Rroxscaffold_1G00045330

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0006038
Physical Location & Seq
Forward (+)
64330155 .. 64331639
1485 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00045330.1

Sequence Viewer

Length: 1029 bp
ATGAAAGGCATGGATTTCTTAGGCAGGAAGAGAAGTTTTTTTATCACATTGCTCATCTTTGTATCTACTGCGGTACAAAGTGAAGCAGAAACTCAAGTTTGCTACAGCAAGAGCAGCCCCTGCTTTCTAAAGCAGGTATACTGCCCATCAGAATGTCCATCCTCTTCACCACAAAACCCGAAAGCTAAAGTTTGCTATCTCAATTGCAACTCCCCCATATGCAAAGCCGAGTGCAGAAATCGAAAACCAAATTGCAATGGCCCTGGATCAGCATGCCTGGACCCTCGCTTCATTGGTGGAGACGGCATTGTTTTTTACTTCCATGGCAAGAAAAACGAGCATTTCAGCTTAGTTTCTGATCCCAACCTCCAAATCAATGCTCGCTTCATTGGTCTCCGCCCTGAAGGCCGAAGCAGGGACTATACCTGGATTCAAGCCCTTGGACTCCTCTTCGATTCGAACAGCTTCACACTCGAGGCCACCCCATCAGCAACATGGGACGCTGAGATTGACCACTTGAAGTTCTCTTACAATGGTGAGGAGCTAATCATCCCAGAATCCCATCTCTCTGTTTGGGAATCTAAGGAAACTTCTATTAGAGTGGAGAGGACTTCGAGCAAGAACAGTGTCTTAGTCACTCTCCCAGAAGTTGCTGAAATTTCAGTCAATGTGGTACCCGTGACAAAGGAAGATGATAAGATCCACAAATATCAAATACCATCGGATGACTGTTTTGCTCACCTGGAAGTACAGTTCAGATTCTACGGTCTGTCATCAAATGTTGAAGGAGTACTTGGAAGGACTTACCAGCCAGATTTCAAGAACCCGGCAAAGGCTGGAGTAGCCATGCCGGTAGTTGGAGGTGAATACAAGTACAAAACAACATCACTTGTCTCTGCGGATTGTTTTGCTTGTGTGTTCACCCAGGCCGGGATGTTGGATCAGACGGATTCAAGAGTGATGGATTACGGAAAGCTAGACTGCACGGGTAACACCTTCAGTGGGAATGGAATAGTTTGCAGGAAGTAA
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
Root_cap

Protein Analysis

342

Amino Acids

37.99

Weight (kDa)

6.6

Isoelectric Point (pI)

39.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 251 - 307 1.2e-25 Root cap
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)
Acc36I ACCTGC 1 cut(s) 124
Acc65I GGTACC 1 cut(s) 673
AccB1I GGYRCC 1 cut(s) 673
AccI GTMKAC 1 cut(s) 138
AciI CCGC 3 cut(s) 71, 397, 899
AclWI GGATC 4 cut(s) 274, 353, 694, 948
AcsI RAATTY 1 cut(s) 657
AcuI CTGAAG 2 cut(s) 423, 982
AfaI GTAC 5 cut(s) 75, 675, 750, 792, 875
AfiI CCNNNNNNNGG 5 cut(s) 415, 832, 857, 930, 1002
AgsI TTSAA 5 cut(s) 434, 520, 785, 820, 954
AjnI CCWGG 5 cut(s) 262, 276, 425, 741, 924
AjuI GAANNNNNNNTTGG 2 cut(s) 777, 809
AloI GAACNNNNNNTCC 2 cut(s) 737, 769
AluBI AGCT 5 cut(s) 185, 348, 465, 544, 976
AluI AGCT 5 cut(s) 185, 348, 465, 544, 976
Alw26I GTCTC 3 cut(s) 294, 398, 898
AlwI GGATC 4 cut(s) 274, 353, 694, 948
AlwNI CAGNNNCTG 1 cut(s) 120
Ama87I CYCGRG 1 cut(s) 473
AoxI GGCC 4 cut(s) 259, 406, 477, 927
ApeKI GCWGC 1 cut(s) 114
ApoI RAATTY 1 cut(s) 657
Asp700I GAANNNNTTC 1 cut(s) 464
Asp718I GGTACC 1 cut(s) 673
AspS9I GGNCC 2 cut(s) 260, 280
AsuC2I CCSGG 2 cut(s) 827, 931
AsuHPI GGTGA 5 cut(s) 159, 548, 731, 875, 913
AsuII TTCGAA 1 cut(s) 458
AvaI CYCGRG 1 cut(s) 473
AvaII GGWCC 1 cut(s) 280
BanI GGYRCC 1 cut(s) 673
BarI GAAGNNNNNNTAC 2 cut(s) 512, 544
BbvI GCAGC 1 cut(s) 126
BccI CCATC 6 cut(s) 154, 166, 493, 570, 727, 955
BceAI ACGGC 1 cut(s) 319
BciT130I CCWGG 5 cut(s) 264, 278, 427, 743, 926
BcnI CCSGG 2 cut(s) 827, 931
BcoDI GTCTC 3 cut(s) 294, 398, 898
BfaI CTAG 1 cut(s) 977
BfmI CTRYAG 1 cut(s) 103
BfuAI ACCTGC 1 cut(s) 124
BglI GCCNNNNNGGC 1 cut(s) 405
BisI GCNGC 1 cut(s) 115
BlsI GCNGC 1 cut(s) 116
BmcAI AGTACT 1 cut(s) 792
Bme1390I CCNGG 7 cut(s) 264, 278, 427, 743, 827, 926, 931
Bme18I GGWCC 1 cut(s) 280
BmeT110I CYCGRG 1 cut(s) 473
BmgT120I GGNCC 2 cut(s) 260, 280
BmiI GGNNCC 2 cut(s) 282, 675
BmrFI CCNGG 7 cut(s) 264, 278, 427, 743, 827, 926, 931
BpmI CTGGAG 1 cut(s) 858
Bpu14I TTCGAA 1 cut(s) 458
BpuEI CTTGAG 1 cut(s) 78
BpuMI CCSGG 2 cut(s) 827, 931
BsaI GGTCTC 1 cut(s) 398
BsaJI CCNNGG 4 cut(s) 262, 322, 439, 924
Bsc4I CCNNNNNNNGG 5 cut(s) 415, 832, 857, 930, 1002
Bse118I RCCGGY 1 cut(s) 850
Bse3DI GCAATG 2 cut(s) 47, 262
BseBI CCWGG 5 cut(s) 264, 278, 427, 743, 926
BseDI CCNNGG 4 cut(s) 262, 322, 439, 924
BseGI GGATG 4 cut(s) 158, 549, 730, 939
BseLI CCNNNNNNNGG 5 cut(s) 415, 832, 857, 930, 1002
BseMI GCAATG 2 cut(s) 47, 262
BseMII CTCAG 1 cut(s) 495
BseRI GAGGAG 2 cut(s) 437, 554
BseXI GCAGC 1 cut(s) 126
BsgI GTGCAG 2 cut(s) 253, 967
BshFI GGCC 4 cut(s) 261, 408, 479, 929
BshNI GGYRCC 1 cut(s) 673
BsiHKCI CYCGRG 1 cut(s) 473
BsiSI CCGG 3 cut(s) 827, 851, 930
BslFI GGGAC 2 cut(s) 431, 512
BslI CCNNNNNNNGG 5 cut(s) 415, 832, 857, 930, 1002
BsmAI GTCTC 3 cut(s) 294, 398, 898
BsmBI CGTCTC 1 cut(s) 294
BsmFI GGGAC 2 cut(s) 431, 512
BsnI GGCC 4 cut(s) 261, 408, 479, 929
Bso31I GGTCTC 1 cut(s) 398
BsoBI CYCGRG 1 cut(s) 473
Bsp119I TTCGAA 1 cut(s) 458
Bsp143I GATC 4 cut(s) 266, 358, 699, 940
Bsp19I CCATGG 1 cut(s) 322
BspACI CCGC 3 cut(s) 71, 397, 899
BspANI GGCC 4 cut(s) 261, 408, 479, 929
BspCNI CTCAG 1 cut(s) 496
BspLI GGNNCC 2 cut(s) 282, 675
BspMI ACCTGC 1 cut(s) 124
BspPI GGATC 4 cut(s) 274, 353, 694, 948
BspT104I TTCGAA 1 cut(s) 458
BspT107I GGYRCC 1 cut(s) 673
BspTNI GGTCTC 1 cut(s) 398
BsrDI GCAATG 2 cut(s) 47, 262
BsrFI RCCGGY 1 cut(s) 850
BssAI RCCGGY 1 cut(s) 850
BssECI CCNNGG 4 cut(s) 262, 322, 439, 924
BssMI GATC 4 cut(s) 266, 358, 699, 940
BssNAI GTATAC 1 cut(s) 139
BssT1I CCWWGG 2 cut(s) 322, 439
Bst1107I GTATAC 1 cut(s) 139
Bst2UI CCWGG 5 cut(s) 264, 278, 427, 743, 926
Bst4CI ACNGT 4 cut(s) 626, 731, 753, 767
Bst6I CTCTTC 3 cut(s) 23, 169, 455
BstAPI GCANNNNNTGC 1 cut(s) 120
BstBI TTCGAA 1 cut(s) 458
BstC8I GCNNGC 2 cut(s) 274, 382
BstDEI CTNAG 5 cut(s) 19, 349, 504, 582, 631
BstDSI CCRYGG 1 cut(s) 322
BstF5I GGATG 4 cut(s) 158, 549, 730, 939
BstKTI GATC 4 cut(s) 269, 361, 702, 943
BstMAI GTCTC 3 cut(s) 294, 398, 898
BstMBI GATC 4 cut(s) 266, 358, 699, 940
BstMWI GCNNNNNNNGC 4 cut(s) 114, 120, 405, 842
BstNI CCWGG 5 cut(s) 264, 278, 427, 743, 926
BstNSI RCATGY 1 cut(s) 276
BstSCI CCNGG 7 cut(s) 262, 276, 425, 741, 825, 924, 929
BstSFI CTRYAG 1 cut(s) 103
BstV1I GCAGC 1 cut(s) 126
BstX2I RGATCY 1 cut(s) 699
BstYI RGATCY 1 cut(s) 699
BstZ17I GTATAC 1 cut(s) 139
BsuRI GGCC 4 cut(s) 261, 408, 479, 929
BtgI CCRYGG 1 cut(s) 322
BtsCI GGATG 4 cut(s) 158, 549, 730, 939
BtsIMutI CAGTG 2 cut(s) 631, 1006
BveI ACCTGC 1 cut(s) 124
Cac8I GCNNGC 2 cut(s) 274, 382
CaiI CAGNNNCTG 1 cut(s) 120
Cfr10I RCCGGY 1 cut(s) 850
Cfr13I GGNCC 2 cut(s) 260, 280
CseI GACGC 1 cut(s) 509
Csp6I GTAC 5 cut(s) 74, 674, 749, 791, 874
CviAII CATG 5 cut(s) 10, 273, 323, 495, 847
CviQI GTAC 5 cut(s) 74, 674, 749, 791, 874
DdeI CTNAG 5 cut(s) 19, 349, 504, 582, 631
DpnI GATC 4 cut(s) 268, 360, 701, 942
DpnII GATC 4 cut(s) 266, 358, 699, 940
Eam1104I CTCTTC 3 cut(s) 23, 169, 455
EarI CTCTTC 3 cut(s) 23, 169, 455
EciI GGCGGA 1 cut(s) 386
Eco130I CCWWGG 2 cut(s) 322, 439
Eco31I GGTCTC 1 cut(s) 398
Eco47I GGWCC 1 cut(s) 280
Eco57I CTGAAG 2 cut(s) 423, 982
Eco88I CYCGRG 1 cut(s) 473
EcoRII CCWGG 5 cut(s) 262, 276, 425, 741, 924
EcoT14I CCWWGG 2 cut(s) 322, 439
ErhI CCWWGG 2 cut(s) 322, 439
Esp3I CGTCTC 1 cut(s) 294
FaeI CATG 5 cut(s) 13, 276, 326, 498, 850
FaiI YATR 9 cut(s) 11, 139, 218, 220, 274, 324, 423, 496, 848
FalI AAGNNNNNCTT 2 cut(s) 777, 809
FaqI GGGAC 2 cut(s) 431, 512
FatI CATG 5 cut(s) 9, 272, 322, 494, 846
FauNDI CATATG 1 cut(s) 218
FblI GTMKAC 1 cut(s) 138
Fnu4HI GCNGC 1 cut(s) 115
FokI GGATG 4 cut(s) 145, 536, 737, 946
Fsp4HI GCNGC 1 cut(s) 115
FspBI CTAG 1 cut(s) 977
GluI GCNGC 1 cut(s) 115
GsuI CTGGAG 1 cut(s) 858
HaeIII GGCC 4 cut(s) 261, 408, 479, 929
HapII CCGG 3 cut(s) 827, 851, 930
HgaI GACGC 1 cut(s) 509
Hin1II CATG 5 cut(s) 13, 276, 326, 498, 850
HinfI GANTC 7 cut(s) 430, 444, 455, 557, 578, 759, 950
HpaII CCGG 3 cut(s) 827, 851, 930
HphI GGTGA 5 cut(s) 159, 548, 731, 875, 913
Hpy166II GTNNAC 2 cut(s) 139, 921
Hpy188I TCNGA 5 cut(s) 151, 358, 724, 758, 945
Hpy188III TCNNGA 2 cut(s) 820, 954
Hpy8I GTNNAC 2 cut(s) 139, 921
HpyAV CCTTC 4 cut(s) 398, 779, 792, 1006
HpyCH4III ACNGT 4 cut(s) 626, 731, 753, 767
HpyCH4V TGCA 6 cut(s) 207, 222, 234, 255, 984, 1020
HpyF10VI GCNNNNNNNGC 4 cut(s) 114, 120, 405, 842
HpyF3I CTNAG 5 cut(s) 19, 349, 504, 582, 631
Hsp92II CATG 5 cut(s) 13, 276, 326, 498, 850
KpnI GGTACC 1 cut(s) 677
Kzo9I GATC 4 cut(s) 266, 358, 699, 940
LmnI GCTCC 1 cut(s) 541
Lsp1109I GCAGC 1 cut(s) 126
MaeI CTAG 1 cut(s) 977
MaeIII GTNAC 3 cut(s) 634, 679, 989
MalI GATC 4 cut(s) 268, 360, 701, 942
MboI GATC 4 cut(s) 266, 358, 699, 940
MboII GAAGA 4 cut(s) 40, 156, 442, 701
MfeI CAATTG 1 cut(s) 202
MflI RGATCY 1 cut(s) 699
MluCI AATT 3 cut(s) 202, 250, 657
MlyI GAGTC 1 cut(s) 438
MmeI TCCRAC 2 cut(s) 838, 918
MnlI CCTC 8 cut(s) 172, 294, 377, 458, 469, 532, 600, 854
MroXI GAANNNNTTC 1 cut(s) 464
MslI CAYNNNNRTG 1 cut(s) 151
MspI CCGG 3 cut(s) 827, 851, 930
MspR9I CCNGG 7 cut(s) 264, 278, 427, 743, 827, 926, 931
MunI CAATTG 1 cut(s) 202
MvaI CCWGG 5 cut(s) 264, 278, 427, 743, 926
MwoI GCNNNNNNNGC 4 cut(s) 114, 120, 405, 842
NciI CCSGG 2 cut(s) 827, 931
NcoI CCATGG 1 cut(s) 322
NdeI CATATG 1 cut(s) 218
NdeII GATC 4 cut(s) 266, 358, 699, 940
NlaIII CATG 5 cut(s) 13, 276, 326, 498, 850
NlaIV GGNNCC 2 cut(s) 282, 675
NmeAIII GCCGAG 1 cut(s) 253
NmuCI GTSAC 2 cut(s) 634, 679
NspI RCATGY 1 cut(s) 276
NspV TTCGAA 1 cut(s) 458
PaeI GCATGC 1 cut(s) 276
PaeR7I CTCGAG 1 cut(s) 473
PdmI GAANNNNTTC 1 cut(s) 464
PfeI GAWTC 6 cut(s) 430, 455, 557, 578, 759, 950
PkrI GCNGC 1 cut(s) 116
PleI GAGTC 1 cut(s) 438
PpsI GAGTC 1 cut(s) 438
Psp6I CCWGG 5 cut(s) 262, 276, 425, 741, 924
PspGI CCWGG 5 cut(s) 262, 276, 425, 741, 924
PspN4I GGNNCC 2 cut(s) 282, 675
PspPI GGNCC 2 cut(s) 260, 280
PspXI VCTCGAGB 1 cut(s) 473
PstNI CAGNNNCTG 1 cut(s) 120
PsuI RGATCY 1 cut(s) 699
RsaI GTAC 5 cut(s) 75, 675, 750, 792, 875
RsaNI GTAC 5 cut(s) 74, 674, 749, 791, 874
RseI CAYNNNNRTG 1 cut(s) 151
SatI GCNGC 1 cut(s) 115
Sau3AI GATC 4 cut(s) 266, 358, 699, 940
Sau96I GGNCC 2 cut(s) 260, 280
ScaI AGTACT 1 cut(s) 792
SchI GAGTC 1 cut(s) 438
ScrFI CCNGG 7 cut(s) 264, 278, 427, 743, 827, 926, 931
SfcI CTRYAG 1 cut(s) 103
Sfr274I CTCGAG 1 cut(s) 473
SfuI TTCGAA 1 cut(s) 458
SinI GGWCC 1 cut(s) 280
SlaI CTCGAG 1 cut(s) 473
SmiMI CAYNNNNRTG 1 cut(s) 151
SmlI CTYRAG 2 cut(s) 93, 473
SmoI CTYRAG 2 cut(s) 93, 473
SphI GCATGC 1 cut(s) 276
Sse9I AATT 3 cut(s) 202, 250, 657
SsiI CCGC 3 cut(s) 71, 397, 899
SspMI CTAG 1 cut(s) 977
StyD4I CCNGG 7 cut(s) 262, 276, 425, 741, 825, 924, 929
StyI CCWWGG 2 cut(s) 322, 439
TaaI ACNGT 4 cut(s) 626, 731, 753, 767
TaqI TCGA 5 cut(s) 241, 453, 458, 474, 614
TasI AATT 3 cut(s) 202, 250, 657
TatI WGTACW 3 cut(s) 748, 790, 873
TfiI GAWTC 6 cut(s) 430, 455, 557, 578, 759, 950
TscAI CASTG 2 cut(s) 631, 1006
TseFI GTSAC 2 cut(s) 634, 679
TseI GCWGC 1 cut(s) 114
Tsp45I GTSAC 2 cut(s) 634, 679
TspDTI ATGAA 3 cut(s) 17, 280, 376
TspGWI ACGGA 2 cut(s) 962, 984
TspRI CASTG 2 cut(s) 631, 1006
VpaK11BI GGWCC 1 cut(s) 280
XapI RAATTY 1 cut(s) 657
XceI RCATGY 1 cut(s) 276
XcmI CCANNNNNNNNNTGG 1 cut(s) 492
XhoI CTCGAG 1 cut(s) 473
XmiI GTMKAC 1 cut(s) 138
XmnI GAANNNNTTC 1 cut(s) 464
XspI CTAG 1 cut(s) 977
ZrmI AGTACT 1 cut(s) 792
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.