Rroxscaffold_3G00274890

Homeobox protein knotted-1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0002850
Physical Location & Seq
Forward (+)
66513055 .. 66513950
896 bp
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UTR
Exon/CDS
Intron
Rroxscaffold_3G00274890.1

Sequence Viewer

Length: 384 bp
ATGCCATCAATCTCAAACAGAGAATCTCCGGTCGGTCATTCTCGTATGAGCGATTGGTACACAATCACTTTGGAGTTCTTGAAGGTACGTAATGTATGCCGTCGGTTTTATTGTGAGTTTGCTGACCTAGAGAGAAATGATAGCCAAGAAGTAAAACAGGCGTTAGGCGTGCCTACTCAACAAAAAGAGCTAGATCAGTTCATGGAAGCATACTGCTTGGCAGTTGGGAGGTTGAAAGAAGCAATGGAGGAACCTTACCAGATCTCCATGGCTTTCATAACAAACATGCATCTCCAACTCGAGGAGCAAGCATGCTTCTCCCATCCACATGAACCTGCAGACGGTCTTCTGGTAAGAGATGAAAATGACGATCCATGTACATGA
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

127

Amino Acids

14.75

Weight (kDa)

4.73

Isoelectric Point (pI)

62.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
KNOX2 PF03791 60 - 101 1.7e-07 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)
Acc36I ACCTGC 1 cut(s) 343
AclWI GGATC 1 cut(s) 365
AfaI GTAC 3 cut(s) 59, 87, 379
AfiI CCNNNNNNNGG 2 cut(s) 301, 341
AgsI TTSAA 2 cut(s) 82, 235
AluBI AGCT 1 cut(s) 190
AluI AGCT 1 cut(s) 190
AlwI GGATC 1 cut(s) 365
Ama87I CYCGRG 1 cut(s) 299
AvaI CYCGRG 1 cut(s) 299
BbsI GAAGAC 1 cut(s) 338
BccI CCATC 2 cut(s) 13, 330
BceAI ACGGC 1 cut(s) 84
BfaI CTAG 2 cut(s) 128, 191
BfmI CTRYAG 1 cut(s) 336
BfuAI ACCTGC 1 cut(s) 343
BglII AGATCT 1 cut(s) 261
BmeT110I CYCGRG 1 cut(s) 299
BmiI GGNNCC 1 cut(s) 252
BmsI GCATC 1 cut(s) 298
BpiI GAAGAC 1 cut(s) 338
BsaAI YACGTR 1 cut(s) 89
BsaJI CCNNGG 1 cut(s) 267
BsaWI WCCGGW 1 cut(s) 28
BsaXI ACNNNNNCTCC 2 cut(s) 248, 278
Bsc4I CCNNNNNNNGG 2 cut(s) 301, 341
Bse3DI GCAATG 1 cut(s) 249
BseDI CCNNGG 1 cut(s) 267
BseGI GGATG 1 cut(s) 322
BseLI CCNNNNNNNGG 2 cut(s) 301, 341
BseMI GCAATG 1 cut(s) 249
BseRI GAGGAG 1 cut(s) 317
Bsh1285I CGRYCG 1 cut(s) 33
BsiEI CGRYCG 1 cut(s) 33
BsiHKCI CYCGRG 1 cut(s) 299
BsiSI CCGG 1 cut(s) 29
BslI CCNNNNNNNGG 2 cut(s) 301, 341
BsoBI CYCGRG 1 cut(s) 299
Bsp1407I TGTACA 1 cut(s) 377
Bsp143I GATC 3 cut(s) 193, 261, 370
Bsp19I CCATGG 1 cut(s) 267
BspLI GGNNCC 1 cut(s) 252
BspMAI CTGCAG 1 cut(s) 340
BspMI ACCTGC 1 cut(s) 343
BspPI GGATC 1 cut(s) 365
BsrDI GCAATG 1 cut(s) 249
BsrGI TGTACA 1 cut(s) 377
BssECI CCNNGG 1 cut(s) 267
BssMI GATC 3 cut(s) 193, 261, 370
BssT1I CCWWGG 1 cut(s) 267
Bst4CI ACNGT 1 cut(s) 344
BstAUI TGTACA 1 cut(s) 377
BstBAI YACGTR 1 cut(s) 89
BstC8I GCNNGC 3 cut(s) 170, 309, 313
BstDSI CCRYGG 1 cut(s) 267
BstF5I GGATG 1 cut(s) 322
BstKTI GATC 3 cut(s) 196, 264, 373
BstMBI GATC 3 cut(s) 193, 261, 370
BstMCI CGRYCG 1 cut(s) 33
BstNSI RCATGY 2 cut(s) 289, 315
BstSFI CTRYAG 1 cut(s) 336
BstSNI TACGTA 1 cut(s) 89
BstV2I GAAGAC 1 cut(s) 338
BstX2I RGATCY 1 cut(s) 261
BstYI RGATCY 1 cut(s) 261
BtgI CCRYGG 1 cut(s) 267
BtsCI GGATG 1 cut(s) 322
BveI ACCTGC 1 cut(s) 343
Cac8I GCNNGC 3 cut(s) 170, 309, 313
Csp6I GTAC 3 cut(s) 58, 86, 378
CviAII CATG 7 cut(s) 202, 268, 286, 312, 329, 375, 381
CviJI RGCY 3 cut(s) 144, 190, 272
CviKI_1 RGCY 3 cut(s) 144, 190, 272
CviQI GTAC 3 cut(s) 58, 86, 378
DpnI GATC 3 cut(s) 195, 263, 372
DpnII GATC 3 cut(s) 193, 261, 370
Eco105I TACGTA 1 cut(s) 89
Eco130I CCWWGG 1 cut(s) 267
Eco88I CYCGRG 1 cut(s) 299
EcoT14I CCWWGG 1 cut(s) 267
EcoT22I ATGCAT 1 cut(s) 291
ErhI CCWWGG 1 cut(s) 267
FaeI CATG 7 cut(s) 205, 271, 289, 315, 332, 378, 384
FatI CATG 7 cut(s) 201, 267, 285, 311, 328, 374, 380
FokI GGATG 1 cut(s) 309
FspBI CTAG 2 cut(s) 128, 191
HapII CCGG 1 cut(s) 29
Hin1II CATG 7 cut(s) 205, 271, 289, 315, 332, 378, 384
HinfI GANTC 1 cut(s) 23
HpaII CCGG 1 cut(s) 29
Hpy166II GTNNAC 1 cut(s) 60
Hpy188III TCNNGA 1 cut(s) 79
Hpy8I GTNNAC 1 cut(s) 60
Hpy99I CGWCG 1 cut(s) 105
HpyAV CCTTC 1 cut(s) 76
HpyCH4III ACNGT 1 cut(s) 344
HpyCH4IV ACGT 1 cut(s) 88
HpyCH4V TGCA 2 cut(s) 289, 338
HpySE526I ACGT 1 cut(s) 88
Hsp92II CATG 7 cut(s) 205, 271, 289, 315, 332, 378, 384
Kzo9I GATC 3 cut(s) 193, 261, 370
LmnI GCTCC 1 cut(s) 304
LpnPI CCDG 5 cut(s) 42, 143, 272, 335, 348
LweI GCATC 1 cut(s) 298
MaeI CTAG 2 cut(s) 128, 191
MaeII ACGT 1 cut(s) 88
MalI GATC 3 cut(s) 195, 263, 372
MboI GATC 3 cut(s) 193, 261, 370
MboII GAAGA 1 cut(s) 338
MflI RGATCY 1 cut(s) 261
MmeI TCCRAC 1 cut(s) 319
MnlI CCTC 3 cut(s) 222, 241, 295
Mph1103I ATGCAT 1 cut(s) 291
MslI CAYNNNNRTG 2 cut(s) 327, 379
MspI CCGG 1 cut(s) 29
NcoI CCATGG 1 cut(s) 267
NdeII GATC 3 cut(s) 193, 261, 370
NlaIII CATG 7 cut(s) 205, 271, 289, 315, 332, 378, 384
NlaIV GGNNCC 1 cut(s) 252
NsiI ATGCAT 1 cut(s) 291
NspI RCATGY 2 cut(s) 289, 315
PaeI GCATGC 1 cut(s) 315
PaeR7I CTCGAG 1 cut(s) 299
PfeI GAWTC 1 cut(s) 23
Ppu21I YACGTR 1 cut(s) 89
PspN4I GGNNCC 1 cut(s) 252
PspXI VCTCGAGB 1 cut(s) 299
PstI CTGCAG 1 cut(s) 340
PsuI RGATCY 1 cut(s) 261
RsaI GTAC 3 cut(s) 59, 87, 379
RsaNI GTAC 3 cut(s) 58, 86, 378
RseI CAYNNNNRTG 2 cut(s) 327, 379
Sau3AI GATC 3 cut(s) 193, 261, 370
SetI ASST 7 cut(s) 87, 91, 129, 192, 233, 256, 337
SfaNI GCATC 1 cut(s) 298
SfcI CTRYAG 1 cut(s) 336
Sfr274I CTCGAG 1 cut(s) 299
SlaI CTCGAG 1 cut(s) 299
SmiMI CAYNNNNRTG 2 cut(s) 327, 379
SmlI CTYRAG 1 cut(s) 299
SmoI CTYRAG 1 cut(s) 299
SnaBI TACGTA 1 cut(s) 89
SphI GCATGC 1 cut(s) 315
SspMI CTAG 2 cut(s) 128, 191
StyI CCWWGG 1 cut(s) 267
TaaI ACNGT 1 cut(s) 344
TaiI ACGT 1 cut(s) 91
TaqI TCGA 1 cut(s) 300
TaqII GACCGA 1 cut(s) 23
TatI WGTACW 1 cut(s) 377
TfiI GAWTC 1 cut(s) 23
TspDTI ATGAA 4 cut(s) 190, 265, 345, 375
XceI RCATGY 2 cut(s) 289, 315
XhoI CTCGAG 1 cut(s) 299
XspI CTAG 2 cut(s) 128, 191
Zsp2I ATGCAT 1 cut(s) 291
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.