Rorug04G0341600

Homeobox protein knotted-1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0002850
Physical Location & Seq
Forward (+)
51447233 .. 51448062
830 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0341600.1

Sequence Viewer

Length: 741 bp
ATGACCCAAGAGCCACGAACTCTGCAACTAATGGAGCTCCAAACCCCGCAACAAATGGAACCACAACAACAGCAACCAACAGAGGAGGGAGGAAACACCCAAGCAGCTGGAAGTAGTGCCAACATGGATTTCTGGCGAAGCCGTACCAGGTGGATTCCTACTCCAGAACAAATAAGAATCCTCAAGGATCTTTACTACGTCAAGGGATTTAAGTGCCCAACTACAGAGCACATTCACGAGATCTGCCTCCAGCTGAACCAGTATGGACATGTTGAGGGTAAGAACATTTACTTTTGGTTCCAGAACGTCAGGGCTCGAGAGAAGCAGATGAATAGGTGTAATCAGGCTGCTCCAGTGCCCATGGGAACTAGTTCTCTTGGTACTGGTGGATCCATTGATCTCAATTTTGGGTCCACTGGTTCTACTGGTGCTGGTGGATCCATTGACATCAATTTTGGGTCCACTAGTTCTACTGATGATGGTAGATCCATTGATCTCAACTTTGGTTCCACCTATTCTACTGGAGGACGAACATCCCTGCAACAACGAGGAGGAGATCACCAGAAGGTTGAAACTCTTCCTCTGTTCCCCGTGCACGGCGAGGACGTCTTTGGTAACCCGAAGACTACATCCGAGGAAGGTAGCGTATTTGGTTACTATTCTGGTGGCTCAGGCGGTTACAACAGTGGCTCTAACGTTTCTCTTGAGCTCAGCCTCAATCCATCCGGAGCTGCTGACTAG
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
KNOX1 KNOX2

Protein Analysis

246

Amino Acids

26.73

Weight (kDa)

5.25

Isoelectric Point (pI)

44.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Homeodomain PF00046 48 - 109 2.4e-09 Homeodomain
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) 609
AccIII TCCGGA 1 cut(s) 725
AciI CCGC 2 cut(s) 47, 675
AclI AACGTT 1 cut(s) 696
AclWI GGATC 6 cut(s) 195, 384, 397, 432, 445, 480
AcyI GRCGYC 1 cut(s) 606
AfaI GTAC 2 cut(s) 145, 382
AfiI CCNNNNNNNGG 1 cut(s) 596
AflIII ACRYGT 1 cut(s) 268
AgsI TTSAA 1 cut(s) 572
AhlI ACTAGT 2 cut(s) 368, 464
AjnI CCWGG 1 cut(s) 146
AjuI GAANNNNNNNTTGG 2 cut(s) 113, 145
AluBI AGCT 5 cut(s) 37, 107, 253, 709, 731
AluI AGCT 5 cut(s) 37, 107, 253, 709, 731
Alw21I GWGCWC 4 cut(s) 39, 231, 597, 711
Alw44I GTGCAC 1 cut(s) 593
AlwI GGATC 6 cut(s) 195, 384, 397, 432, 445, 480
Ama87I CYCGRG 1 cut(s) 315
Aor13HI TCCGGA 1 cut(s) 725
ApaLI GTGCAC 1 cut(s) 593
ApeKI GCWGC 3 cut(s) 104, 347, 731
ArsI GACNNNNNNTTYG 2 cut(s) 437, 469
Asp700I GAANNNNTTC 2 cut(s) 370, 576
AspS9I GGNCC 2 cut(s) 411, 459
AsuHPI GGTGA 1 cut(s) 551
AvaI CYCGRG 1 cut(s) 315
AvaII GGWCC 2 cut(s) 411, 459
BaeGI GKGCMC 3 cut(s) 218, 360, 597
BamHI GGATCC 2 cut(s) 389, 437
BanII GRGCYC 3 cut(s) 39, 316, 711
BauI CACGAG 1 cut(s) 236
BbsI GAAGAC 1 cut(s) 629
Bbv12I GWGCWC 4 cut(s) 39, 231, 597, 711
BbvI GCAGC 3 cut(s) 116, 334, 718
BccI CCATC 2 cut(s) 473, 730
BceAI ACGGC 2 cut(s) 126, 613
BciT130I CCWGG 1 cut(s) 148
BcuI ACTAGT 2 cut(s) 368, 464
BfaI CTAG 3 cut(s) 369, 465, 739
BfmI CTRYAG 1 cut(s) 222
BglII AGATCT 1 cut(s) 240
BisI GCNGC 3 cut(s) 105, 348, 732
BlpI GCTNAGC 1 cut(s) 710
BlsI GCNGC 3 cut(s) 106, 349, 733
Bme1390I CCNGG 1 cut(s) 148
Bme18I GGWCC 2 cut(s) 411, 459
BmeT110I CYCGRG 1 cut(s) 315
BmgT120I GGNCC 2 cut(s) 411, 459
BmiI GGNNCC 7 cut(s) 60, 299, 391, 412, 439, 460, 508
BmrFI CCNGG 1 cut(s) 148
BpiI GAAGAC 1 cut(s) 629
BpmI CTGGAG 4 cut(s) 147, 233, 336, 543
Bpu10I CCTNAGC 1 cut(s) 670
Bpu1102I GCTNAGC 1 cut(s) 710
BpuEI CTTGAG 2 cut(s) 167, 725
BsaHI GRCGYC 1 cut(s) 606
BsaJI CCNNGG 2 cut(s) 360, 633
BsaWI WCCGGW 1 cut(s) 725
Bsc4I CCNNNNNNNGG 1 cut(s) 596
Bse1I ACTGG 6 cut(s) 259, 353, 388, 421, 430, 526
BseAI TCCGGA 1 cut(s) 725
BseBI CCWGG 1 cut(s) 148
BseDI CCNNGG 2 cut(s) 360, 633
BseGI GGATG 3 cut(s) 533, 629, 722
BseLI CCNNNNNNNGG 1 cut(s) 596
BseMII CTCAG 2 cut(s) 684, 724
BseNI ACTGG 6 cut(s) 259, 353, 388, 421, 430, 526
BseRI GAGGAG 3 cut(s) 98, 564, 567
BseSI GKGCMC 3 cut(s) 218, 360, 597
BseXI GCAGC 3 cut(s) 116, 334, 718
BsiHKAI GWGCWC 4 cut(s) 39, 231, 597, 711
BsiHKCI CYCGRG 1 cut(s) 315
BsiSI CCGG 1 cut(s) 726
BslI CCNNNNNNNGG 1 cut(s) 596
BsoBI CYCGRG 1 cut(s) 315
Bsp1286I GDGCHC 7 cut(s) 39, 218, 231, 316, 360, 597, 711
Bsp13I TCCGGA 1 cut(s) 725
Bsp143I GATC 8 cut(s) 187, 240, 389, 397, 437, 485, 493, 556
Bsp1720I GCTNAGC 1 cut(s) 710
Bsp19I CCATGG 1 cut(s) 360
BspACI CCGC 2 cut(s) 47, 675
BspCNI CTCAG 2 cut(s) 683, 723
BspEI TCCGGA 1 cut(s) 725
BspLI GGNNCC 7 cut(s) 60, 299, 391, 412, 439, 460, 508
BspPI GGATC 6 cut(s) 195, 384, 397, 432, 445, 480
BsrI ACTGG 6 cut(s) 259, 353, 388, 421, 430, 526
BssECI CCNNGG 2 cut(s) 360, 633
BssMI GATC 8 cut(s) 187, 240, 389, 397, 437, 485, 493, 556
BssNI GRCGYC 1 cut(s) 606
BssSI CACGAG 1 cut(s) 236
BssT1I CCWWGG 1 cut(s) 360
Bst2BI CACGAG 1 cut(s) 236
Bst2UI CCWGG 1 cut(s) 148
Bst4CI ACNGT 1 cut(s) 686
Bst6I CTCTTC 1 cut(s) 582
BstACI GRCGYC 1 cut(s) 606
BstDEI CTNAG 2 cut(s) 670, 710
BstDSI CCRYGG 1 cut(s) 360
BstEII GGTNACC 1 cut(s) 614
BstF5I GGATG 3 cut(s) 533, 629, 722
BstKTI GATC 8 cut(s) 190, 243, 392, 400, 440, 488, 496, 559
BstMBI GATC 8 cut(s) 187, 240, 389, 397, 437, 485, 493, 556
BstNI CCWGG 1 cut(s) 148
BstNSI RCATGY 1 cut(s) 272
BstPI GGTNACC 1 cut(s) 614
BstSCI CCNGG 1 cut(s) 146
BstSFI CTRYAG 1 cut(s) 222
BstSLI GKGCMC 3 cut(s) 218, 360, 597
BstV1I GCAGC 3 cut(s) 116, 334, 718
BstV2I GAAGAC 1 cut(s) 629
BstX2I RGATCY 5 cut(s) 187, 240, 389, 437, 485
BstXI CCANNNNNNTGG 1 cut(s) 107
BstYI RGATCY 5 cut(s) 187, 240, 389, 437, 485
BtgI CCRYGG 1 cut(s) 360
BtsCI GGATG 3 cut(s) 533, 629, 722
BtsIMutI CAGTG 3 cut(s) 360, 414, 691
Cfr13I GGNCC 2 cut(s) 411, 459
CsiI ACCWGGT 1 cut(s) 146
Csp6I GTAC 2 cut(s) 144, 381
CviAII CATG 3 cut(s) 124, 269, 361
CviQI GTAC 2 cut(s) 144, 381
DdeI CTNAG 2 cut(s) 670, 710
DpnI GATC 8 cut(s) 189, 242, 391, 399, 439, 487, 495, 558
DpnII GATC 8 cut(s) 187, 240, 389, 397, 437, 485, 493, 556
Eam1104I CTCTTC 1 cut(s) 582
EarI CTCTTC 1 cut(s) 582
Ecl136II GAGCTC 2 cut(s) 37, 709
Eco130I CCWWGG 1 cut(s) 360
Eco24I GRGCYC 3 cut(s) 39, 316, 711
Eco47I GGWCC 2 cut(s) 411, 459
Eco53kI GAGCTC 2 cut(s) 37, 709
Eco88I CYCGRG 1 cut(s) 315
Eco91I GGTNACC 1 cut(s) 614
EcoICRI GAGCTC 2 cut(s) 37, 709
EcoO65I GGTNACC 1 cut(s) 614
EcoRII CCWGG 1 cut(s) 146
EcoT14I CCWWGG 1 cut(s) 360
EcoT38I GRGCYC 3 cut(s) 39, 316, 711
ErhI CCWWGG 1 cut(s) 360
FaeI CATG 3 cut(s) 127, 272, 364
FaiI YATR 4 cut(s) 125, 264, 270, 362
FatI CATG 3 cut(s) 123, 268, 360
FauI CCCGC 1 cut(s) 54
Fnu4HI GCNGC 3 cut(s) 105, 348, 732
FokI GGATG 3 cut(s) 520, 616, 709
FriOI GRGCYC 3 cut(s) 39, 316, 711
Fsp4HI GCNGC 3 cut(s) 105, 348, 732
FspBI CTAG 3 cut(s) 369, 465, 739
GluI GCNGC 3 cut(s) 105, 348, 732
GsuI CTGGAG 4 cut(s) 147, 233, 336, 543
HapII CCGG 1 cut(s) 726
Hin1I GRCGYC 1 cut(s) 606
Hin1II CATG 3 cut(s) 127, 272, 364
HinfI GANTC 2 cut(s) 154, 177
HpaII CCGG 1 cut(s) 726
HphI GGTGA 1 cut(s) 551
Hpy166II GTNNAC 3 cut(s) 414, 462, 595
Hpy188I TCNGA 1 cut(s) 634
Hpy188III TCNNGA 6 cut(s) 164, 236, 301, 317, 704, 726
Hpy8I GTNNAC 3 cut(s) 414, 462, 595
HpyAV CCTTC 2 cut(s) 559, 632
HpyCH4III ACNGT 1 cut(s) 686
HpyCH4IV ACGT 4 cut(s) 198, 306, 606, 696
HpyCH4V TGCA 3 cut(s) 25, 541, 595
HpyF3I CTNAG 2 cut(s) 670, 710
HpySE526I ACGT 4 cut(s) 198, 306, 606, 696
Hsp92I GRCGYC 1 cut(s) 606
Hsp92II CATG 3 cut(s) 127, 272, 364
Kpn2I TCCGGA 1 cut(s) 725
Kzo9I GATC 8 cut(s) 187, 240, 389, 397, 437, 485, 493, 556
LmnI GCTCC 4 cut(s) 34, 42, 355, 728
Lsp1109I GCAGC 3 cut(s) 116, 334, 718
MabI ACCWGGT 1 cut(s) 146
MaeI CTAG 3 cut(s) 369, 465, 739
MaeII ACGT 4 cut(s) 198, 306, 606, 696
MaeIII GTNAC 3 cut(s) 614, 653, 677
MalI GATC 8 cut(s) 189, 242, 391, 399, 439, 487, 495, 558
MboI GATC 8 cut(s) 187, 240, 389, 397, 437, 485, 493, 556
MboII GAAGA 2 cut(s) 569, 634
MflI RGATCY 5 cut(s) 187, 240, 389, 437, 485
MhlI GDGCHC 7 cut(s) 39, 218, 231, 316, 360, 597, 711
MluCI AATT 2 cut(s) 403, 451
MroI TCCGGA 1 cut(s) 725
MroXI GAANNNNTTC 2 cut(s) 370, 576
MseI TTAA 1 cut(s) 210
MspA1I CMGCKG 2 cut(s) 107, 253
MspI CCGG 1 cut(s) 726
MspR9I CCNGG 1 cut(s) 148
MvaI CCWGG 1 cut(s) 148
NcoI CCATGG 1 cut(s) 360
NdeII GATC 8 cut(s) 187, 240, 389, 397, 437, 485, 493, 556
NlaIII CATG 3 cut(s) 127, 272, 364
NlaIV GGNNCC 7 cut(s) 60, 299, 391, 412, 439, 460, 508
NspI RCATGY 1 cut(s) 272
PaeR7I CTCGAG 1 cut(s) 315
PciI ACATGT 1 cut(s) 268
PcsI WCGNNNNNNNCGW 1 cut(s) 603
PdmI GAANNNNTTC 2 cut(s) 370, 576
PfeI GAWTC 2 cut(s) 154, 177
PkrI GCNGC 3 cut(s) 106, 349, 733
PscI ACATGT 1 cut(s) 268
Psp124BI GAGCTC 2 cut(s) 39, 711
Psp1406I AACGTT 1 cut(s) 696
Psp6I CCWGG 1 cut(s) 146
PspEI GGTNACC 1 cut(s) 614
PspGI CCWGG 1 cut(s) 146
PspN4I GGNNCC 7 cut(s) 60, 299, 391, 412, 439, 460, 508
PspPI GGNCC 2 cut(s) 411, 459
PsuI RGATCY 5 cut(s) 187, 240, 389, 437, 485
PvuII CAGCTG 2 cut(s) 107, 253
RsaI GTAC 2 cut(s) 145, 382
RsaNI GTAC 2 cut(s) 144, 381
SacI GAGCTC 2 cut(s) 39, 711
SaqAI TTAA 1 cut(s) 210
SatI GCNGC 3 cut(s) 105, 348, 732
Sau3AI GATC 8 cut(s) 187, 240, 389, 397, 437, 485, 493, 556
Sau96I GGNCC 2 cut(s) 411, 459
ScrFI CCNGG 1 cut(s) 148
SduI GDGCHC 7 cut(s) 39, 218, 231, 316, 360, 597, 711
SexAI ACCWGGT 1 cut(s) 146
SfcI CTRYAG 1 cut(s) 222
Sfr274I CTCGAG 1 cut(s) 315
SinI GGWCC 2 cut(s) 411, 459
SlaI CTCGAG 1 cut(s) 315
SmlI CTYRAG 3 cut(s) 182, 315, 704
SmoI CTYRAG 3 cut(s) 182, 315, 704
SpeI ACTAGT 2 cut(s) 368, 464
Sse9I AATT 2 cut(s) 403, 451
SsiI CCGC 2 cut(s) 47, 675
SspMI CTAG 3 cut(s) 369, 465, 739
SstI GAGCTC 2 cut(s) 39, 711
StyD4I CCNGG 1 cut(s) 146
StyI CCWWGG 1 cut(s) 360
TaaI ACNGT 1 cut(s) 686
TaiI ACGT 4 cut(s) 201, 309, 609, 699
TaqI TCGA 1 cut(s) 316
TasI AATT 2 cut(s) 403, 451
TfiI GAWTC 2 cut(s) 154, 177
Tru1I TTAA 1 cut(s) 210
Tru9I TTAA 1 cut(s) 210
TscAI CASTG 3 cut(s) 360, 421, 691
TseI GCWGC 3 cut(s) 104, 347, 731
TspDTI ATGAA 1 cut(s) 344
TspRI CASTG 3 cut(s) 360, 421, 691
VneI GTGCAC 1 cut(s) 593
VpaK11BI GGWCC 2 cut(s) 411, 459
XceI RCATGY 1 cut(s) 272
XhoI CTCGAG 1 cut(s) 315
XmnI GAANNNNTTC 2 cut(s) 370, 576
XspI CTAG 3 cut(s) 369, 465, 739
ZraI GACGTC 1 cut(s) 607
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.