROSI (general transcription factor IIF subunit 2 OS=Juglans regia OX=51240 GN=LOC108997057 PE=4 SV=1)

HSP 1 Score: 78.2 bits (191), Expect = 1.4e-11
Identity = 41/77 (53.25%), Postives = 57/77 (74.03%), Query Frame = 0 

Query: 1  MDVDGKSIDRCSSRKHQGNNNIVVGTDFLETNKADRAMWLLKCPQAVTRALSNSPDA--P 60
          MD  G S    S +K+   NNI+   +FL+T+KA+RAMWL+KCP  V+R+L + PDA  P
Sbjct: 1  MDEQGGSTR--SGQKNGNGNNII--DEFLDTSKAERAMWLMKCPPLVSRSLQSPPDAPDP 60

Query: 61 SRPVAKVIVSVDPLQSN 76
          +RPVAKV++S+DPL+SN
Sbjct: 61 ARPVAKVVLSIDPLRSN 73

[Close]
BLAST of Cla97C09G181970 vs. TrEMBL
Match: tr|A0A2P2PAY1|A0A2P2PAY1_RHIMU (Uncharacterized protein OS=Rhizophora mucronata OX=61149 PE=4 SV=1)

HSP 1 Score: 75.5 bits (184), Expect = 9.3e-11
Identity = 40/77 (51.95%), Postives = 52/77 (67.53%), Query Frame = 0 

Query: 1  MDVDGKSIDRCSSRKHQGNNNIVVGTDFLETNKADRAMWLLKCPQAVTRALSNS--PDAP 60
          MD  G S +  ++   + N   VV   FLET+KADRA+WL+KCP  VTR+L  S  P+ P
Sbjct: 1  MDKAGNSSNGSAANGIENNIGGVVLGGFLETSKADRAVWLMKCPSLVTRSLEASPLPEGP 60

Query: 61 SRPVAKVIVSVDPLQSN 76
           RPVAKV++S+DPL SN
Sbjct: 61 YRPVAKVVLSIDPLNSN 77

The following BLAST results are available for this feature:
BLAST of Cla97C09G181970 vs. NCBI nr
Match NameE-valueIdentityDescription
XP_008465664.12.7e-3093.42PREDICTED: general transcription factor IIF subunit 2 isoform X1 [Cucumis melo][more]
XP_008465665.12.7e-3093.42PREDICTED: general transcription factor IIF subunit 2 isoform X2 [Cucumis melo][more]
XP_004143805.16.0e-3093.42PREDICTED: general transcription factor IIF subunit 2 [Cucumis sativus][more]
KGN51216.16.0e-3093.42hypothetical protein Csa_5G492870 [Cucumis sativus][more]
XP_022133483.11.3e-2788.31general transcription factor IIF subunit 2-like [Momordica charantia][more]
BLAST of Cla97C09G181970 vs. TrEMBL
Match NameE-valueIdentityDescription
tr|A0A1S3CPE2|A0A1S3CPE2_CUCME1.8e-3093.42general transcription factor IIF subunit 2 isoform X1 OS=Cucumis melo OX=3656 GN... [more]
tr|A0A1S3CPB8|A0A1S3CPB8_CUCME1.8e-3093.42general transcription factor IIF subunit 2 isoform X2 OS=Cucumis melo OX=3656 GN... [more]
tr|A0A0A0KU09|A0A0A0KU09_CUCSA4.0e-3093.42Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_5G492870 PE=4 SV=1[more]
tr|A0A2I4FAL6|A0A2I4FAL6_9ROSI1.4e-1153.25general transcription factor IIF subunit 2 OS=Juglans regia OX=51240 GN=LOC10899... [more]
tr|A0A2P2PAY1|A0A2P2PAY1_RHIMU9.3e-1151.95Uncharacterized protein OS=Rhizophora mucronata OX=61149 PE=4 SV=1[more]
BLAST of Cla97C09G181970 vs. Swiss-Prot
Match NameE-valueIdentityDescription
BLAST of Cla97C09G181970 vs. TAIR10
Match NameE-valueIdentityDescription
Annotated Terms
The following terms have been associated with this gene:
Vocabulary: Cellular Component
TermDefinition
GO:0005674transcription factor TFIIF complex
Vocabulary: Biological Process
TermDefinition
GO:0006366transcription from RNA polymerase II promoter
GO:0006367transcription initiation from RNA polymerase II promoter
Vocabulary: INTERPRO
TermDefinition
IPR003196TFIIF_beta
GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006366 transcription from RNA polymerase II promoter
biological_process GO:0006367 transcription initiation from RNA polymerase II promoter
biological_process GO:0006446 regulation of translational initiation
biological_process GO:0032508 DNA duplex unwinding
biological_process GO:0032968 positive regulation of transcription elongation from RNA polymerase II promoter
cellular_component GO:0005674 transcription factor TFIIF complex
cellular_component GO:0005840 ribosome
molecular_function GO:0016787 hydrolase activity
molecular_function GO:0003824 catalytic activity
molecular_function GO:0003743 translation initiation factor activity
molecular_function GO:0003674 molecular_function
molecular_function GO:0003678 DNA helicase activity
Relationships

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

Feature NameUnique NameType
Cla97C09G181970.1Cla97C09G181970.1mRNA


InterPro
Analysis Name: InterPro Annotations of watermelon 97103 v2
Date Performed: 2019-05-12
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR003196Transcription initiation factor IIF, beta subunitPANTHERPTHR10445GENERAL TRANSCRIPTION FACTOR IIF SUBUNIT 2coord: 12..78
NoneNo IPR availablePANTHERPTHR10445:SF2TRANSCRIPTION INITIATION FACTOR IIF, BETA SUBUNITcoord: 12..78

Synteny
The following gene(s) are orthologous to this gene:
GeneOrthologueOrganismBlock
Cla97C09G181970Cla004737Watermelon (97103) v1wmwmbB042
Cla97C09G181970Csa5G492870Cucumber (Chinese Long) v2cuwmbB407
Cla97C09G181970ClCG09G020560Watermelon (Charleston Gray)wcgwmbB035
Cla97C09G181970Cucsa.275560Cucumber (Gy14) v1cgywmbB481
Cla97C09G181970CmaCh04G025910Cucurbita maxima (Rimu)cmawmbB797
Cla97C09G181970CmoCh04G027130Cucurbita moschata (Rifu)cmowmbB772
Cla97C09G181970CsGy5G016560Cucumber (Gy14) v2cgybwmbB389
Cla97C09G181970Carg04544Silver-seed gourdcarwmbB0714
Cla97C09G181970CsaV3_5G025800Cucumber (Chinese Long) v3cucwmbB424
Cla97C09G181970Bhi06G000566Wax gourdwgowmbB157
The following gene(s) are paralogous to this gene:

None

The following block(s) are covering this gene:
GeneOrganismBlock
Cla97C09G181970Silver-seed gourdcarwmbB0279
Cla97C09G181970Cucurbita maxima (Rimu)cmawmbB322
Cla97C09G181970Cucurbita moschata (Rifu)cmowmbB305
Cla97C09G181970Wild cucumber (PI 183967)cpiwmbB428
Cla97C09G181970Bottle gourd (USVL1VR-Ls)lsiwmbB208
Cla97C09G181970Melon (DHL92) v3.6.1medwmbB034
Cla97C09G181970Melon (DHL92) v3.5.1mewmbB038