MS020398 (gene) Bitter gourd (TR) v1

Overview
NameMS020398
Typegene
OrganismMomordica charantia cv. TR (Bitter gourd (TR) v1)
DescriptionB3 domain-containing transcription factor VRN1-like
Locationscaffold211: 263238 .. 263357 (-)
RNA-Seq ExpressionMS020398
SyntenyMS020398
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
TTGGGAAGTGGTTGGAAGAGATTTGCTCGAGACAATAGCTTGCAAGTCGGCGATGTCTGCGTTTTTGAGATGATGAGAAAGAACAGTAGAAGAATCTCGCTCAAAGTTTACATTTTTCAA

mRNA sequence

TTGGGAAGTGGTTGGAAGAGATTTGCTCGAGACAATAGCTTGCAAGTCGGCGATGTCTGCGTTTTTGAGATGATGAGAAAGAACAGTAGAAGAATCTCGCTCAAAGTTTACATTTTTCAA

Coding sequence (CDS)

TTGGGAAGTGGTTGGAAGAGATTTGCTCGAGACAATAGCTTGCAAGTCGGCGATGTCTGCGTTTTTGAGATGATGAGAAAGAACAGTAGAAGAATCTCGCTCAAAGTTTACATTTTTCAA

Protein sequence

LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ
Homology
BLAST of MS020398 vs. NCBI nr
Match: XP_022158239.1 (B3 domain-containing transcription factor VRN1-like [Momordica charantia])

HSP 1 Score: 85.5 bits (210), Expect = 1.1e-13
Identity = 40/40 (100.00%), Postives = 40/40 (100.00%), Query Frame = 0

Query: 1   LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 41
           LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ
Sbjct: 510 LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 549

BLAST of MS020398 vs. NCBI nr
Match: XP_038900379.1 (B3 domain-containing transcription factor VRN1-like [Benincasa hispida])

HSP 1 Score: 58.9 bits (141), Expect = 1.1e-05
Identity = 26/37 (70.27%), Postives = 30/37 (81.08%), Query Frame = 0

Query: 4   GWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 41
           GWK F RDN+L+VGD CVFEM+RKNSRRI  KV  F+
Sbjct: 264 GWKNFVRDNNLKVGDFCVFEMIRKNSRRICFKVENFR 300

BLAST of MS020398 vs. NCBI nr
Match: XP_016902162.1 (PREDICTED: B3 domain-containing protein At3g18960-like [Cucumis melo])

HSP 1 Score: 55.8 bits (133), Expect = 9.6e-05
Identity = 24/40 (60.00%), Postives = 32/40 (80.00%), Query Frame = 0

Query: 1   LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 41
           L S W++F +DN+L+VGD CVFEM+ K+S RIS KV IF+
Sbjct: 246 LASSWRKFKKDNNLKVGDFCVFEMIGKSSTRISFKVEIFR 285

BLAST of MS020398 vs. NCBI nr
Match: XP_024021327.1 (B3 domain-containing transcription factor VRN1 [Morus notabilis])

HSP 1 Score: 55.5 bits (132), Expect = 1.3e-04
Identity = 21/40 (52.50%), Postives = 32/40 (80.00%), Query Frame = 0

Query: 1   LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 41
           +G GW+ F+ DN+LQVGDVCVFE+++K    I L+V+I++
Sbjct: 387 IGKGWRLFSSDNNLQVGDVCVFELLKKEKNNIVLRVWIYR 426

BLAST of MS020398 vs. NCBI nr
Match: CAD6205877.1 (unnamed protein product [Miscanthus lutarioriparius])

HSP 1 Score: 55.5 bits (132), Expect = 1.3e-04
Identity = 22/38 (57.89%), Postives = 32/38 (84.21%), Query Frame = 0

Query: 1    LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYI 39
            L  GW +FARDN L+VGD+C+FE ++KN R++++KVYI
Sbjct: 1013 LNGGWSKFARDNGLRVGDICLFE-LKKNKRKLTMKVYI 1049

BLAST of MS020398 vs. ExPASy Swiss-Prot
Match: Q8RYD1 (B3 domain-containing protein REM16 OS=Arabidopsis thaliana OX=3702 GN=REM16 PE=2 SV=1)

HSP 1 Score: 49.7 bits (117), Expect = 9.1e-06
Identity = 19/40 (47.50%), Postives = 29/40 (72.50%), Query Frame = 0

Query: 1   LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 41
           + +GWK+F +DN+L+ GDVCVFE     ++ + L VYIF+
Sbjct: 280 ISTGWKKFVQDNNLREGDVCVFEPANSETKPLHLNVYIFR 319

BLAST of MS020398 vs. ExPASy Swiss-Prot
Match: Q851V5 (Putative B3 domain-containing protein Os03g0621600 OS=Oryza sativa subsp. japonica OX=39947 GN=Os03g0621600 PE=3 SV=1)

HSP 1 Score: 47.8 bits (112), Expect = 3.4e-05
Identity = 16/36 (44.44%), Postives = 29/36 (80.56%), Query Frame = 0

Query: 1    LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKV 37
            L +GW RFA++N+LQVGD+C+FE+++K    +++ +
Sbjct: 990  LSTGWSRFAQENNLQVGDICLFELLKKKEYSMNVHI 1025

BLAST of MS020398 vs. ExPASy Swiss-Prot
Match: Q2QMT6 (B3 domain-containing protein LOC_Os12g40080 OS=Oryza sativa subsp. japonica OX=39947 GN=Os12g0591400 PE=3 SV=1)

HSP 1 Score: 45.1 bits (105), Expect = 2.2e-04
Identity = 16/40 (40.00%), Postives = 30/40 (75.00%), Query Frame = 0

Query: 1   LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 41
           LG GW +F  DN +++GD+C+F++M KN +++ + V+I +
Sbjct: 447 LGGGWGKFVDDNKIKLGDICLFQLM-KNKKKLMMMVHIIR 485

BLAST of MS020398 vs. ExPASy Swiss-Prot
Match: Q851W4 (B3 domain-containing protein Os03g0620500 OS=Oryza sativa subsp. japonica OX=39947 GN=Os03g0620500 PE=2 SV=1)

HSP 1 Score: 43.9 bits (102), Expect = 5.0e-04
Identity = 15/37 (40.54%), Postives = 27/37 (72.97%), Query Frame = 0

Query: 4   GWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 41
           GW+ F RDN LQ  D+C+F++ + + R +++KV+I +
Sbjct: 504 GWRDFVRDNRLQTEDICLFQLTKNSERGLAMKVHIIR 540

BLAST of MS020398 vs. ExPASy Swiss-Prot
Match: Q6AV21 (B3 domain-containing protein Os03g0619800 OS=Oryza sativa subsp. japonica OX=39947 GN=Os03g0619800 PE=3 SV=1)

HSP 1 Score: 43.9 bits (102), Expect = 5.0e-04
Identity = 17/38 (44.74%), Postives = 31/38 (81.58%), Query Frame = 0

Query: 1   LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYI 39
           L +GW++FA DN L+VGD C+FE+ +K  ++++++V+I
Sbjct: 490 LTAGWRKFAHDNRLRVGDFCLFELKKK--KKLTMEVHI 525

BLAST of MS020398 vs. ExPASy TrEMBL
Match: A0A6J1DYT9 (B3 domain-containing transcription factor VRN1-like OS=Momordica charantia OX=3673 GN=LOC111024772 PE=4 SV=1)

HSP 1 Score: 85.5 bits (210), Expect = 5.5e-14
Identity = 40/40 (100.00%), Postives = 40/40 (100.00%), Query Frame = 0

Query: 1   LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 41
           LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ
Sbjct: 510 LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 549

BLAST of MS020398 vs. ExPASy TrEMBL
Match: A0A1S4E1R1 (B3 domain-containing protein At3g18960-like OS=Cucumis melo OX=3656 GN=LOC103497525 PE=4 SV=1)

HSP 1 Score: 55.8 bits (133), Expect = 4.7e-05
Identity = 24/40 (60.00%), Postives = 32/40 (80.00%), Query Frame = 0

Query: 1   LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 41
           L S W++F +DN+L+VGD CVFEM+ K+S RIS KV IF+
Sbjct: 246 LASSWRKFKKDNNLKVGDFCVFEMIGKSSTRISFKVEIFR 285

BLAST of MS020398 vs. ExPASy TrEMBL
Match: A0A6J1EQN2 (B3 domain-containing protein REM8-like isoform X1 OS=Cucurbita moschata OX=3662 GN=LOC111434972 PE=4 SV=1)

HSP 1 Score: 53.1 bits (126), Expect = 3.0e-04
Identity = 24/40 (60.00%), Postives = 30/40 (75.00%), Query Frame = 0

Query: 1   LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 41
           L SGW++F  DN L+V D CVFEM+RKNS  I+ KV IF+
Sbjct: 258 LRSGWRKFFVDNDLKVADCCVFEMIRKNSTTIAFKVDIFR 297

BLAST of MS020398 vs. ExPASy TrEMBL
Match: A0A6J1EJ99 (B3 domain-containing protein REM8-like isoform X2 OS=Cucurbita moschata OX=3662 GN=LOC111434972 PE=4 SV=1)

HSP 1 Score: 53.1 bits (126), Expect = 3.0e-04
Identity = 24/40 (60.00%), Postives = 30/40 (75.00%), Query Frame = 0

Query: 1   LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 41
           L SGW++F  DN L+V D CVFEM+RKNS  I+ KV IF+
Sbjct: 246 LRSGWRKFFVDNDLKVADCCVFEMIRKNSTTIAFKVDIFR 285

BLAST of MS020398 vs. ExPASy TrEMBL
Match: A5BWP2 (Uncharacterized protein OS=Vitis vinifera OX=29760 GN=VITISV_008016 PE=4 SV=1)

HSP 1 Score: 52.8 bits (125), Expect = 4.0e-04
Identity = 26/40 (65.00%), Postives = 31/40 (77.50%), Query Frame = 0

Query: 1   LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 41
           L SGW++FARDN LQVGDVCVFE++  NS    LKV IF+
Sbjct: 711 LSSGWRKFARDNYLQVGDVCVFELI--NSTANLLKVVIFR 748

BLAST of MS020398 vs. TAIR 10
Match: AT4G33280.1 (AP2/B3-like transcriptional factor family protein )

HSP 1 Score: 49.7 bits (117), Expect = 6.4e-07
Identity = 19/40 (47.50%), Postives = 29/40 (72.50%), Query Frame = 0

Query: 1   LGSGWKRFARDNSLQVGDVCVFEMMRKNSRRISLKVYIFQ 41
           + +GWK+F +DN+L+ GDVCVFE     ++ + L VYIF+
Sbjct: 280 ISTGWKKFVQDNNLREGDVCVFEPANSETKPLHLNVYIFR 319

The following BLAST results are available for this feature:
Match NameE-valueIdentityDescription
XP_022158239.11.1e-13100.00B3 domain-containing transcription factor VRN1-like [Momordica charantia][more]
XP_038900379.11.1e-0570.27B3 domain-containing transcription factor VRN1-like [Benincasa hispida][more]
XP_016902162.19.6e-0560.00PREDICTED: B3 domain-containing protein At3g18960-like [Cucumis melo][more]
XP_024021327.11.3e-0452.50B3 domain-containing transcription factor VRN1 [Morus notabilis][more]
CAD6205877.11.3e-0457.89unnamed protein product [Miscanthus lutarioriparius][more]
Match NameE-valueIdentityDescription
Q8RYD19.1e-0647.50B3 domain-containing protein REM16 OS=Arabidopsis thaliana OX=3702 GN=REM16 PE=2... [more]
Q851V53.4e-0544.44Putative B3 domain-containing protein Os03g0621600 OS=Oryza sativa subsp. japoni... [more]
Q2QMT62.2e-0440.00B3 domain-containing protein LOC_Os12g40080 OS=Oryza sativa subsp. japonica OX=3... [more]
Q851W45.0e-0440.54B3 domain-containing protein Os03g0620500 OS=Oryza sativa subsp. japonica OX=399... [more]
Q6AV215.0e-0444.74B3 domain-containing protein Os03g0619800 OS=Oryza sativa subsp. japonica OX=399... [more]
Match NameE-valueIdentityDescription
A0A6J1DYT95.5e-14100.00B3 domain-containing transcription factor VRN1-like OS=Momordica charantia OX=36... [more]
A0A1S4E1R14.7e-0560.00B3 domain-containing protein At3g18960-like OS=Cucumis melo OX=3656 GN=LOC103497... [more]
A0A6J1EQN23.0e-0460.00B3 domain-containing protein REM8-like isoform X1 OS=Cucurbita moschata OX=3662 ... [more]
A0A6J1EJ993.0e-0460.00B3 domain-containing protein REM8-like isoform X2 OS=Cucurbita moschata OX=3662 ... [more]
A5BWP24.0e-0465.00Uncharacterized protein OS=Vitis vinifera OX=29760 GN=VITISV_008016 PE=4 SV=1[more]
Match NameE-valueIdentityDescription
AT4G33280.16.4e-0747.50AP2/B3-like transcriptional factor family protein [more]
InterPro
Analysis Name: InterPro Annotations of Bitter gourd (TR) v1
Date Performed: 2021-10-25
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR015300DNA-binding pseudobarrel domain superfamilyGENE3D2.40.330.10coord: 1..40
e-value: 9.4E-14
score: 53.2
IPR015300DNA-binding pseudobarrel domain superfamilySUPERFAMILY101936DNA-binding pseudobarrel domaincoord: 1..39
IPR003340B3 DNA binding domainPFAMPF02362B3coord: 1..38
e-value: 4.0E-10
score: 39.5
IPR003340B3 DNA binding domainPROSITEPS50863B3coord: 1..40
score: 11.913596
IPR003340B3 DNA binding domainCDDcd10017B3_DNAcoord: 1..39
e-value: 5.52573E-12
score: 52.3301

Relationships

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

Feature NameUnique NameType
MS020398.1MS020398.1mRNA


GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
molecular_function GO:0003677 DNA binding