Rroxscaffold_5G00383430

Homeobox protein knotted-1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0002850
Physical Location & Seq
Reverse (-)
63029880 .. 63030571
692 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00383430.1

Sequence Viewer

Length: 468 bp
ATGGCGGAGAATACTGGTACTAATGTTAGGGTGGTGACTTCTTCAGATGAACAAGGTGATGATCGTATTCATGTCGGCCAGGAGGAAGGGGATGGTCAAGATGAGGACAAGGAGGAAGAAGCTCTAAAGAAGATGATATCAGGTCATCCATTATATGGATTGTTGCTTGAGAATCACATCAACTGCTTGAAGGAAGCGCTAGTACTACTACTACTTCTGTTACAGAAGACTGCCAATAATAAGAAGCTCAAGGCCGCCCTTACCAATCCTAGTTCCTCCGACCTTGATCAATTCATGGAAGCATACTGCAAAGCCCTAAAGAAGCTTAAAGAAGCCATGGACAATCCTCTAAAGGAAGCATCATCTTTCATTAACTCCGCGCATACTCAGCTTGAGGAGATCACAGAAGACTCCAAGGAAACCGAGCAGGGGCTAAACCTGACTGAGCCATCGAGCAACATCAAGTAG
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

155

Amino Acids

17.16

Weight (kDa)

4.74

Isoelectric Point (pI)

42.26

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
KNOX2 PF03791 94 - 135 2.6e-13 KNOX2 domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 155
AccII CGCG 1 cut(s) 380
AciI CCGC 3 cut(s) 5, 255, 378
AcoI YGGCCR 1 cut(s) 76
AcuI CTGAAG 1 cut(s) 27
AfaI GTAC 2 cut(s) 19, 204
AfeI AGCGCT 1 cut(s) 198
AfiI CCNNNNNNNGG 2 cut(s) 155, 429
AgsI TTSAA 1 cut(s) 190
AjnI CCWGG 1 cut(s) 78
AluBI AGCT 4 cut(s) 122, 247, 325, 391
AluI AGCT 4 cut(s) 122, 247, 325, 391
Aor51HI AGCGCT 1 cut(s) 198
AoxI GGCC 2 cut(s) 76, 252
AspLEI GCGC 2 cut(s) 199, 382
AsuHPI GGTGA 2 cut(s) 46, 68
BaeI ACNNNNGTAYC 2 cut(s) 9, 42
BarI GAAGNNNNNNTAC 2 cut(s) 186, 218
BbsI GAAGAC 2 cut(s) 233, 414
BccI CCATC 2 cut(s) 86, 457
BciT130I CCWGG 1 cut(s) 80
BclI TGATCA 1 cut(s) 286
BfaI CTAG 2 cut(s) 200, 270
BfoI RGCGCY 1 cut(s) 200
BisI GCNGC 1 cut(s) 255
BlsI GCNGC 1 cut(s) 256
BmcAI AGTACT 1 cut(s) 204
Bme1390I CCNGG 1 cut(s) 80
BmrFI CCNGG 1 cut(s) 80
BmsI GCATC 1 cut(s) 368
BpiI GAAGAC 2 cut(s) 233, 414
BpuEI CTTGAG 3 cut(s) 188, 233, 413
BsaJI CCNNGG 2 cut(s) 336, 414
Bsc4I CCNNNNNNNGG 2 cut(s) 155, 429
Bse1I ACTGG 1 cut(s) 19
BseBI CCWGG 1 cut(s) 80
BseDI CCNNGG 2 cut(s) 336, 414
BseGI GGATG 2 cut(s) 97, 145
BseLI CCNNNNNNNGG 2 cut(s) 155, 429
BseMII CTCAG 2 cut(s) 401, 435
BseNI ACTGG 1 cut(s) 19
BseRI GAGGAG 1 cut(s) 410
Bsh1236I CGCG 1 cut(s) 380
BshFI GGCC 2 cut(s) 78, 254
BslI CCNNNNNNNGG 2 cut(s) 155, 429
BsnI GGCC 2 cut(s) 78, 254
Bsp143I GATC 3 cut(s) 61, 286, 399
Bsp19I CCATGG 1 cut(s) 336
BspACI CCGC 3 cut(s) 5, 255, 378
BspANI GGCC 2 cut(s) 78, 254
BspCNI CTCAG 2 cut(s) 400, 436
BspFNI CGCG 1 cut(s) 380
BsrI ACTGG 1 cut(s) 19
BssECI CCNNGG 2 cut(s) 336, 414
BssMI GATC 3 cut(s) 61, 286, 399
BssT1I CCWWGG 2 cut(s) 336, 414
Bst2UI CCWGG 1 cut(s) 80
BstDEI CTNAG 2 cut(s) 387, 444
BstDSI CCRYGG 1 cut(s) 336
BstF5I GGATG 2 cut(s) 97, 145
BstFNI CGCG 1 cut(s) 380
BstH2I RGCGCY 1 cut(s) 200
BstHHI GCGC 2 cut(s) 199, 382
BstKTI GATC 3 cut(s) 64, 289, 402
BstMBI GATC 3 cut(s) 61, 286, 399
BstMWI GCNNNNNNNGC 1 cut(s) 388
BstNI CCWGG 1 cut(s) 80
BstSCI CCNGG 1 cut(s) 78
BstUI CGCG 1 cut(s) 380
BstV2I GAAGAC 2 cut(s) 233, 414
BsuRI GGCC 2 cut(s) 78, 254
BtgI CCRYGG 1 cut(s) 336
BtsCI GGATG 2 cut(s) 97, 145
CfoI GCGC 2 cut(s) 199, 382
Csp6I GTAC 2 cut(s) 18, 203
CviAII CATG 3 cut(s) 71, 295, 337
CviQI GTAC 2 cut(s) 18, 203
DdeI CTNAG 2 cut(s) 387, 444
DpnI GATC 3 cut(s) 63, 288, 401
DpnII GATC 3 cut(s) 61, 286, 399
EaeI YGGCCR 1 cut(s) 76
EciI GGCGGA 1 cut(s) 20
Eco130I CCWWGG 2 cut(s) 336, 414
Eco32I GATATC 1 cut(s) 138
Eco47III AGCGCT 1 cut(s) 198
Eco57I CTGAAG 1 cut(s) 27
EcoRII CCWGG 1 cut(s) 78
EcoRV GATATC 1 cut(s) 138
EcoT14I CCWWGG 2 cut(s) 336, 414
ErhI CCWWGG 2 cut(s) 336, 414
FaeI CATG 3 cut(s) 74, 298, 340
FaiI YATR 7 cut(s) 72, 154, 156, 296, 304, 338, 384
FatI CATG 3 cut(s) 70, 294, 336
FbaI TGATCA 1 cut(s) 286
Fnu4HI GCNGC 1 cut(s) 255
FokI GGATG 2 cut(s) 104, 132
Fsp4HI GCNGC 1 cut(s) 255
FspBI CTAG 2 cut(s) 200, 270
GlaI GCGC 2 cut(s) 198, 381
GluI GCNGC 1 cut(s) 255
HaeII RGCGCY 1 cut(s) 200
HaeIII GGCC 2 cut(s) 78, 254
HhaI GCGC 2 cut(s) 199, 382
Hin1II CATG 3 cut(s) 74, 298, 340
Hin6I GCGC 2 cut(s) 197, 380
HinP1I GCGC 2 cut(s) 197, 380
HindIII AAGCTT 1 cut(s) 323
HinfI GANTC 2 cut(s) 172, 410
HphI GGTGA 2 cut(s) 46, 68
Hpy188I TCNGA 2 cut(s) 46, 280
Hpy188III TCNNGA 1 cut(s) 98
HpyAV CCTTC 2 cut(s) 80, 184
HpyCH4V TGCA 1 cut(s) 309
HpyF10VI GCNNNNNNNGC 1 cut(s) 388
HpyF3I CTNAG 2 cut(s) 387, 444
Hsp92II CATG 3 cut(s) 74, 298, 340
HspAI GCGC 2 cut(s) 197, 380
Ksp22I TGATCA 1 cut(s) 286
Kzo9I GATC 3 cut(s) 61, 286, 399
LpnPI CCDG 5 cut(s) 65, 92, 126, 413, 452
LweI GCATC 1 cut(s) 368
MaeI CTAG 2 cut(s) 200, 270
MaeIII GTNAC 2 cut(s) 34, 219
MalI GATC 3 cut(s) 63, 288, 401
MboI GATC 3 cut(s) 61, 286, 399
MboII GAAGA 5 cut(s) 33, 128, 142, 238, 419
MluCI AATT 1 cut(s) 290
MlyI GAGTC 1 cut(s) 404
MmeI TCCRAC 1 cut(s) 303
MnlI CCTC 6 cut(s) 76, 97, 106, 286, 357, 388
MseI TTAA 2 cut(s) 327, 372
MspR9I CCNGG 1 cut(s) 80
MvaI CCWGG 1 cut(s) 80
MvnI CGCG 1 cut(s) 380
MwoI GCNNNNNNNGC 1 cut(s) 388
NcoI CCATGG 1 cut(s) 336
NdeII GATC 3 cut(s) 61, 286, 399
NlaIII CATG 3 cut(s) 74, 298, 340
NmuCI GTSAC 1 cut(s) 34
PfeI GAWTC 1 cut(s) 172
PflMI CCANNNNNTGG 1 cut(s) 155
PkrI GCNGC 1 cut(s) 256
PleI GAGTC 1 cut(s) 404
PpsI GAGTC 1 cut(s) 404
Psp6I CCWGG 1 cut(s) 78
PspGI CCWGG 1 cut(s) 78
RsaI GTAC 2 cut(s) 19, 204
RsaNI GTAC 2 cut(s) 18, 203
SaqAI TTAA 2 cut(s) 327, 372
SatI GCNGC 1 cut(s) 255
Sau3AI GATC 3 cut(s) 61, 286, 399
ScaI AGTACT 1 cut(s) 204
SchI GAGTC 1 cut(s) 404
ScrFI CCNGG 1 cut(s) 80
SetI ASST 8 cut(s) 58, 124, 145, 249, 285, 327, 393, 441
SfaNI GCATC 1 cut(s) 368
SmlI CTYRAG 3 cut(s) 167, 248, 392
SmoI CTYRAG 3 cut(s) 167, 248, 392
Sse9I AATT 1 cut(s) 290
SsiI CCGC 3 cut(s) 5, 255, 378
SspMI CTAG 2 cut(s) 200, 270
StyD4I CCNGG 1 cut(s) 78
StyI CCWWGG 2 cut(s) 336, 414
TaqI TCGA 1 cut(s) 452
TasI AATT 1 cut(s) 290
TatI WGTACW 1 cut(s) 202
TauI GCSGC 1 cut(s) 257
TfiI GAWTC 1 cut(s) 172
Tru1I TTAA 2 cut(s) 327, 372
Tru9I TTAA 2 cut(s) 327, 372
TseFI GTSAC 1 cut(s) 34
Tsp45I GTSAC 1 cut(s) 34
TspDTI ATGAA 4 cut(s) 59, 63, 283, 358
Van91I CCANNNNNTGG 1 cut(s) 155
XspI CTAG 2 cut(s) 200, 270
ZrmI AGTACT 1 cut(s) 204
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.