Rh6BG028000

transcription regulatory region sequence-specific DNA binding

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0009648
Physical Location & Seq
Forward (+)
4173936 .. 4174645
710 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG028000.1

Sequence Viewer

Length: 696 bp
ATGGCCGGTAGGGTCAACAGAGGTCGCCAGAAAATTAAAATGAAGAAAATAGAAAGGGAGAGTAATTGCCGGGTTACTTTCTCTAAGAGAAAGTCTTGCATTTTCAAAAAGTCGAGTGAGCTAAGCACGCTCACAGGTGCAGAGATCGCCATAATCATAAGTTCTCCCGGAAACAAGACATTCTCATTCGGCCACCCTTCTGTGCAGGCCATCGTTGACCGCTATCTGTCTCCGGCCCCTGAACCCCCAGCTAGCACAGACATCACTGAGAAGTTCTTGGAAAATTTTTGCATCATGAAATTGAACAGTCTCAACGCGGAGTGCACTGCCTTAAATGAGGAGCTGTTGAACTGTAGACAGCAGGGAGAGGTGCTTAAAAGGATTGCGAGGGCTGGCCAGGCTGACGAGTGGTATGGGAGGTCCTTAGACAGCATGGACGAGGAACAACGAGACTCATTTAAGAAAGACTTGATTAAGCTGCATGGTATTGTGGCTCAACGGTCTAAAGAATGGCATCAAAGGCAAATTGAGCTGATGCAACAGCACGCTGCAATGGGGGCTGCTGGGGGATTTAGGGATTTTATGTCACCGAGTGTCGCCCCTATTAGGTCTTTTCATGAGGGGAGTTCATCGAGCCAGGGTGCGATGCATCCCGATGCTGCTTCATCTTCCTCCTCTTTTTGGCAGGCAATTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
SRF-TF

Protein Analysis

231

Amino Acids

25.76

Weight (kDa)

9.13

Isoelectric Point (pI)

57.5

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRF-TF PF00319 16 - 63 3.6e-18 SRF-type transcription factor (DNA-binding and dimerisation domain)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 355
AccII CGCG 1 cut(s) 317
AciI CCGC 2 cut(s) 220, 317
AcoI YGGCCR 3 cut(s) 3, 190, 394
AcsI RAATTY 1 cut(s) 283
AdeI CACNNNGTG 1 cut(s) 593
AfiI CCNNNNNNNGG 2 cut(s) 606, 681
AgsI TTSAA 3 cut(s) 106, 304, 349
AjnI CCWGG 2 cut(s) 396, 636
AluBI AGCT 5 cut(s) 121, 251, 343, 478, 532
AluI AGCT 5 cut(s) 121, 251, 343, 478, 532
Alw21I GWGCWC 1 cut(s) 326
Alw26I GTCTC 3 cut(s) 234, 314, 444
Alw44I GTGCAC 1 cut(s) 322
AoxI GGCC 5 cut(s) 3, 190, 207, 234, 394
ApaLI GTGCAC 1 cut(s) 322
ApeKI GCWGC 4 cut(s) 478, 548, 560, 659
ApoI RAATTY 1 cut(s) 283
AspS9I GGNCC 2 cut(s) 235, 420
AsuC2I CCSGG 2 cut(s) 71, 168
AsuHPI GGTGA 1 cut(s) 579
AsuNHI GCTAGC 1 cut(s) 251
AvaII GGWCC 1 cut(s) 420
BaeGI GKGCMC 1 cut(s) 326
BalI TGGCCA 1 cut(s) 396
Bbv12I GWGCWC 1 cut(s) 326
BbvI GCAGC 4 cut(s) 465, 535, 547, 646
BccI CCATC 1 cut(s) 218
BciT130I CCWGG 2 cut(s) 398, 638
BcnI CCSGG 2 cut(s) 71, 168
BcoDI GTCTC 3 cut(s) 234, 314, 444
BfaI CTAG 1 cut(s) 252
BfmI CTRYAG 1 cut(s) 352
BisI GCNGC 4 cut(s) 479, 549, 561, 660
BlpI GCTNAGC 1 cut(s) 122
BlsI GCNGC 4 cut(s) 480, 550, 562, 661
Bme1390I CCNGG 4 cut(s) 71, 168, 398, 638
Bme18I GGWCC 1 cut(s) 420
BmgT120I GGNCC 2 cut(s) 235, 420
BmiI GGNNCC 1 cut(s) 237
BmrFI CCNGG 4 cut(s) 71, 168, 398, 638
BmsI GCATC 6 cut(s) 300, 523, 525, 636, 646, 658
BmtI GCTAGC 1 cut(s) 255
Bpu1102I GCTNAGC 1 cut(s) 122
BpuMI CCSGG 2 cut(s) 71, 168
BsaJI CCNNGG 1 cut(s) 637
Bsc4I CCNNNNNNNGG 2 cut(s) 606, 681
Bse118I RCCGGY 1 cut(s) 5
Bse3DI GCAATG 1 cut(s) 558
BseBI CCWGG 2 cut(s) 398, 638
BseDI CCNNGG 1 cut(s) 637
BseGI GGATG 1 cut(s) 649
BseLI CCNNNNNNNGG 2 cut(s) 606, 681
BseMI GCAATG 1 cut(s) 558
BseMII CTCAG 1 cut(s) 258
BseRI GAGGAG 2 cut(s) 353, 664
BseSI GKGCMC 1 cut(s) 326
BseXI GCAGC 4 cut(s) 465, 535, 547, 646
BseYI CCCAGC 2 cut(s) 247, 563
BsgI GTGCAG 2 cut(s) 159, 224
Bsh1236I CGCG 1 cut(s) 317
BshFI GGCC 5 cut(s) 5, 192, 209, 236, 396
BsiHKAI GWGCWC 1 cut(s) 326
BsiSI CCGG 4 cut(s) 6, 70, 168, 233
BslI CCNNNNNNNGG 2 cut(s) 606, 681
BsmAI GTCTC 3 cut(s) 234, 314, 444
BsnI GGCC 5 cut(s) 5, 192, 209, 236, 396
Bsp1286I GDGCHC 1 cut(s) 326
Bsp143I GATC 1 cut(s) 144
Bsp1720I GCTNAGC 1 cut(s) 122
BspACI CCGC 2 cut(s) 220, 317
BspANI GGCC 5 cut(s) 5, 192, 209, 236, 396
BspCNI CTCAG 1 cut(s) 259
BspFNI CGCG 1 cut(s) 317
BspHI TCATGA 2 cut(s) 294, 616
BspLI GGNNCC 1 cut(s) 237
BspOI GCTAGC 1 cut(s) 255
BsrDI GCAATG 1 cut(s) 558
BsrFI RCCGGY 1 cut(s) 5
BssAI RCCGGY 1 cut(s) 5
BssECI CCNNGG 1 cut(s) 637
BssMI GATC 1 cut(s) 144
Bst2UI CCWGG 2 cut(s) 398, 638
Bst4CI ACNGT 3 cut(s) 308, 353, 501
BstC8I GCNNGC 6 cut(s) 128, 207, 253, 394, 546, 687
BstDEI CTNAG 4 cut(s) 84, 122, 267, 424
BstF5I GGATG 1 cut(s) 649
BstFNI CGCG 1 cut(s) 317
BstKTI GATC 1 cut(s) 147
BstMAI GTCTC 3 cut(s) 234, 314, 444
BstMBI GATC 1 cut(s) 144
BstMWI GCNNNNNNNGC 6 cut(s) 127, 146, 398, 520, 529, 557
BstNI CCWGG 2 cut(s) 398, 638
BstSCI CCNGG 4 cut(s) 69, 166, 396, 636
BstSFI CTRYAG 1 cut(s) 352
BstSLI GKGCMC 1 cut(s) 326
BstUI CGCG 1 cut(s) 317
BstV1I GCAGC 4 cut(s) 465, 535, 547, 646
BsuRI GGCC 5 cut(s) 5, 192, 209, 236, 396
BtgZI GCGATG 1 cut(s) 659
BtsCI GGATG 1 cut(s) 649
BtsI GCAGTG 1 cut(s) 324
BtsIMutI CAGTG 2 cut(s) 264, 324
Cac8I GCNNGC 6 cut(s) 128, 207, 253, 394, 546, 687
CciI TCATGA 2 cut(s) 294, 616
Cfr10I RCCGGY 1 cut(s) 5
Cfr13I GGNCC 2 cut(s) 235, 420
CviAII CATG 4 cut(s) 295, 433, 482, 617
DdeI CTNAG 4 cut(s) 84, 122, 267, 424
DpnI GATC 1 cut(s) 146
DpnII GATC 1 cut(s) 144
DraIII CACNNNGTG 1 cut(s) 593
EaeI YGGCCR 3 cut(s) 3, 190, 394
Eco47I GGWCC 1 cut(s) 420
EcoO109I RGGNCCY 1 cut(s) 420
EcoRII CCWGG 2 cut(s) 396, 636
EcoT22I ATGCAT 1 cut(s) 651
FaeI CATG 4 cut(s) 298, 436, 485, 620
FaiI YATR 8 cut(s) 152, 158, 296, 414, 434, 483, 584, 618
FalI AAGNNNNNCTT 2 cut(s) 452, 484
FatI CATG 4 cut(s) 294, 432, 481, 616
FblI GTMKAC 1 cut(s) 355
Fnu4HI GCNGC 4 cut(s) 479, 549, 561, 660
FokI GGATG 1 cut(s) 636
Fsp4HI GCNGC 4 cut(s) 479, 549, 561, 660
FspBI CTAG 1 cut(s) 252
GluI GCNGC 4 cut(s) 479, 549, 561, 660
GsaI CCCAGC 2 cut(s) 251, 567
HaeIII GGCC 5 cut(s) 5, 192, 209, 236, 396
HapII CCGG 4 cut(s) 6, 70, 168, 233
Hin1II CATG 4 cut(s) 298, 436, 485, 620
HincII GTYRAC 2 cut(s) 16, 217
HindII GTYRAC 2 cut(s) 16, 217
HinfI GANTC 1 cut(s) 452
HpaII CCGG 4 cut(s) 6, 70, 168, 233
HphI GGTGA 1 cut(s) 579
Hpy166II GTNNAC 4 cut(s) 16, 217, 324, 356
Hpy188III TCNNGA 3 cut(s) 295, 617, 653
Hpy8I GTNNAC 4 cut(s) 16, 217, 324, 356
HpyAV CCTTC 1 cut(s) 207
HpyCH4III ACNGT 3 cut(s) 308, 353, 501
HpyCH4V TGCA 9 cut(s) 99, 140, 205, 291, 324, 481, 538, 551, 649
HpyF10VI GCNNNNNNNGC 6 cut(s) 127, 146, 398, 520, 529, 557
HpyF3I CTNAG 4 cut(s) 84, 122, 267, 424
Hsp92II CATG 4 cut(s) 298, 436, 485, 620
Kzo9I GATC 1 cut(s) 144
LmnI GCTCC 1 cut(s) 340
Lsp1109I GCAGC 4 cut(s) 465, 535, 547, 646
LweI GCATC 6 cut(s) 300, 523, 525, 636, 646, 658
MaeI CTAG 1 cut(s) 252
MaeIII GTNAC 2 cut(s) 73, 585
MalI GATC 1 cut(s) 146
MboI GATC 1 cut(s) 144
MboII GAAGA 2 cut(s) 55, 660
MhlI GDGCHC 1 cut(s) 326
MlsI TGGCCA 1 cut(s) 396
MluCI AATT 6 cut(s) 33, 64, 283, 299, 525, 690
MluNI TGGCCA 1 cut(s) 396
MlyI GAGTC 1 cut(s) 446
MnlI CCTC 9 cut(s) 14, 331, 361, 381, 411, 433, 613, 682, 685
Mox20I TGGCCA 1 cut(s) 396
Mph1103I ATGCAT 1 cut(s) 651
MscI TGGCCA 1 cut(s) 396
MseI TTAA 5 cut(s) 36, 332, 375, 459, 474
MslI CAYNNNNRTG 1 cut(s) 654
Msp20I TGGCCA 1 cut(s) 396
MspI CCGG 4 cut(s) 6, 70, 168, 233
MspR9I CCNGG 4 cut(s) 71, 168, 398, 638
MvaI CCWGG 2 cut(s) 398, 638
MvnI CGCG 1 cut(s) 317
MwoI GCNNNNNNNGC 6 cut(s) 127, 146, 398, 520, 529, 557
NciI CCSGG 2 cut(s) 71, 168
NdeII GATC 1 cut(s) 144
NheI GCTAGC 1 cut(s) 251
NlaIII CATG 4 cut(s) 298, 436, 485, 620
NlaIV GGNNCC 1 cut(s) 237
NmuCI GTSAC 1 cut(s) 585
NsiI ATGCAT 1 cut(s) 651
PagI TCATGA 2 cut(s) 294, 616
PfoI TCCNGGA 1 cut(s) 166
PkrI GCNGC 4 cut(s) 480, 550, 562, 661
PleI GAGTC 1 cut(s) 446
PpsI GAGTC 1 cut(s) 446
PpuMI RGGWCCY 1 cut(s) 420
Psp5II RGGWCCY 1 cut(s) 420
Psp6I CCWGG 2 cut(s) 396, 636
PspFI CCCAGC 2 cut(s) 247, 563
PspGI CCWGG 2 cut(s) 396, 636
PspN4I GGNNCC 1 cut(s) 237
PspPI GGNCC 2 cut(s) 235, 420
PspPPI RGGWCCY 1 cut(s) 420
RseI CAYNNNNRTG 1 cut(s) 654
SaqAI TTAA 5 cut(s) 36, 332, 375, 459, 474
SatI GCNGC 4 cut(s) 479, 549, 561, 660
Sau3AI GATC 1 cut(s) 144
Sau96I GGNCC 2 cut(s) 235, 420
SchI GAGTC 1 cut(s) 446
ScrFI CCNGG 4 cut(s) 71, 168, 398, 638
SduI GDGCHC 1 cut(s) 326
SfaNI GCATC 6 cut(s) 300, 523, 525, 636, 646, 658
SfcI CTRYAG 1 cut(s) 352
SinI GGWCC 1 cut(s) 420
SmiMI CAYNNNNRTG 1 cut(s) 654
Sse9I AATT 6 cut(s) 33, 64, 283, 299, 525, 690
SsiI CCGC 2 cut(s) 220, 317
SspMI CTAG 1 cut(s) 252
StyD4I CCNGG 4 cut(s) 69, 166, 396, 636
TaaI ACNGT 3 cut(s) 308, 353, 501
TaqI TCGA 2 cut(s) 113, 632
TasI AATT 6 cut(s) 33, 64, 283, 299, 525, 690
Tru1I TTAA 5 cut(s) 36, 332, 375, 459, 474
Tru9I TTAA 5 cut(s) 36, 332, 375, 459, 474
TscAI CASTG 2 cut(s) 271, 331
TseFI GTSAC 1 cut(s) 585
TseI GCWGC 4 cut(s) 478, 548, 560, 659
Tsp45I GTSAC 1 cut(s) 585
TspDTI ATGAA 5 cut(s) 56, 311, 605, 618, 654
TspRI CASTG 2 cut(s) 271, 331
VneI GTGCAC 1 cut(s) 322
VpaK11BI GGWCC 1 cut(s) 420
XapI RAATTY 1 cut(s) 283
XmiI GTMKAC 1 cut(s) 355
XspI CTAG 1 cut(s) 252
Zsp2I ATGCAT 1 cut(s) 651
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.