Rh5AG359700

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0002618
Physical Location & Seq
Forward (+)
60541579 .. 60544588
3010 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG359700.1

Sequence Viewer

Length: 1044 bp
ATGGAAAGAGACCAATTTCCCTCAACACAATGGTTTCACTTCCAATTTAGTGACCCCATCAGAGGACAACAGCATAGCATGGAGCACGATAGAGAACTAGAGATACTAGAGACCAGCTCGAGGGAGAGGGTCGAGATTGAGCAGGTCTCAAATCTTGATTTTGAAGTTATAAAAAAGGCGATTGCATCTGGCTTCATTCATCTGTGGCAAGCTCTAACCAAGCAGAAATATGTGTGTGGGTGCCCTGAGCAATGTGAAGTTGACTGCGTCACATGCAGTCCCGTTTGTAACTGCAACAAACCAGGTGCTGTTTGCCAAGACCCTAGATTTATTGGTGGTGATGGTATAACCTTCTACTTCCATGGCAAGCGAGACCAAGACTTCTGTCTTGTATCTGATTCCAACATCCACATCAACGCCCATTTCATCGGAAAAAGAGACCAAAATATGAAGAGGGACTTCACTTGGGTCCAATCTGTAGGTATCCTCTTTGACAATCGCAAGCTCTTCATAGGTGCCAAACCAACCTCCACTTGGGATGACACCGTCGACCGCCTAACCCTAGCCATTGACGACGAAACCATTAGCCTTGCCGACAACGAAGGCGCATATTGGCAATCACAAGGACTCAAGATCACAAGGAGCAAGAACACAAATGCTGTAGAAATTGAAGCTGAAGGGAACTTCAAGATCAAAGCAGTGGTGGTGCCGATAACGGAGAAGGAGTCGGTGATACACAGGTATGGGATTACACAGGAGGATTGCTTTGCTCACCTTGACTTGAGCTTCAAGTTTTATGCCCTAAGTGGGGAAGTTAATGGCGTGCTAGGACAGACATACGGTGAGAACTATGTTAGTAGGGTCAAGATGGGTGTCGTGATGCCTGTTTTGGGTGGCGATAGAGAATTTTCATCGTCTAGCATCTTTGCCTCGGATTGTGCTGTTGCTAGGTTTAGCGGTGAGTCTAGTGGAAAGTCCAAGTATGCTAGTACTATGAATTGCGCTAGTGGGATGGATGGCCGTGGAGTTGTTTGTAAGAGGTAA
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

347

Amino Acids

38.91

Weight (kDa)

5.55

Isoelectric Point (pI)

34.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 262 - 318 2.5e-27 Root cap
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 170
Acc36I ACCTGC 1 cut(s) 133
AccB1I GGYRCC 3 cut(s) 240, 515, 706
AccI GTMKAC 1 cut(s) 549
AciI CCGC 2 cut(s) 553, 957
AcoI YGGCCR 1 cut(s) 1018
AcsI RAATTY 1 cut(s) 905
AcuI CTGAAG 1 cut(s) 696
AfaI GTAC 1 cut(s) 991
AfiI CCNNNNNNNGG 6 cut(s) 62, 120, 534, 807, 808, 890
AgsI TTSAA 4 cut(s) 164, 671, 688, 790
AjnI CCWGG 1 cut(s) 301
AluBI AGCT 5 cut(s) 117, 212, 505, 674, 786
AluI AGCT 5 cut(s) 117, 212, 505, 674, 786
Alw21I GWGCWC 1 cut(s) 87
Alw26I GTCTC 5 cut(s) 3, 104, 151, 366, 432
AlwNI CAGNNNCTG 1 cut(s) 308
Ama87I CYCGRG 1 cut(s) 118
AoxI GGCC 1 cut(s) 1018
ApoI RAATTY 1 cut(s) 905
AspLEI GCGC 2 cut(s) 608, 1004
AspS9I GGNCC 1 cut(s) 469
AsuHPI GGTGA 5 cut(s) 350, 742, 764, 854, 971
AvaI CYCGRG 1 cut(s) 118
AvaII GGWCC 1 cut(s) 469
BaeGI GKGCMC 1 cut(s) 245
BaeI ACNNNNGTAYC 2 cut(s) 725, 758
BanI GGYRCC 3 cut(s) 240, 515, 706
Bbv12I GWGCWC 1 cut(s) 87
BccI CCATC 5 cut(s) 65, 335, 862, 1006, 1010
BceAI ACGGC 1 cut(s) 1005
BciT130I CCWGG 1 cut(s) 303
BciVI GTATCC 1 cut(s) 494
BcoDI GTCTC 5 cut(s) 3, 104, 151, 366, 432
BfmI CTRYAG 2 cut(s) 477, 660
BfuAI ACCTGC 1 cut(s) 133
BfuI GTATCC 1 cut(s) 494
BmcAI AGTACT 1 cut(s) 991
Bme1390I CCNGG 1 cut(s) 303
Bme18I GGWCC 1 cut(s) 469
BmeT110I CYCGRG 1 cut(s) 118
BmgT120I GGNCC 1 cut(s) 469
BmiI GGNNCC 4 cut(s) 242, 470, 517, 708
BmrFI CCNGG 1 cut(s) 303
BmsI GCATC 3 cut(s) 194, 870, 930
BoxI GACNNNNGTC 1 cut(s) 384
BplI GAGNNNNNCTC 4 cut(s) 101, 133, 131, 163
Bpu10I CCTNAGC 1 cut(s) 246
BpuEI CTTGAG 2 cut(s) 614, 802
BsaI GGTCTC 5 cut(s) 3, 104, 151, 366, 432
BsaJI CCNNGG 3 cut(s) 361, 930, 1021
BsaXI ACNNNNNCTCC 2 cut(s) 710, 740
Bsc4I CCNNNNNNNGG 6 cut(s) 62, 120, 534, 807, 808, 890
Bse3DI GCAATG 1 cut(s) 257
BseBI CCWGG 1 cut(s) 303
BseDI CCNNGG 3 cut(s) 361, 930, 1021
BseGI GGATG 4 cut(s) 405, 544, 1017, 1021
BseLI CCNNNNNNNGG 6 cut(s) 62, 120, 534, 807, 808, 890
BseMI GCAATG 1 cut(s) 257
BseMII CTCAG 1 cut(s) 237
BseSI GKGCMC 1 cut(s) 245
Bsh1285I CGRYCG 1 cut(s) 553
BshFI GGCC 1 cut(s) 1020
BshNI GGYRCC 3 cut(s) 240, 515, 706
BsiEI CGRYCG 1 cut(s) 553
BsiHKAI GWGCWC 1 cut(s) 87
BsiHKCI CYCGRG 1 cut(s) 118
BslFI GGGAC 2 cut(s) 264, 470
BslI CCNNNNNNNGG 6 cut(s) 62, 120, 534, 807, 808, 890
BsmAI GTCTC 5 cut(s) 3, 104, 151, 366, 432
BsmFI GGGAC 2 cut(s) 264, 470
BsnI GGCC 1 cut(s) 1020
Bso31I GGTCTC 5 cut(s) 3, 104, 151, 366, 432
BsoBI CYCGRG 1 cut(s) 118
Bsp1286I GDGCHC 2 cut(s) 87, 245
Bsp143I GATC 2 cut(s) 633, 690
Bsp19I CCATGG 1 cut(s) 361
BspACI CCGC 2 cut(s) 553, 957
BspANI GGCC 1 cut(s) 1020
BspCNI CTCAG 1 cut(s) 238
BspLI GGNNCC 4 cut(s) 242, 470, 517, 708
BspMI ACCTGC 1 cut(s) 133
BspQI GCTCTTC 1 cut(s) 512
BspT107I GGYRCC 3 cut(s) 240, 515, 706
BspTNI GGTCTC 5 cut(s) 3, 104, 151, 366, 432
BsrDI GCAATG 1 cut(s) 257
BssECI CCNNGG 3 cut(s) 361, 930, 1021
BssMI GATC 2 cut(s) 633, 690
BssT1I CCWWGG 1 cut(s) 361
Bst2UI CCWGG 1 cut(s) 303
Bst4CI ACNGT 2 cut(s) 547, 842
Bst6I CTCTTC 2 cut(s) 446, 512
BstC8I GCNNGC 4 cut(s) 210, 368, 503, 824
BstDEI CTNAG 2 cut(s) 246, 803
BstDSI CCRYGG 2 cut(s) 361, 1021
BstF5I GGATG 4 cut(s) 405, 544, 1017, 1021
BstHHI GCGC 2 cut(s) 608, 1004
BstKTI GATC 2 cut(s) 636, 693
BstMAI GTCTC 5 cut(s) 3, 104, 151, 366, 432
BstMBI GATC 2 cut(s) 633, 690
BstMCI CGRYCG 1 cut(s) 553
BstMWI GCNNNNNNNGC 1 cut(s) 273
BstNI CCWGG 1 cut(s) 303
BstNSI RCATGY 1 cut(s) 276
BstPAI GACNNNNGTC 1 cut(s) 384
BstSCI CCNGG 1 cut(s) 301
BstSFI CTRYAG 2 cut(s) 477, 660
BstSLI GKGCMC 1 cut(s) 245
BsuI GTATCC 1 cut(s) 494
BsuRI GGCC 1 cut(s) 1020
BtgI CCRYGG 2 cut(s) 361, 1021
BtsCI GGATG 4 cut(s) 405, 544, 1017, 1021
BtsI GCAGTG 1 cut(s) 705
BtsIMutI CAGTG 1 cut(s) 705
BveI ACCTGC 1 cut(s) 133
Cac8I GCNNGC 4 cut(s) 210, 368, 503, 824
CaiI CAGNNNCTG 1 cut(s) 308
CfoI GCGC 2 cut(s) 608, 1004
Cfr13I GGNCC 1 cut(s) 469
CseI GACGC 1 cut(s) 256
CsiI ACCWGGT 1 cut(s) 301
Csp6I GTAC 1 cut(s) 990
CviAII CATG 3 cut(s) 79, 273, 362
CviJI RGCY 9 cut(s) 117, 192, 212, 505, 566, 588, 674, 786, 1020
CviKI_1 RGCY 9 cut(s) 117, 192, 212, 505, 566, 588, 674, 786, 1020
CviQI GTAC 1 cut(s) 990
DdeI CTNAG 2 cut(s) 246, 803
DpnI GATC 2 cut(s) 635, 692
DpnII GATC 2 cut(s) 633, 690
EaeI YGGCCR 1 cut(s) 1018
Eam1104I CTCTTC 2 cut(s) 446, 512
EarI CTCTTC 2 cut(s) 446, 512
Eco130I CCWWGG 1 cut(s) 361
Eco31I GGTCTC 5 cut(s) 3, 104, 151, 366, 432
Eco47I GGWCC 1 cut(s) 469
Eco57I CTGAAG 1 cut(s) 696
Eco88I CYCGRG 1 cut(s) 118
EcoRII CCWGG 1 cut(s) 301
EcoT14I CCWWGG 1 cut(s) 361
ErhI CCWWGG 1 cut(s) 361
FaeI CATG 3 cut(s) 82, 276, 365
FalI AAGNNNNNCTT 2 cut(s) 443, 475
FaqI GGGAC 2 cut(s) 264, 470
FatI CATG 3 cut(s) 78, 272, 361
FblI GTMKAC 1 cut(s) 549
FokI GGATG 4 cut(s) 392, 551, 1024, 1028
GlaI GCGC 2 cut(s) 607, 1003
HaeIII GGCC 1 cut(s) 1020
HgaI GACGC 1 cut(s) 256
HhaI GCGC 2 cut(s) 608, 1004
Hin1II CATG 3 cut(s) 82, 276, 365
Hin6I GCGC 2 cut(s) 606, 1002
HinP1I GCGC 2 cut(s) 606, 1002
HincII GTYRAC 2 cut(s) 262, 550
HindII GTYRAC 2 cut(s) 262, 550
HinfI GANTC 4 cut(s) 398, 627, 725, 962
HphI GGTGA 5 cut(s) 350, 742, 764, 854, 971
Hpy166II GTNNAC 2 cut(s) 262, 550
Hpy188I TCNGA 4 cut(s) 62, 397, 431, 934
Hpy188III TCNNGA 6 cut(s) 133, 155, 631, 688, 865, 877
Hpy8I GTNNAC 2 cut(s) 262, 550
Hpy99I CGWCG 2 cut(s) 551, 578
HpyAV CCTTC 4 cut(s) 361, 596, 671, 715
HpyCH4III ACNGT 2 cut(s) 547, 842
HpyCH4V TGCA 3 cut(s) 185, 276, 294
HpyF10VI GCNNNNNNNGC 1 cut(s) 273
HpyF3I CTNAG 2 cut(s) 246, 803
Hsp92II CATG 3 cut(s) 82, 276, 365
HspAI GCGC 2 cut(s) 606, 1002
Kzo9I GATC 2 cut(s) 633, 690
LguI GCTCTTC 1 cut(s) 512
LmnI GCTCC 2 cut(s) 82, 642
LpnPI CCDG 9 cut(s) 127, 128, 174, 258, 288, 315, 724, 740, 897
LweI GCATC 3 cut(s) 194, 870, 930
MabI ACCWGGT 1 cut(s) 301
MaeIII GTNAC 3 cut(s) 50, 268, 287
MalI GATC 2 cut(s) 635, 692
MboI GATC 2 cut(s) 633, 690
MboII GAAGA 2 cut(s) 463, 499
MhlI GDGCHC 2 cut(s) 87, 245
MluCI AATT 5 cut(s) 14, 44, 666, 905, 997
MlyI GAGTC 3 cut(s) 621, 734, 971
MmeI TCCRAC 1 cut(s) 426
MseI TTAA 1 cut(s) 816
MslI CAYNNNNRTG 1 cut(s) 741
MspR9I CCNGG 1 cut(s) 303
MvaI CCWGG 1 cut(s) 303
MwoI GCNNNNNNNGC 1 cut(s) 273
NcoI CCATGG 1 cut(s) 361
NdeII GATC 2 cut(s) 633, 690
NlaIII CATG 3 cut(s) 82, 276, 365
NlaIV GGNNCC 4 cut(s) 242, 470, 517, 708
NmuCI GTSAC 2 cut(s) 50, 268
NspI RCATGY 1 cut(s) 276
PaeR7I CTCGAG 1 cut(s) 118
PciSI GCTCTTC 1 cut(s) 512
PfeI GAWTC 1 cut(s) 398
PflFI GACNNNGTC 2 cut(s) 266, 545
PleI GAGTC 3 cut(s) 621, 733, 970
PpsI GAGTC 3 cut(s) 621, 733, 970
PshAI GACNNNNGTC 1 cut(s) 384
PsiI TTATAA 1 cut(s) 170
Psp6I CCWGG 1 cut(s) 301
PspGI CCWGG 1 cut(s) 301
PspN4I GGNNCC 4 cut(s) 242, 470, 517, 708
PspPI GGNCC 1 cut(s) 469
PspXI VCTCGAGB 1 cut(s) 118
PsrI GAACNNNNNNTAC 2 cut(s) 87, 119
PstNI CAGNNNCTG 1 cut(s) 308
PsyI GACNNNGTC 2 cut(s) 266, 545
RsaI GTAC 1 cut(s) 991
RsaNI GTAC 1 cut(s) 990
RseI CAYNNNNRTG 1 cut(s) 741
SalI GTCGAC 1 cut(s) 548
SapI GCTCTTC 1 cut(s) 512
SaqAI TTAA 1 cut(s) 816
Sau3AI GATC 2 cut(s) 633, 690
Sau96I GGNCC 1 cut(s) 469
ScaI AGTACT 1 cut(s) 991
SchI GAGTC 3 cut(s) 621, 734, 971
ScrFI CCNGG 1 cut(s) 303
SduI GDGCHC 2 cut(s) 87, 245
SexAI ACCWGGT 1 cut(s) 301
SfaNI GCATC 3 cut(s) 194, 870, 930
SfcI CTRYAG 2 cut(s) 477, 660
Sfr274I CTCGAG 1 cut(s) 118
SinI GGWCC 1 cut(s) 469
SlaI CTCGAG 1 cut(s) 118
SmiMI CAYNNNNRTG 1 cut(s) 741
SmlI CTYRAG 3 cut(s) 118, 629, 781
SmoI CTYRAG 3 cut(s) 118, 629, 781
Sse9I AATT 5 cut(s) 14, 44, 666, 905, 997
SsiI CCGC 2 cut(s) 553, 957
StyD4I CCNGG 1 cut(s) 301
StyI CCWWGG 1 cut(s) 361
TaaI ACNGT 2 cut(s) 547, 842
TaqI TCGA 3 cut(s) 119, 132, 549
TasI AATT 5 cut(s) 14, 44, 666, 905, 997
TatI WGTACW 1 cut(s) 989
TfiI GAWTC 1 cut(s) 398
Tru1I TTAA 1 cut(s) 816
Tru9I TTAA 1 cut(s) 816
TscAI CASTG 1 cut(s) 705
TseFI GTSAC 2 cut(s) 50, 268
Tsp45I GTSAC 2 cut(s) 50, 268
TspDTI ATGAA 7 cut(s) 184, 188, 415, 464, 499, 900, 1010
TspGWI ACGGA 1 cut(s) 731
TspRI CASTG 1 cut(s) 705
Tth111I GACNNNGTC 2 cut(s) 266, 545
VpaK11BI GGWCC 1 cut(s) 469
XapI RAATTY 1 cut(s) 905
XceI RCATGY 1 cut(s) 276
XcmI CCANNNNNNNNNTGG 1 cut(s) 531
XhoI CTCGAG 1 cut(s) 118
XmiI GTMKAC 1 cut(s) 549
ZrmI AGTACT 1 cut(s) 991
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.