Rw5G002830

DNA binding domain with preference for A/T rich regions

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0001372
Physical Location & Seq
Forward (+)
2700009 .. 2702226
2218 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G002830.1

Sequence Viewer

Length: 1536 bp
ATGAATCAGAGTCAAGGAACAAGCTCTTTATCTTCGCCAGATCTCCCTATGAAGCGGAAACGTGGACGTCCACGAAAGGATGAGAATTTAGTTCACGGAGAGAGCATGCCTGCAATGCCAGGACCTGATAGTTTGAAGAAAAACAAACAGAGTGCGGGTACTAACGATGATGGTGAAGATGAAATGGTGGGTCGAGTGGTTTCTGGTGTTATTGAAGGTTCATTTGATGCCGGCTATCTCCTGAATGTTAAGGTAGAAGGCACCGATACTCAGCTGAGGGGTGTTGTATTTCTTCCGGGAAAGTTCACTCCAGTCACTGCAGCAAATGATGTTGTTCCTAATGTTAAGATGTGCAAAAGAAAAGAAGTTCCAATACCAGCTGTCAACCTGCAATCTCATCTTTATGGTTCTGCCCGGCCATCAGAGCAAAGTAACAGGCCACCTGTTGAGGTGAAAAAGCAAATACCTGCAATTCCAGACCAAATTCCTCCCCGTATTCCTCAGTGTGGCATCCCGGAGACTCTTAGAAGTCAATCTTTCTCTGGCATCCCAGAGTCTCTTCAATGCCAACGCATCCAGGAGTCTCTTAGAAGTCAATCTTTCCCTGGCATCCCGGAGTCTCTTAGCCAACCATCCTCTTTTGTAAATCTTCCGGTTGATAATTTGCCAAAGAATGATGCCCCTGTCGTGGGAGGTAAAGTCACACCACAGCAACCTTTGGATCCTGGACTTGATAACCAATCCATCCATGTAATGACAAAGTCCGAGAATGATGAAGTTGTTGAACAGGAAAAAGTGTTGGAGGAAGTTGAACCGGCCACAACAATAACAGAGCCAACTGGTGTAGAGGACAATAAAGAATCAAAGACAGAAACATCATCTGAACCAATTGGTGAGGTACTAAGCATAGACACAGTATGTAAGGATCCTCCAATTCAACCTCAGGCTGTGGGTTCTGAAAGCAGTGCATTGGTTCAGGACGACGTAAAGAGCATGAATTTTGAACTCAACCATATTCCTGTATTTGCTGAAGCTGCTCCTGCAATGGCTACCATACAAAGCGTTGAAACTGTATGCAAGGCTCCTCAAATTCAACCTCGGACTGTGGATACTGAAAAGAATCAATTGGTTGATGATGAGGTAAAGAGTGTGAACGTTGAACTCAATCAAACTCCTGTATTTGCTGAACCTACACCAAGTTCTGTCATACTGGGAGTTGAGACTGTATGTAAGGATCCTCAAATTCAACCAGAGGATGTGGGTTCTGAAAAGAGTGCATTGGTTCAGGATGTGGTAAAGAGCCTACATCTTGAACTCAACCAAACTCCTCTGGTTGCAGAACCTGCATTCACTGCCAGTAAACCAGTTGAGAATCTGATGGAAGAAGAGCCCACACCAAAGCCGAGTCAGGTGTTGGGGGGAGGGACTGTTGCATCTATGGGATCCATTCCTTCAGCCATGGGTGAACCTCCTTCTGGTGCTGTTGACAGTATGGAATGTGATATTGCAGATGCCATTTCACCTGCACAATCTTAG
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
No domains found.

Protein Analysis

511

Amino Acids

54.64

Weight (kDa)

4.57

Isoelectric Point (pI)

60.52

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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)
AarI CACCTGC 1 cut(s) 1531
AatII GACGTC 1 cut(s) 70
Acc36I ACCTGC 4 cut(s) 396, 475, 1351, 1531
AccB1I GGYRCC 1 cut(s) 260
AciI CCGC 2 cut(s) 55, 155
AclI AACGTT 1 cut(s) 1155
AclWI GGATC 8 cut(s) 716, 729, 920, 933, 1229, 1242, 1437, 1450
AcoI YGGCCR 2 cut(s) 416, 816
AcsI RAATTY 5 cut(s) 85, 483, 997, 1089, 1242
AcuI CTGAAG 2 cut(s) 1050, 1437
AcyI GRCGYC 1 cut(s) 67
AfaI GTAC 2 cut(s) 160, 900
AfiI CCNNNNNNNGG 4 cut(s) 506, 688, 689, 1475
AjnI CCWGG 4 cut(s) 118, 576, 604, 724
AluBI AGCT 4 cut(s) 24, 274, 380, 1034
AluI AGCT 4 cut(s) 24, 274, 380, 1034
Alw26I GTCTC 5 cut(s) 512, 561, 588, 624, 1214
AlwI GGATC 8 cut(s) 716, 729, 920, 933, 1229, 1242, 1437, 1450
AlwNI CAGNNNCTG 3 cut(s) 125, 317, 1343
AoxI GGCC 3 cut(s) 416, 437, 816
ApeKI GCWGC 2 cut(s) 320, 1034
ApoI RAATTY 5 cut(s) 85, 483, 997, 1089, 1242
AspS9I GGNCC 1 cut(s) 122
AsuC2I CCSGG 4 cut(s) 297, 415, 515, 614
AsuHPI GGTGA 5 cut(s) 185, 463, 905, 1475, 1512
AvaII GGWCC 1 cut(s) 122
AxyI CCTNAGG 1 cut(s) 942
BamHI GGATCC 4 cut(s) 721, 925, 1234, 1442
BanI GGYRCC 1 cut(s) 260
BanII GRGCYC 1 cut(s) 1392
BarI GAAGNNNNNNTAC 2 cut(s) 357, 389
BbvCI CCTCAGC 1 cut(s) 275
BbvI GCAGC 2 cut(s) 332, 1021
BccI CCATC 5 cut(s) 164, 427, 640, 752, 1372
BciT130I CCWGG 4 cut(s) 120, 578, 606, 726
BciVI GTATCC 1 cut(s) 1102
BcnI CCSGG 4 cut(s) 297, 415, 515, 614
BcoDI GTCTC 5 cut(s) 512, 561, 588, 624, 1214
BfmI CTRYAG 1 cut(s) 318
BfuAI ACCTGC 4 cut(s) 396, 475, 1351, 1531
BfuI GTATCC 1 cut(s) 1102
BglII AGATCT 1 cut(s) 40
BisI GCNGC 2 cut(s) 321, 1035
BlsI GCNGC 2 cut(s) 322, 1036
Bme1390I CCNGG 8 cut(s) 120, 297, 415, 515, 578, 606, 614, 726
Bme18I GGWCC 1 cut(s) 122
BmgT120I GGNCC 1 cut(s) 122
BmiI GGNNCC 6 cut(s) 262, 723, 927, 1083, 1236, 1444
BmrFI CCNGG 8 cut(s) 120, 297, 415, 515, 578, 606, 614, 726
BmrI ACTGGG 1 cut(s) 1220
BmsI GCATC 8 cut(s) 217, 519, 555, 582, 618, 667, 1442, 1501
BmuI ACTGGG 1 cut(s) 1220
BpmI CTGGAG 1 cut(s) 294
Bpu10I CCTNAGC 1 cut(s) 275
BpuMI CCSGG 4 cut(s) 297, 415, 515, 614
BsaHI GRCGYC 1 cut(s) 67
BsaJI CCNNGG 3 cut(s) 604, 1097, 1458
BsaWI WCCGGW 1 cut(s) 652
BsaXI ACNNNNNCTCC 4 cut(s) 684, 714, 1413, 1443
Bsc4I CCNNNNNNNGG 4 cut(s) 506, 688, 689, 1475
Bse118I RCCGGY 2 cut(s) 230, 814
Bse1I ACTGG 5 cut(s) 311, 844, 1215, 1356, 1364
Bse21I CCTNAGG 1 cut(s) 942
Bse3DI GCAATG 2 cut(s) 120, 1050
BseBI CCWGG 4 cut(s) 120, 578, 606, 726
BseDI CCNNGG 3 cut(s) 604, 1097, 1458
BseGI GGATG 9 cut(s) 85, 510, 546, 573, 609, 632, 744, 1261, 1294
BseLI CCNNNNNNNGG 4 cut(s) 506, 688, 689, 1475
BseMI GCAATG 2 cut(s) 120, 1050
BseMII CTCAG 4 cut(s) 266, 284, 515, 956
BseNI ACTGG 5 cut(s) 311, 844, 1215, 1356, 1364
BseRI GAGGAG 2 cut(s) 1074, 1317
BseXI GCAGC 2 cut(s) 332, 1021
BsgI GTGCAG 1 cut(s) 1509
BshFI GGCC 3 cut(s) 418, 439, 818
BshNI GGYRCC 1 cut(s) 260
BsiSI CCGG 7 cut(s) 231, 296, 415, 515, 614, 653, 815
BslFI GGGAC 1 cut(s) 1438
BslI CCNNNNNNNGG 4 cut(s) 506, 688, 689, 1475
BsmAI GTCTC 5 cut(s) 512, 561, 588, 624, 1214
BsmFI GGGAC 1 cut(s) 1438
BsmI GAATGC 1 cut(s) 1346
BsnI GGCC 3 cut(s) 418, 439, 818
Bsp1286I GDGCHC 1 cut(s) 1392
Bsp143I GATC 5 cut(s) 40, 721, 925, 1234, 1442
Bsp19I CCATGG 1 cut(s) 1458
BspACI CCGC 2 cut(s) 55, 155
BspANI GGCC 3 cut(s) 418, 439, 818
BspCNI CTCAG 4 cut(s) 267, 283, 514, 955
BspLI GGNNCC 6 cut(s) 262, 723, 927, 1083, 1236, 1444
BspMAI CTGCAG 1 cut(s) 322
BspMI ACCTGC 4 cut(s) 396, 475, 1351, 1531
BspPI GGATC 8 cut(s) 716, 729, 920, 933, 1229, 1242, 1437, 1450
BspQI GCTCTTC 1 cut(s) 1380
BspT107I GGYRCC 1 cut(s) 260
BsrDI GCAATG 2 cut(s) 120, 1050
BsrFI RCCGGY 2 cut(s) 230, 814
BsrI ACTGG 5 cut(s) 311, 844, 1215, 1356, 1364
BssAI RCCGGY 2 cut(s) 230, 814
BssECI CCNNGG 3 cut(s) 604, 1097, 1458
BssMI GATC 5 cut(s) 40, 721, 925, 1234, 1442
BssNI GRCGYC 1 cut(s) 67
BssT1I CCWWGG 1 cut(s) 1458
Bst2UI CCWGG 4 cut(s) 120, 578, 606, 726
Bst4CI ACNGT 6 cut(s) 916, 1072, 1105, 1225, 1429, 1490
Bst6I CTCTTC 2 cut(s) 564, 1380
BstACI GRCGYC 1 cut(s) 67
BstAPI GCANNNNNTGC 2 cut(s) 1343, 1352
BstC8I GCNNGC 3 cut(s) 107, 111, 232
BstDEI CTNAG 9 cut(s) 270, 275, 501, 524, 587, 623, 902, 942, 1533
BstDSI CCRYGG 1 cut(s) 1458
BstF5I GGATG 9 cut(s) 85, 510, 546, 573, 609, 632, 744, 1261, 1294
BstKTI GATC 5 cut(s) 43, 724, 928, 1237, 1445
BstMAI GTCTC 5 cut(s) 512, 561, 588, 624, 1214
BstMBI GATC 5 cut(s) 40, 721, 925, 1234, 1442
BstMWI GCNNNNNNNGC 6 cut(s) 115, 424, 1034, 1040, 1343, 1352
BstNI CCWGG 4 cut(s) 120, 578, 606, 726
BstNSI RCATGY 1 cut(s) 109
BstSCI CCNGG 8 cut(s) 118, 295, 413, 513, 576, 604, 612, 724
BstSFI CTRYAG 1 cut(s) 318
BstV1I GCAGC 2 cut(s) 332, 1021
BstX2I RGATCY 5 cut(s) 40, 721, 925, 1234, 1442
BstYI RGATCY 5 cut(s) 40, 721, 925, 1234, 1442
Bsu36I CCTNAGG 1 cut(s) 942
BsuI GTATCC 1 cut(s) 1102
BsuRI GGCC 3 cut(s) 418, 439, 818
BtgI CCRYGG 1 cut(s) 1458
BtsCI GGATG 9 cut(s) 85, 510, 546, 573, 609, 632, 744, 1261, 1294
BtsI GCAGTG 3 cut(s) 315, 970, 1350
BtsIMutI CAGTG 4 cut(s) 315, 509, 970, 1350
BveI ACCTGC 4 cut(s) 396, 475, 1351, 1531
Cac8I GCNNGC 3 cut(s) 107, 111, 232
CaiI CAGNNNCTG 3 cut(s) 125, 317, 1343
Cfr10I RCCGGY 2 cut(s) 230, 814
Cfr13I GGNCC 1 cut(s) 122
Csp6I GTAC 2 cut(s) 159, 899
CviAII CATG 4 cut(s) 106, 749, 994, 1459
CviQI GTAC 2 cut(s) 159, 899
DdeI CTNAG 9 cut(s) 270, 275, 501, 524, 587, 623, 902, 942, 1533
DpnI GATC 5 cut(s) 42, 723, 927, 1236, 1444
DpnII GATC 5 cut(s) 40, 721, 925, 1234, 1442
EaeI YGGCCR 2 cut(s) 416, 816
Eam1104I CTCTTC 2 cut(s) 564, 1380
EarI CTCTTC 2 cut(s) 564, 1380
Eco130I CCWWGG 1 cut(s) 1458
Eco24I GRGCYC 1 cut(s) 1392
Eco47I GGWCC 1 cut(s) 122
Eco57I CTGAAG 2 cut(s) 1050, 1437
Eco81I CCTNAGG 1 cut(s) 942
EcoO109I RGGNCCY 1 cut(s) 122
EcoRII CCWGG 4 cut(s) 118, 576, 604, 724
EcoT14I CCWWGG 1 cut(s) 1458
EcoT38I GRGCYC 1 cut(s) 1392
ErhI CCWWGG 1 cut(s) 1458
FaeI CATG 4 cut(s) 109, 752, 997, 1462
FalI AAGNNNNNCTT 4 cut(s) 520, 552, 583, 615
FaqI GGGAC 1 cut(s) 1438
FatI CATG 4 cut(s) 105, 748, 993, 1458
FauI CCCGC 1 cut(s) 148
Fnu4HI GCNGC 2 cut(s) 321, 1035
FokI GGATG 9 cut(s) 92, 497, 533, 560, 596, 619, 731, 1268, 1301
FriOI GRGCYC 1 cut(s) 1392
Fsp4HI GCNGC 2 cut(s) 321, 1035
GluI GCNGC 2 cut(s) 321, 1035
GsuI CTGGAG 1 cut(s) 294
HaeIII GGCC 3 cut(s) 418, 439, 818
HapII CCGG 7 cut(s) 231, 296, 415, 515, 614, 653, 815
Hin1I GRCGYC 1 cut(s) 67
Hin1II CATG 4 cut(s) 109, 752, 997, 1462
HincII GTYRAC 2 cut(s) 385, 1486
HindII GTYRAC 2 cut(s) 385, 1486
HpaII CCGG 7 cut(s) 231, 296, 415, 515, 614, 653, 815
HphI GGTGA 5 cut(s) 185, 463, 905, 1475, 1512
Hpy166II GTNNAC 9 cut(s) 65, 71, 94, 306, 385, 1153, 1361, 1466, 1486
Hpy188I TCNGA 8 cut(s) 9, 424, 766, 883, 958, 1101, 1267, 1377
Hpy188III TCNNGA 5 cut(s) 241, 476, 977, 1286, 1310
Hpy8I GTNNAC 9 cut(s) 65, 71, 94, 306, 385, 1153, 1361, 1466, 1486
Hpy99I CGWCG 1 cut(s) 986
HpyAV CCTTC 4 cut(s) 209, 251, 1461, 1482
HpyCH4III ACNGT 6 cut(s) 916, 1072, 1105, 1225, 1429, 1490
HpyCH4IV ACGT 4 cut(s) 61, 67, 984, 1155
HpyF10VI GCNNNNNNNGC 6 cut(s) 115, 424, 1034, 1040, 1343, 1352
HpyF3I CTNAG 9 cut(s) 270, 275, 501, 524, 587, 623, 902, 942, 1533
HpySE526I ACGT 4 cut(s) 61, 67, 984, 1155
Hsp92I GRCGYC 1 cut(s) 67
Hsp92II CATG 4 cut(s) 109, 752, 997, 1462
KroI GCCGGC 1 cut(s) 230
KroNI GCCGGC 1 cut(s) 232
Kzo9I GATC 5 cut(s) 40, 721, 925, 1234, 1442
LguI GCTCTTC 1 cut(s) 1380
LmnI GCTCC 2 cut(s) 1042, 1087
Lsp1109I GCAGC 2 cut(s) 332, 1021
LweI GCATC 8 cut(s) 217, 519, 555, 582, 618, 667, 1442, 1501
MaeII ACGT 4 cut(s) 61, 67, 984, 1155
MaeIII GTNAC 3 cut(s) 313, 431, 700
MalI GATC 5 cut(s) 42, 723, 927, 1236, 1444
MboI GATC 5 cut(s) 40, 721, 925, 1234, 1442
MboII GAAGA 8 cut(s) 24, 148, 188, 284, 551, 641, 1394, 1397
MfeI CAATTG 2 cut(s) 888, 1124
MflI RGATCY 5 cut(s) 40, 721, 925, 1234, 1442
MhlI GDGCHC 1 cut(s) 1392
MlyI GAGTC 6 cut(s) 19, 514, 563, 590, 626, 1414
MmeI TCCRAC 1 cut(s) 780
MroNI GCCGGC 1 cut(s) 230
MseI TTAA 2 cut(s) 249, 345
MslI CAYNNNNRTG 1 cut(s) 402
MspA1I CMGCKG 2 cut(s) 274, 380
MspI CCGG 7 cut(s) 231, 296, 415, 515, 614, 653, 815
MspR9I CCNGG 8 cut(s) 120, 297, 415, 515, 578, 606, 614, 726
MunI CAATTG 2 cut(s) 888, 1124
Mva1269I GAATGC 1 cut(s) 1346
MvaI CCWGG 4 cut(s) 120, 578, 606, 726
MwoI GCNNNNNNNGC 6 cut(s) 115, 424, 1034, 1040, 1343, 1352
NaeI GCCGGC 1 cut(s) 232
NciI CCSGG 4 cut(s) 297, 415, 515, 614
NcoI CCATGG 1 cut(s) 1458
NdeII GATC 5 cut(s) 40, 721, 925, 1234, 1442
NgoMIV GCCGGC 1 cut(s) 230
NlaIII CATG 4 cut(s) 109, 752, 997, 1462
NlaIV GGNNCC 6 cut(s) 262, 723, 927, 1083, 1236, 1444
NmeAIII GCCGAG 1 cut(s) 1428
NmuCI GTSAC 2 cut(s) 313, 700
NspI RCATGY 1 cut(s) 109
PaeI GCATGC 1 cut(s) 109
PaqCI CACCTGC 1 cut(s) 1531
PciSI GCTCTTC 1 cut(s) 1380
PctI GAATGC 1 cut(s) 1346
PdiI GCCGGC 1 cut(s) 232
PfeI GAWTC 4 cut(s) 4, 860, 1120, 1372
PflFI GACNNNGTC 1 cut(s) 760
PfoI TCCNGGA 5 cut(s) 295, 513, 576, 612, 724
PkrI GCNGC 2 cut(s) 322, 1036
PleI GAGTC 6 cut(s) 18, 514, 562, 589, 625, 1413
PpsI GAGTC 6 cut(s) 18, 514, 562, 589, 625, 1413
PpuMI RGGWCCY 1 cut(s) 122
Psp1406I AACGTT 1 cut(s) 1155
Psp5II RGGWCCY 1 cut(s) 122
Psp6I CCWGG 4 cut(s) 118, 576, 604, 724
PspGI CCWGG 4 cut(s) 118, 576, 604, 724
PspN4I GGNNCC 6 cut(s) 262, 723, 927, 1083, 1236, 1444
PspPI GGNCC 1 cut(s) 122
PspPPI RGGWCCY 1 cut(s) 122
PstI CTGCAG 1 cut(s) 322
PstNI CAGNNNCTG 3 cut(s) 125, 317, 1343
PsuI RGATCY 5 cut(s) 40, 721, 925, 1234, 1442
PsyI GACNNNGTC 1 cut(s) 760
PvuII CAGCTG 2 cut(s) 274, 380
RsaI GTAC 2 cut(s) 160, 900
RsaNI GTAC 2 cut(s) 159, 899
RseI CAYNNNNRTG 1 cut(s) 402
SapI GCTCTTC 1 cut(s) 1380
SaqAI TTAA 2 cut(s) 249, 345
SatI GCNGC 2 cut(s) 321, 1035
Sau3AI GATC 5 cut(s) 40, 721, 925, 1234, 1442
Sau96I GGNCC 1 cut(s) 122
SchI GAGTC 6 cut(s) 19, 514, 563, 590, 626, 1414
ScrFI CCNGG 8 cut(s) 120, 297, 415, 515, 578, 606, 614, 726
SduI GDGCHC 1 cut(s) 1392
SfaNI GCATC 8 cut(s) 217, 519, 555, 582, 618, 667, 1442, 1501
SfcI CTRYAG 1 cut(s) 318
SinI GGWCC 1 cut(s) 122
SmiMI CAYNNNNRTG 1 cut(s) 402
SphI GCATGC 1 cut(s) 109
SsiI CCGC 2 cut(s) 55, 155
StyD4I CCNGG 8 cut(s) 118, 295, 413, 513, 576, 604, 612, 724
StyI CCWWGG 1 cut(s) 1458
TaaI ACNGT 6 cut(s) 916, 1072, 1105, 1225, 1429, 1490
TaiI ACGT 4 cut(s) 64, 70, 987, 1158
TaqI TCGA 1 cut(s) 193
TfiI GAWTC 4 cut(s) 4, 860, 1120, 1372
Tru1I TTAA 2 cut(s) 249, 345
Tru9I TTAA 2 cut(s) 249, 345
TscAI CASTG 4 cut(s) 322, 509, 970, 1357
TseFI GTSAC 2 cut(s) 313, 700
TseI GCWGC 2 cut(s) 320, 1034
Tsp45I GTSAC 2 cut(s) 313, 700
TspDTI ATGAA 6 cut(s) 17, 65, 195, 210, 789, 1010
TspGWI ACGGA 1 cut(s) 111
TspRI CASTG 4 cut(s) 322, 509, 970, 1357
Tth111I GACNNNGTC 1 cut(s) 760
VpaK11BI GGWCC 1 cut(s) 122
XapI RAATTY 5 cut(s) 85, 483, 997, 1089, 1242
XceI RCATGY 1 cut(s) 109
ZraI GACGTC 1 cut(s) 68
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.