Rmu_sc0004354.1_g000011

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0004354.1
OG0002618
Physical Location & Seq
Reverse (-)
42619 .. 44194
1576 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1167 bp
atgaagttgtccaacctcaaagcatatctttcaccaccacctgccccttcagttgttcctactccccctcctccagctacaactccacctccgtcaccccctatctctaccccgtcgtcacaaccgatgcctcctgctactaccccatcaccaccgccatcccctattactactccatcaccacctttgtccacaccatcatcaccgccaccccctactcctactccatcaccaccttctacaccaccttctttctatcctccaccaccgccttcatcagaggccgcgggtgaaaagagagtcaaatgcaagaataagaactaccctcattgctatggtctggagctaagttgtcctagtgggtgccctgagcaatgtgaagttgactgcgtcacatgcagtcccgtttgtaactgcaacaaaccaggtgctgtttgccaagaccctagatttattggtggtgatggtataaccttctacttccatggcaagcgagaccaagacttctgtctcgtatctgattccaacatccacatcaacgcccatttcatcggaaaaagagaccaaaatatgaagagggacttcacttgggtccaatctgtaggtatcctctttgacaatcgcaagctcttcataggtgccaaaccaacctccacttgggatgacaccgtcgaccgcctaaccctagccattgacgacgaaaccattagccttgccgacaacgaaggcgcatattggcaatcacaaggactcaagatcagaaggagcaagaacacaaatgctgtagaaattgaagctgaagggaacttcaagatcaaagcagtggtggtgccgataacggagaaagagtcggtgatacacaggtatgggattacacaggaggattgctttgctcaccttgacttgagcttcaagttttatgccctaagtggggaagttaatggcgtgctaggacagacatacgctgagaactacgttagtagggtcaagatgggtgtcgtgatgcctgttttgggtggcgatagagaattttcatcgtctagcatctttgcctcggattgtgctgttgctaggtttagcggtgagtctagtgaaaagtccaagtatgctagtactatgaattgcgctagtgggatggatggccgtggagttgtttgtaagaggtaa
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

388

Amino Acids

41.85

Weight (kDa)

6.6

Isoelectric Point (pI)

64.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 303 - 359 2.1e-27 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)
AarI CACCTGC 1 cut(s) 49
Acc36I ACCTGC 1 cut(s) 49
AccB1I GGYRCC 3 cut(s) 363, 638, 829
AccI GTMKAC 1 cut(s) 672
AccII CGCG 1 cut(s) 287
AciI CCGC 7 cut(s) 155, 206, 269, 285, 287, 676, 1080
AcoI YGGCCR 1 cut(s) 1141
AcsI RAATTY 1 cut(s) 1028
AcuI CTGAAG 2 cut(s) 33, 819
AfaI GTAC 1 cut(s) 1114
AfiI CCNNNNNNNGG 4 cut(s) 657, 930, 931, 1013
AgsI TTSAA 3 cut(s) 794, 811, 913
AjnI CCWGG 1 cut(s) 424
AluBI AGCT 5 cut(s) 77, 346, 628, 797, 909
AluI AGCT 5 cut(s) 77, 346, 628, 797, 909
Alw26I GTCTC 3 cut(s) 489, 515, 555
AlwNI CAGNNNCTG 1 cut(s) 431
AoxI GGCC 2 cut(s) 282, 1141
ApoI RAATTY 1 cut(s) 1028
AspLEI GCGC 2 cut(s) 731, 1127
AspS9I GGNCC 1 cut(s) 592
AvaII GGWCC 1 cut(s) 592
BaeGI GKGCMC 1 cut(s) 368
BaeI ACNNNNGTAYC 2 cut(s) 848, 881
BanI GGYRCC 3 cut(s) 363, 638, 829
BccI CCATC 9 cut(s) 154, 166, 184, 205, 235, 458, 985, 1129, 1133
BceAI ACGGC 1 cut(s) 1128
BciT130I CCWGG 1 cut(s) 426
BciVI GTATCC 1 cut(s) 617
BcoDI GTCTC 3 cut(s) 489, 515, 555
BfaI CTAG 9 cut(s) 357, 447, 686, 950, 1041, 1071, 1089, 1110, 1128
BfmI CTRYAG 2 cut(s) 600, 783
BfuAI ACCTGC 1 cut(s) 49
BfuI GTATCC 1 cut(s) 617
BisI GCNGC 1 cut(s) 285
BlsI GCNGC 1 cut(s) 286
BmcAI AGTACT 1 cut(s) 1114
Bme1390I CCNGG 1 cut(s) 426
Bme18I GGWCC 1 cut(s) 592
BmgT120I GGNCC 1 cut(s) 592
BmiI GGNNCC 4 cut(s) 365, 593, 640, 831
BmrFI CCNGG 1 cut(s) 426
BmsI GCATC 3 cut(s) 117, 993, 1053
BoxI GACNNNNGTC 1 cut(s) 507
BpmI CTGGAG 2 cut(s) 57, 362
Bpu10I CCTNAGC 1 cut(s) 369
BpuEI CTTGAG 2 cut(s) 737, 925
BsaI GGTCTC 2 cut(s) 489, 555
BsaJI CCNNGG 4 cut(s) 285, 484, 1053, 1144
BsaXI ACNNNNNCTCC 8 cut(s) 52, 73, 82, 103, 208, 238, 833, 863
Bsc4I CCNNNNNNNGG 4 cut(s) 657, 930, 931, 1013
Bse3DI GCAATG 2 cut(s) 328, 380
BseBI CCWGG 1 cut(s) 426
BseDI CCNNGG 4 cut(s) 285, 484, 1053, 1144
BseGI GGATG 5 cut(s) 158, 528, 667, 1140, 1144
BseLI CCNNNNNNNGG 4 cut(s) 657, 930, 931, 1013
BseMI GCAATG 2 cut(s) 328, 380
BseMII CTCAG 2 cut(s) 360, 957
BseRI GAGGAG 1 cut(s) 60
BseSI GKGCMC 1 cut(s) 368
Bsh1236I CGCG 1 cut(s) 287
Bsh1285I CGRYCG 1 cut(s) 676
BshFI GGCC 2 cut(s) 284, 1143
BshNI GGYRCC 3 cut(s) 363, 638, 829
BsiEI CGRYCG 1 cut(s) 676
BslFI GGGAC 2 cut(s) 387, 593
BslI CCNNNNNNNGG 4 cut(s) 657, 930, 931, 1013
BsmAI GTCTC 3 cut(s) 489, 515, 555
BsmFI GGGAC 2 cut(s) 387, 593
BsnI GGCC 2 cut(s) 284, 1143
Bso31I GGTCTC 2 cut(s) 489, 555
Bsp1286I GDGCHC 1 cut(s) 368
Bsp143I GATC 2 cut(s) 756, 813
Bsp19I CCATGG 1 cut(s) 484
BspACI CCGC 7 cut(s) 155, 206, 269, 285, 287, 676, 1080
BspANI GGCC 2 cut(s) 284, 1143
BspCNI CTCAG 2 cut(s) 361, 958
BspFNI CGCG 1 cut(s) 287
BspLI GGNNCC 4 cut(s) 365, 593, 640, 831
BspMI ACCTGC 1 cut(s) 49
BspQI GCTCTTC 1 cut(s) 635
BspT107I GGYRCC 3 cut(s) 363, 638, 829
BspTNI GGTCTC 2 cut(s) 489, 555
BsrDI GCAATG 2 cut(s) 328, 380
BssECI CCNNGG 4 cut(s) 285, 484, 1053, 1144
BssMI GATC 2 cut(s) 756, 813
BssT1I CCWWGG 1 cut(s) 484
Bst2UI CCWGG 1 cut(s) 426
Bst4CI ACNGT 1 cut(s) 670
Bst6I CTCTTC 2 cut(s) 569, 635
BstC8I GCNNGC 3 cut(s) 491, 626, 947
BstDEI CTNAG 4 cut(s) 347, 369, 926, 966
BstDSI CCRYGG 3 cut(s) 285, 484, 1144
BstF5I GGATG 5 cut(s) 158, 528, 667, 1140, 1144
BstFNI CGCG 1 cut(s) 287
BstHHI GCGC 2 cut(s) 731, 1127
BstKTI GATC 2 cut(s) 759, 816
BstMAI GTCTC 3 cut(s) 489, 515, 555
BstMBI GATC 2 cut(s) 756, 813
BstMCI CGRYCG 1 cut(s) 676
BstMWI GCNNNNNNNGC 1 cut(s) 396
BstNI CCWGG 1 cut(s) 426
BstNSI RCATGY 1 cut(s) 399
BstPAI GACNNNNGTC 1 cut(s) 507
BstSCI CCNGG 1 cut(s) 424
BstSFI CTRYAG 2 cut(s) 600, 783
BstSLI GKGCMC 1 cut(s) 368
BstUI CGCG 1 cut(s) 287
BsuI GTATCC 1 cut(s) 617
BsuRI GGCC 2 cut(s) 284, 1143
BtgI CCRYGG 3 cut(s) 285, 484, 1144
BtsCI GGATG 5 cut(s) 158, 528, 667, 1140, 1144
BtsI GCAGTG 1 cut(s) 828
BtsIMutI CAGTG 1 cut(s) 828
BveI ACCTGC 1 cut(s) 49
Cac8I GCNNGC 3 cut(s) 491, 626, 947
CaiI CAGNNNCTG 1 cut(s) 431
CfoI GCGC 2 cut(s) 731, 1127
Cfr13I GGNCC 1 cut(s) 592
Cfr42I CCGCGG 1 cut(s) 288
CseI GACGC 1 cut(s) 379
CsiI ACCWGGT 1 cut(s) 424
Csp6I GTAC 1 cut(s) 1113
CviAII CATG 2 cut(s) 396, 485
CviJI RGCY 9 cut(s) 77, 284, 346, 628, 689, 711, 797, 909, 1143
CviKI_1 RGCY 9 cut(s) 77, 284, 346, 628, 689, 711, 797, 909, 1143
CviQI GTAC 1 cut(s) 1113
DdeI CTNAG 4 cut(s) 347, 369, 926, 966
DpnI GATC 2 cut(s) 758, 815
DpnII GATC 2 cut(s) 756, 813
EaeI YGGCCR 1 cut(s) 1141
Eam1104I CTCTTC 2 cut(s) 569, 635
EarI CTCTTC 2 cut(s) 569, 635
Eco130I CCWWGG 1 cut(s) 484
Eco31I GGTCTC 2 cut(s) 489, 555
Eco47I GGWCC 1 cut(s) 592
Eco57I CTGAAG 2 cut(s) 33, 819
EcoRII CCWGG 1 cut(s) 424
EcoT14I CCWWGG 1 cut(s) 484
ErhI CCWWGG 1 cut(s) 484
FaeI CATG 2 cut(s) 399, 488
FalI AAGNNNNNCTT 4 cut(s) 12, 44, 566, 598
FaqI GGGAC 2 cut(s) 387, 593
FatI CATG 2 cut(s) 395, 484
FauI CCCGC 1 cut(s) 280
FblI GTMKAC 1 cut(s) 672
Fnu4HI GCNGC 1 cut(s) 285
FokI GGATG 5 cut(s) 145, 515, 674, 1147, 1151
Fsp4HI GCNGC 1 cut(s) 285
FspBI CTAG 9 cut(s) 357, 447, 686, 950, 1041, 1071, 1089, 1110, 1128
GlaI GCGC 2 cut(s) 730, 1126
GluI GCNGC 1 cut(s) 285
GsuI CTGGAG 2 cut(s) 57, 362
HaeIII GGCC 2 cut(s) 284, 1143
HgaI GACGC 1 cut(s) 379
HhaI GCGC 2 cut(s) 731, 1127
Hin1II CATG 2 cut(s) 399, 488
Hin6I GCGC 2 cut(s) 729, 1125
HinP1I GCGC 2 cut(s) 729, 1125
HincII GTYRAC 2 cut(s) 385, 673
HindII GTYRAC 2 cut(s) 385, 673
HinfI GANTC 5 cut(s) 300, 521, 750, 848, 1085
Hpy166II GTNNAC 3 cut(s) 192, 385, 673
Hpy188I TCNGA 5 cut(s) 280, 520, 554, 761, 1057
Hpy188III TCNNGA 5 cut(s) 341, 754, 811, 988, 1000
Hpy8I GTNNAC 3 cut(s) 192, 385, 673
Hpy99I CGWCG 3 cut(s) 118, 674, 701
HpyAV CCTTC 8 cut(s) 57, 246, 258, 282, 484, 719, 756, 794
HpyCH4III ACNGT 1 cut(s) 670
HpyCH4IV ACGT 1 cut(s) 975
HpyCH4V TGCA 3 cut(s) 309, 399, 417
HpyF10VI GCNNNNNNNGC 1 cut(s) 396
HpyF3I CTNAG 4 cut(s) 347, 369, 926, 966
HpySE526I ACGT 1 cut(s) 975
Hsp92II CATG 2 cut(s) 399, 488
HspAI GCGC 2 cut(s) 729, 1125
KspI CCGCGG 1 cut(s) 288
Kzo9I GATC 2 cut(s) 756, 813
LguI GCTCTTC 1 cut(s) 635
LmnI GCTCC 2 cut(s) 343, 765
LweI GCATC 3 cut(s) 117, 993, 1053
MabI ACCWGGT 1 cut(s) 424
MaeI CTAG 9 cut(s) 357, 447, 686, 950, 1041, 1071, 1089, 1110, 1128
MaeII ACGT 1 cut(s) 975
MaeIII GTNAC 4 cut(s) 93, 117, 391, 410
MalI GATC 2 cut(s) 758, 815
MboI GATC 2 cut(s) 756, 813
MboII GAAGA 2 cut(s) 586, 622
MhlI GDGCHC 1 cut(s) 368
MluCI AATT 3 cut(s) 789, 1028, 1120
MlyI GAGTC 4 cut(s) 309, 744, 857, 1094
MmeI TCCRAC 2 cut(s) 36, 549
MseI TTAA 1 cut(s) 939
MslI CAYNNNNRTG 2 cut(s) 333, 864
MspA1I CMGCKG 1 cut(s) 287
MspR9I CCNGG 1 cut(s) 426
MvaI CCWGG 1 cut(s) 426
MvnI CGCG 1 cut(s) 287
MwoI GCNNNNNNNGC 1 cut(s) 396
NcoI CCATGG 1 cut(s) 484
NdeII GATC 2 cut(s) 756, 813
NlaIII CATG 2 cut(s) 399, 488
NlaIV GGNNCC 4 cut(s) 365, 593, 640, 831
NmuCI GTSAC 3 cut(s) 93, 117, 391
NspI RCATGY 1 cut(s) 399
PaqCI CACCTGC 1 cut(s) 49
PciSI GCTCTTC 1 cut(s) 635
PcsI WCGNNNNNNNCGW 1 cut(s) 122
PfeI GAWTC 1 cut(s) 521
PflFI GACNNNGTC 2 cut(s) 389, 668
PkrI GCNGC 1 cut(s) 286
PleI GAGTC 4 cut(s) 308, 744, 856, 1093
PpsI GAGTC 4 cut(s) 308, 744, 856, 1093
PshAI GACNNNNGTC 1 cut(s) 507
Psp6I CCWGG 1 cut(s) 424
PspGI CCWGG 1 cut(s) 424
PspN4I GGNNCC 4 cut(s) 365, 593, 640, 831
PspPI GGNCC 1 cut(s) 592
PstNI CAGNNNCTG 1 cut(s) 431
PsyI GACNNNGTC 2 cut(s) 389, 668
RsaI GTAC 1 cut(s) 1114
RsaNI GTAC 1 cut(s) 1113
RseI CAYNNNNRTG 2 cut(s) 333, 864
SacII CCGCGG 1 cut(s) 288
SalI GTCGAC 1 cut(s) 671
SapI GCTCTTC 1 cut(s) 635
SaqAI TTAA 1 cut(s) 939
SatI GCNGC 1 cut(s) 285
Sau3AI GATC 2 cut(s) 756, 813
Sau96I GGNCC 1 cut(s) 592
ScaI AGTACT 1 cut(s) 1114
SchI GAGTC 4 cut(s) 309, 744, 857, 1094
ScrFI CCNGG 1 cut(s) 426
SduI GDGCHC 1 cut(s) 368
SexAI ACCWGGT 1 cut(s) 424
SfaNI GCATC 3 cut(s) 117, 993, 1053
SfcI CTRYAG 2 cut(s) 600, 783
Sfr303I CCGCGG 1 cut(s) 288
SgrBI CCGCGG 1 cut(s) 288
SinI GGWCC 1 cut(s) 592
SmiMI CAYNNNNRTG 2 cut(s) 333, 864
SmlI CTYRAG 2 cut(s) 752, 904
SmoI CTYRAG 2 cut(s) 752, 904
Sse9I AATT 3 cut(s) 789, 1028, 1120
SsiI CCGC 7 cut(s) 155, 206, 269, 285, 287, 676, 1080
SspMI CTAG 9 cut(s) 357, 447, 686, 950, 1041, 1071, 1089, 1110, 1128
StyD4I CCNGG 1 cut(s) 424
StyI CCWWGG 1 cut(s) 484
TaaI ACNGT 1 cut(s) 670
TaiI ACGT 1 cut(s) 978
TaqI TCGA 1 cut(s) 672
TasI AATT 3 cut(s) 789, 1028, 1120
TatI WGTACW 1 cut(s) 1112
TauI GCSGC 1 cut(s) 287
TfiI GAWTC 1 cut(s) 521
Tru1I TTAA 1 cut(s) 939
Tru9I TTAA 1 cut(s) 939
TscAI CASTG 1 cut(s) 828
TseFI GTSAC 3 cut(s) 93, 117, 391
Tsp45I GTSAC 3 cut(s) 93, 117, 391
TspDTI ATGAA 7 cut(s) 17, 264, 538, 587, 622, 1023, 1133
TspGWI ACGGA 2 cut(s) 81, 854
TspRI CASTG 1 cut(s) 828
Tth111I GACNNNGTC 2 cut(s) 389, 668
VpaK11BI GGWCC 1 cut(s) 592
XapI RAATTY 1 cut(s) 1028
XceI RCATGY 1 cut(s) 399
XcmI CCANNNNNNNNNTGG 1 cut(s) 654
XmiI GTMKAC 1 cut(s) 672
XspI CTAG 9 cut(s) 357, 447, 686, 950, 1041, 1071, 1089, 1110, 1128
ZrmI AGTACT 1 cut(s) 1114
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.