Rroxscaffold_4G00331700

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0006948
Physical Location & Seq
Reverse (-)
65659948 .. 65663085
3138 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00331700.1

Sequence Viewer

Length: 1296 bp
ATGAGTAGCCTTTTGTACAGTCCAAACTTTAAGTCTTCCGAAGCAGAGTTGAGGAAGAACCACGCAGAATTCTTGGATTCATCAAATGGTTTCCAACAACAACAGTCACAGCAGCAACAGAGCTCTGGCCTAATGCGGTATCGGTCTGCTCCGAGCTCAGTTTTGCTGGACCTTGTTGACAACAATGGTGATGCTGTATGTGAGGATTTTCGAGATTTTCGATATCCTCGACCTTCCAGCCCCGAAGTGGAAACCGTCTTGGCAAGGTTCATTTCATCATGTAATGCACCTGACACTGACAATGGTTCCAATAATAATGCGCACCATCTGTTCCAAGGAAGGCCTGTGAAGCAAGAAGCAGGGGACTGTGTTTCGAAACAGAGCGGTTACTCAAATTCTCCTCAGATGATGTACCAGACTCAACAAGTTCATCCTTTGGATAATGCCTCCTCCTTTGGTGCTTTCAAATCTACCGTCTTGGAGAACTCGATGGAATCGAAAATGGGTGTTGGAAATCGCTCTGATCTTGTTAGGCAAAGTAGCTCTCCAGCTGGATTCTTCACCAACTTAAACGTTGACAATGGCTTCAATCTGATGAAAGATGCTTCAAGTTTTGGAGTAGGCAATGGTACAATTGGAGAAGCTAGTCCATCAACTTCTAGGTTGAATACCCAATATAGTTTCTCCTCTGCTGCATCAACTCCATACTCAAGAGAGTCCAGACGTCTGCCTCGAATTGCTGAAATTGGGAATGGAAACATAGGAGAGGTTAGTGAACCGAATCAAAGCTTAGGAAATGCTACTAATGGTAGCAGTTCACATTACATACCTGACTATTCAAATGATACGTGGGACAATTCTGCATTTCATGACCTCAAAAGAGGCAGAGATAATGATGGGAACAAGTTTTCTACTACGACTGCATTGGACACCCAGAATGTGGATTTTGGACACCGCAGTTACGCTCTTACTCATCATTTGAGCTTGCCTAAACATTTTGAGATGCCTGCTATGGAGAAGCTTCTACATTTTCAAGATTCCATTCCATGTAAAATTCGTGCCAAAAGAGGCTTCGCTACTCACCCACGAAGCATTGCAGAGAGGATGAGAAGAACGCGGATCAGTGAAAGAATGAGGAAACTGCAAGATCTTTTCCCAAACATGGACAAGCAAATCAACACAGCCGAAATGTTGGAGTTGGCAGTTGAGCACATTAAAGACCTGCAGAAACAGGTTAAGACACTCAGGGATACAAAGGCGAAGTGCAGTTGTTCAAGTAAACAGAAACACAATTAA
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
HLH

Protein Analysis

431

Amino Acids

48.05

Weight (kDa)

8.42

Isoelectric Point (pI)

50.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 364 - 409 2.5e-08 Helix-loop-helix DNA-binding 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)
AatII GACGTC 1 cut(s) 727
Acc16I TGCGCA 1 cut(s) 321
Acc36I ACCTGC 1 cut(s) 1230
AccB7I CCANNNNNTGG 1 cut(s) 940
AccBSI CCGCTC 1 cut(s) 384
AccII CGCG 1 cut(s) 1117
AciI CCGC 4 cut(s) 136, 384, 955, 1117
AclI AACGTT 1 cut(s) 573
AclWI GGATC 1 cut(s) 1127
AcsI RAATTY 3 cut(s) 68, 394, 1053
AcyI GRCGYC 1 cut(s) 724
AfaI GTAC 3 cut(s) 17, 413, 631
AfiI CCNNNNNNNGG 3 cut(s) 247, 940, 1162
AgsI TTSAA 7 cut(s) 466, 589, 609, 667, 840, 1034, 1275
AjuI GAANNNNNNNTTGG 2 cut(s) 1055, 1087
AluBI AGCT 8 cut(s) 123, 156, 543, 551, 644, 789, 984, 1021
AluI AGCT 8 cut(s) 123, 156, 543, 551, 644, 789, 984, 1021
Alw21I GWGCWC 3 cut(s) 125, 158, 1212
AlwI GGATC 1 cut(s) 1127
AoxI GGCC 2 cut(s) 127, 341
ApeKI GCWGC 2 cut(s) 112, 692
ApoI RAATTY 3 cut(s) 68, 394, 1053
ArsI GACNNNNNNTTYG 4 cut(s) 17, 49, 459, 491
AspLEI GCGC 1 cut(s) 322
AspS9I GGNCC 1 cut(s) 169
AsuHPI GGTGA 3 cut(s) 200, 553, 1073
AsuII TTCGAA 1 cut(s) 374
AvaII GGWCC 1 cut(s) 169
BanII GRGCYC 2 cut(s) 125, 158
BbsI GAAGAC 1 cut(s) 27
Bbv12I GWGCWC 3 cut(s) 125, 158, 1212
BbvI GCAGC 2 cut(s) 124, 679
BccI CCATC 4 cut(s) 333, 484, 658, 890
BciVI GTATCC 1 cut(s) 1243
BfaI CTAG 2 cut(s) 645, 660
BfmI CTRYAG 1 cut(s) 1223
BfuAI ACCTGC 1 cut(s) 1230
BfuI GTATCC 1 cut(s) 1243
BglII AGATCT 1 cut(s) 1147
BisI GCNGC 2 cut(s) 113, 693
BlsI GCNGC 2 cut(s) 114, 694
Bme18I GGWCC 1 cut(s) 169
BmgT120I GGNCC 1 cut(s) 169
BmiI GGNNCC 1 cut(s) 307
BmsI GCATC 4 cut(s) 181, 592, 704, 993
BpiI GAAGAC 1 cut(s) 27
BpmI CTGGAG 1 cut(s) 531
Bpu10I CCTNAGC 1 cut(s) 790
Bpu14I TTCGAA 1 cut(s) 374
BpuEI CTTGAG 1 cut(s) 694
BsaAI YACGTR 1 cut(s) 849
BsaHI GRCGYC 1 cut(s) 724
BsaJI CCNNGG 1 cut(s) 334
Bsc4I CCNNNNNNNGG 3 cut(s) 247, 940, 1162
Bse3DI GCAATG 2 cut(s) 631, 1092
BseDI CCNNGG 1 cut(s) 334
BseGI GGATG 2 cut(s) 430, 1110
BseLI CCNNNNNNNGG 3 cut(s) 247, 940, 1162
BseMI GCAATG 2 cut(s) 631, 1092
BseMII CTCAG 3 cut(s) 171, 416, 1258
BseRI GAGGAG 3 cut(s) 390, 439, 676
BseXI GCAGC 2 cut(s) 124, 679
BsgI GTGCAG 1 cut(s) 1285
Bsh1236I CGCG 1 cut(s) 1117
BshFI GGCC 2 cut(s) 129, 343
BsiHKAI GWGCWC 3 cut(s) 125, 158, 1212
BslFI GGGAC 2 cut(s) 377, 866
BslI CCNNNNNNNGG 3 cut(s) 247, 940, 1162
BsmFI GGGAC 2 cut(s) 377, 866
BsnI GGCC 2 cut(s) 129, 343
Bsp119I TTCGAA 1 cut(s) 374
Bsp1286I GDGCHC 3 cut(s) 125, 158, 1212
Bsp1407I TGTACA 1 cut(s) 15
Bsp143I GATC 3 cut(s) 523, 1119, 1147
BspACI CCGC 4 cut(s) 136, 384, 955, 1117
BspANI GGCC 2 cut(s) 129, 343
BspCNI CTCAG 3 cut(s) 170, 415, 1257
BspFNI CGCG 1 cut(s) 1117
BspHI TCATGA 1 cut(s) 868
BspLI GGNNCC 1 cut(s) 307
BspMAI CTGCAG 1 cut(s) 1227
BspMI ACCTGC 1 cut(s) 1230
BspPI GGATC 1 cut(s) 1127
BspT104I TTCGAA 1 cut(s) 374
BsrBI CCGCTC 1 cut(s) 384
BsrDI GCAATG 2 cut(s) 631, 1092
BsrGI TGTACA 1 cut(s) 15
BssECI CCNNGG 1 cut(s) 334
BssMI GATC 3 cut(s) 523, 1119, 1147
BssNI GRCGYC 1 cut(s) 724
BssT1I CCWWGG 1 cut(s) 334
Bst4CI ACNGT 5 cut(s) 20, 105, 256, 368, 475
BstACI GRCGYC 1 cut(s) 724
BstAUI TGTACA 1 cut(s) 15
BstBAI YACGTR 1 cut(s) 849
BstBI TTCGAA 1 cut(s) 374
BstC8I GCNNGC 2 cut(s) 986, 1008
BstDEI CTNAG 4 cut(s) 157, 402, 790, 1244
BstF5I GGATG 2 cut(s) 430, 1110
BstFNI CGCG 1 cut(s) 1117
BstHHI GCGC 1 cut(s) 322
BstKTI GATC 3 cut(s) 526, 1122, 1150
BstMBI GATC 3 cut(s) 523, 1119, 1147
BstMWI GCNNNNNNNGC 1 cut(s) 349
BstSFI CTRYAG 1 cut(s) 1223
BstUI CGCG 1 cut(s) 1117
BstV1I GCAGC 2 cut(s) 124, 679
BstV2I GAAGAC 1 cut(s) 27
BstX2I RGATCY 1 cut(s) 1147
BstYI RGATCY 1 cut(s) 1147
BsuI GTATCC 1 cut(s) 1243
BsuRI GGCC 2 cut(s) 129, 343
BtsCI GGATG 2 cut(s) 430, 1110
BtsIMutI CAGTG 2 cut(s) 294, 1129
BveI ACCTGC 1 cut(s) 1230
Cac8I GCNNGC 2 cut(s) 986, 1008
CciI TCATGA 1 cut(s) 868
CfoI GCGC 1 cut(s) 322
Cfr13I GGNCC 1 cut(s) 169
Csp6I GTAC 3 cut(s) 16, 412, 630
CviAII CATG 4 cut(s) 279, 869, 1047, 1162
CviQI GTAC 3 cut(s) 16, 412, 630
DdeI CTNAG 4 cut(s) 157, 402, 790, 1244
DpnI GATC 3 cut(s) 525, 1121, 1149
DpnII GATC 3 cut(s) 523, 1119, 1147
Ecl136II GAGCTC 2 cut(s) 123, 156
Eco130I CCWWGG 1 cut(s) 334
Eco147I AGGCCT 1 cut(s) 343
Eco24I GRGCYC 2 cut(s) 125, 158
Eco32I GATATC 1 cut(s) 224
Eco47I GGWCC 1 cut(s) 169
Eco53kI GAGCTC 2 cut(s) 123, 156
EcoICRI GAGCTC 2 cut(s) 123, 156
EcoRI GAATTC 1 cut(s) 68
EcoRV GATATC 1 cut(s) 224
EcoT14I CCWWGG 1 cut(s) 334
EcoT38I GRGCYC 2 cut(s) 125, 158
ErhI CCWWGG 1 cut(s) 334
FaeI CATG 4 cut(s) 282, 872, 1050, 1165
FaqI GGGAC 2 cut(s) 377, 866
FatI CATG 4 cut(s) 278, 868, 1046, 1161
Fnu4HI GCNGC 2 cut(s) 113, 693
FokI GGATG 2 cut(s) 417, 1117
FriOI GRGCYC 2 cut(s) 125, 158
Fsp4HI GCNGC 2 cut(s) 113, 693
FspAI RTGCGCAY 1 cut(s) 321
FspBI CTAG 2 cut(s) 645, 660
FspI TGCGCA 1 cut(s) 321
GlaI GCGC 1 cut(s) 321
GluI GCNGC 2 cut(s) 113, 693
GsuI CTGGAG 1 cut(s) 531
HaeIII GGCC 2 cut(s) 129, 343
HhaI GCGC 1 cut(s) 322
Hin1I GRCGYC 1 cut(s) 724
Hin1II CATG 4 cut(s) 282, 872, 1050, 1165
Hin6I GCGC 1 cut(s) 320
HinP1I GCGC 1 cut(s) 320
HincII GTYRAC 2 cut(s) 178, 577
HindII GTYRAC 2 cut(s) 178, 577
HindIII AAGCTT 2 cut(s) 787, 1019
HinfI GANTC 7 cut(s) 77, 418, 494, 555, 716, 781, 1037
HphI GGTGA 3 cut(s) 200, 553, 1073
Hpy166II GTNNAC 5 cut(s) 178, 577, 776, 818, 1280
Hpy188I TCNGA 5 cut(s) 40, 153, 405, 523, 594
Hpy188III TCNNGA 5 cut(s) 212, 711, 720, 869, 1034
Hpy8I GTNNAC 5 cut(s) 178, 577, 776, 818, 1280
HpyAV CCTTC 2 cut(s) 243, 333
HpyCH4III ACNGT 5 cut(s) 20, 105, 256, 368, 475
HpyCH4IV ACGT 3 cut(s) 573, 724, 848
HpyCH4V TGCA 8 cut(s) 287, 695, 863, 923, 1097, 1144, 1225, 1266
HpyF10VI GCNNNNNNNGC 1 cut(s) 349
HpyF3I CTNAG 4 cut(s) 157, 402, 790, 1244
HpySE526I ACGT 3 cut(s) 573, 724, 848
Hsp92I GRCGYC 1 cut(s) 724
Hsp92II CATG 4 cut(s) 282, 872, 1050, 1165
HspAI GCGC 1 cut(s) 320
Kzo9I GATC 3 cut(s) 523, 1119, 1147
LmnI GCTCC 1 cut(s) 154
Lsp1109I GCAGC 2 cut(s) 124, 679
LweI GCATC 4 cut(s) 181, 592, 704, 993
MaeI CTAG 2 cut(s) 645, 660
MaeII ACGT 3 cut(s) 573, 724, 848
MaeIII GTNAC 3 cut(s) 105, 386, 959
MalI GATC 3 cut(s) 525, 1121, 1149
MbiI CCGCTC 1 cut(s) 384
MboI GATC 3 cut(s) 523, 1119, 1147
MboII GAAGA 4 cut(s) 27, 67, 550, 1122
MfeI CAATTG 1 cut(s) 633
MflI RGATCY 1 cut(s) 1147
MhlI GDGCHC 3 cut(s) 125, 158, 1212
MluCI AATT 8 cut(s) 68, 394, 633, 735, 744, 856, 1053, 1291
MlyI GAGTC 2 cut(s) 412, 725
MmeI TCCRAC 3 cut(s) 118, 490, 1173
MseI TTAA 5 cut(s) 30, 569, 1215, 1236, 1294
MspA1I CMGCKG 1 cut(s) 551
MunI CAATTG 1 cut(s) 633
MvnI CGCG 1 cut(s) 1117
MwoI GCNNNNNNNGC 1 cut(s) 349
NdeII GATC 3 cut(s) 523, 1119, 1147
NlaIII CATG 4 cut(s) 282, 872, 1050, 1165
NlaIV GGNNCC 1 cut(s) 307
NmuCI GTSAC 1 cut(s) 105
NsbI TGCGCA 1 cut(s) 321
NspV TTCGAA 1 cut(s) 374
PagI TCATGA 1 cut(s) 868
PceI AGGCCT 1 cut(s) 343
PcsI WCGNNNNNNNCGW 4 cut(s) 217, 226, 494, 730
PfeI GAWTC 5 cut(s) 77, 494, 555, 781, 1037
PflMI CCANNNNNTGG 1 cut(s) 940
PkrI GCNGC 2 cut(s) 114, 694
PleI GAGTC 2 cut(s) 412, 724
PpsI GAGTC 2 cut(s) 412, 724
Ppu21I YACGTR 1 cut(s) 849
Psp124BI GAGCTC 2 cut(s) 125, 158
Psp1406I AACGTT 1 cut(s) 573
PspN4I GGNNCC 1 cut(s) 307
PspPI GGNCC 1 cut(s) 169
PstI CTGCAG 1 cut(s) 1227
PsuI RGATCY 1 cut(s) 1147
PvuII CAGCTG 1 cut(s) 551
RsaI GTAC 3 cut(s) 17, 413, 631
RsaNI GTAC 3 cut(s) 16, 412, 630
SacI GAGCTC 2 cut(s) 125, 158
SaqAI TTAA 5 cut(s) 30, 569, 1215, 1236, 1294
SatI GCNGC 2 cut(s) 113, 693
Sau3AI GATC 3 cut(s) 523, 1119, 1147
Sau96I GGNCC 1 cut(s) 169
SchI GAGTC 2 cut(s) 412, 725
SduI GDGCHC 3 cut(s) 125, 158, 1212
SfaNI GCATC 4 cut(s) 181, 592, 704, 993
SfcI CTRYAG 1 cut(s) 1223
SfuI TTCGAA 1 cut(s) 374
SinI GGWCC 1 cut(s) 169
SmlI CTYRAG 1 cut(s) 709
SmoI CTYRAG 1 cut(s) 709
Sse9I AATT 8 cut(s) 68, 394, 633, 735, 744, 856, 1053, 1291
SseBI AGGCCT 1 cut(s) 343
SsiI CCGC 4 cut(s) 136, 384, 955, 1117
SspMI CTAG 2 cut(s) 645, 660
SstI GAGCTC 2 cut(s) 125, 158
StuI AGGCCT 1 cut(s) 343
StyI CCWWGG 1 cut(s) 334
TaaI ACNGT 5 cut(s) 20, 105, 256, 368, 475
TaiI ACGT 3 cut(s) 576, 727, 851
TaqI TCGA 7 cut(s) 211, 220, 229, 374, 488, 497, 733
TaqII GACCGA 1 cut(s) 132
TasI AATT 8 cut(s) 68, 394, 633, 735, 744, 856, 1053, 1291
TatI WGTACW 1 cut(s) 15
TfiI GAWTC 5 cut(s) 77, 494, 555, 781, 1037
Tru1I TTAA 5 cut(s) 30, 569, 1215, 1236, 1294
Tru9I TTAA 5 cut(s) 30, 569, 1215, 1236, 1294
TscAI CASTG 2 cut(s) 301, 1129
TseFI GTSAC 1 cut(s) 105
TseI GCWGC 2 cut(s) 112, 692
Tsp45I GTSAC 1 cut(s) 105
TspDTI ATGAA 6 cut(s) 69, 259, 264, 419, 611, 857
TspRI CASTG 2 cut(s) 301, 1129
Van91I CCANNNNNTGG 1 cut(s) 940
VpaK11BI GGWCC 1 cut(s) 169
XapI RAATTY 3 cut(s) 68, 394, 1053
XcmI CCANNNNNNNNNTGG 1 cut(s) 244
XspI CTAG 2 cut(s) 645, 660
ZraI GACGTC 1 cut(s) 725
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.