Rw5G036650

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0002778
Physical Location & Seq
Forward (+)
64302114 .. 64303630
1517 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G036650.1

Sequence Viewer

Length: 1080 bp
ATGGCTAAAGTTAGAGGGTCATATATTTTGTTGGCTCTCTTTGTAGTGCTCATTTCGATGGAAGCCTCTGTTGTTTTTGGTCAAGCCAATGGCAATGGAAATGCTAATGGAAACGGCAACACTGGCATTAATGCTGATGTTACAAACTACCAGGTATTGTCACCACTAGCAACCGGACAAGAGAGATGCATGTGCAAAGCTCAGGGCACCTGTTTCTACAAGACCCTTGTCTGTCCACTGGAGTGCCCTCAGAGAAAGCCTAAGCAGAACAAGAAACACAAGGGCTGCTTCGTCAACTGCGGCAGCAAGTGTGAAGTCACCTGCAAGTTTAGAAGAGCCAACTGTAATGGGTATGGTTCTCTCTGCTATGATCCTCGATTTGTTGGTGGAGATGGTGTTATGTTCTACTTCCATGGAGCCAAGGGAGTAAACTTTGCCATTGTTTCAGATGATAACCTCCAGATCAATGCACACTTCATTGGGACTCGACCACTAGGAAGGACTCGCGACTTCACATGGGTTCAAGCCCTCTCAATCATGTTCGACAATCACAACCTTGTCATTGCAGCGAAGAAAGTCTCAAAGTGGGCTGACAAAGTTGATGCTCTCATCGTAAGGTGGGATGGCGAGTCGGTTAGCATTCCTACTGATGGAGAAGCCGAATGGAGGACTAATGGTGATCAACAACGACAGGTAATAGTGGAAAGAACCGATGATACTAACAACGTAAGAGTTACAGTTGCAGGGCTACTGGAAATGGACATAAAGATTAGGCCTATTGGAGAAGAAGAAAACAAGGTTCATAAGTATCAAATACCAGCTGATGATACTTTTGCTCACTTGGAAACACAGTTCAGATTTTCGAACTTATCTGATCTTGTCGAAGGAGTTTTGGGCAAGACTTATAGGCCAGGTTATGTTAGTCCAGTCAAGGTTGGAGTTCCAATGCCGACGATGGGTGGGGAGGACAAGTACAGAACTCCTTCACTGTTCTCACCTCTCTGCAAGGTTTGCAGGTTCCAAACTACTAGTCAATCTTCAGGGTTTGATATCACAAGTGGAGGAGTGGCATCATACTGA
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

359

Amino Acids

39.56

Weight (kDa)

8.61

Isoelectric Point (pI)

21.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 284 - 340 8.8e-29 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)
AarI CACCTGC 1 cut(s) 329
Acc36I ACCTGC 2 cut(s) 329, 1005
AccB1I GGYRCC 1 cut(s) 206
AccII CGCG 1 cut(s) 507
AciI CCGC 1 cut(s) 300
AclWI GGATC 1 cut(s) 365
AcuI CTGAAG 1 cut(s) 1023
AfaI GTAC 1 cut(s) 974
AfiI CCNNNNNNNGG 3 cut(s) 650, 666, 956
AgsI TTSAA 1 cut(s) 524
AhlI ACTAGT 1 cut(s) 1028
AjnI CCWGG 2 cut(s) 150, 910
AleI CACNNNNGTG 1 cut(s) 241
AloI GAACNNNNNNTCC 2 cut(s) 836, 868
AluBI AGCT 2 cut(s) 200, 821
AluI AGCT 2 cut(s) 200, 821
Alw21I GWGCWC 1 cut(s) 51
Alw26I GTCTC 1 cut(s) 583
AlwI GGATC 1 cut(s) 365
AoxI GGCC 2 cut(s) 773, 908
ApeKI GCWGC 3 cut(s) 285, 303, 566
ArsI GACNNNNNNTTYG 2 cut(s) 1015, 1047
AseI ATTAAT 1 cut(s) 129
Asp700I GAANNNNTTC 1 cut(s) 982
AsuHPI GGTGA 4 cut(s) 153, 310, 689, 987
AsuII TTCGAA 1 cut(s) 863
BaeGI GKGCMC 2 cut(s) 209, 248
BanI GGYRCC 1 cut(s) 206
Bbv12I GWGCWC 1 cut(s) 51
BbvI GCAGC 3 cut(s) 272, 315, 578
BccI CCATC 5 cut(s) 52, 386, 617, 644, 949
BceAI ACGGC 1 cut(s) 130
BciT130I CCWGG 2 cut(s) 152, 912
BclI TGATCA 1 cut(s) 679
BcoDI GTCTC 1 cut(s) 583
BcuI ACTAGT 1 cut(s) 1028
BfaI CTAG 3 cut(s) 167, 494, 1029
BfuAI ACCTGC 2 cut(s) 329, 1005
BisI GCNGC 4 cut(s) 286, 301, 304, 567
BlsI GCNGC 4 cut(s) 287, 302, 305, 568
Bme1390I CCNGG 2 cut(s) 152, 912
BmiI GGNNCC 3 cut(s) 208, 418, 1019
BmrFI CCNGG 2 cut(s) 152, 912
BmsI GCATC 2 cut(s) 176, 592
BoxI GACNNNNGTC 1 cut(s) 227
BpmI CTGGAG 2 cut(s) 260, 443
Bpu10I CCTNAGC 2 cut(s) 201, 261
Bpu14I TTCGAA 1 cut(s) 863
BsaJI CCNNGG 2 cut(s) 412, 420
BsaWI WCCGGW 1 cut(s) 173
BsaXI ACNNNNNCTCC 4 cut(s) 381, 411, 956, 986
Bsc4I CCNNNNNNNGG 3 cut(s) 650, 666, 956
Bse1I ACTGG 4 cut(s) 127, 243, 756, 926
Bse3DI GCAATG 2 cut(s) 100, 561
BseBI CCWGG 2 cut(s) 152, 912
BseDI CCNNGG 2 cut(s) 412, 420
BseGI GGATG 1 cut(s) 628
BseLI CCNNNNNNNGG 3 cut(s) 650, 666, 956
BseMI GCAATG 2 cut(s) 100, 561
BseMII CTCAG 2 cut(s) 215, 263
BseNI ACTGG 4 cut(s) 127, 243, 756, 926
BseRI GAGGAG 1 cut(s) 1077
BseSI GKGCMC 2 cut(s) 209, 248
BseXI GCAGC 3 cut(s) 272, 315, 578
Bsh1236I CGCG 1 cut(s) 507
BshFI GGCC 2 cut(s) 775, 910
BshNI GGYRCC 1 cut(s) 206
BsiHKAI GWGCWC 1 cut(s) 51
BsiSI CCGG 1 cut(s) 174
BslFI GGGAC 1 cut(s) 496
BslI CCNNNNNNNGG 3 cut(s) 650, 666, 956
BsmAI GTCTC 1 cut(s) 583
BsmFI GGGAC 1 cut(s) 496
BsmI GAATGC 1 cut(s) 639
BsnI GGCC 2 cut(s) 775, 910
Bsp119I TTCGAA 1 cut(s) 863
Bsp1286I GDGCHC 3 cut(s) 51, 209, 248
Bsp143I GATC 4 cut(s) 370, 462, 679, 874
Bsp19I CCATGG 1 cut(s) 412
Bsp68I TCGCGA 1 cut(s) 507
BspACI CCGC 1 cut(s) 300
BspANI GGCC 2 cut(s) 775, 910
BspCNI CTCAG 2 cut(s) 214, 262
BspFNI CGCG 1 cut(s) 507
BspLI GGNNCC 3 cut(s) 208, 418, 1019
BspMI ACCTGC 2 cut(s) 329, 1005
BspPI GGATC 1 cut(s) 365
BspQI GCTCTTC 1 cut(s) 328
BspT104I TTCGAA 1 cut(s) 863
BspT107I GGYRCC 1 cut(s) 206
BsrDI GCAATG 2 cut(s) 100, 561
BsrI ACTGG 4 cut(s) 127, 243, 756, 926
BssECI CCNNGG 2 cut(s) 412, 420
BssMI GATC 4 cut(s) 370, 462, 679, 874
BssT1I CCWWGG 2 cut(s) 412, 420
Bst2UI CCWGG 2 cut(s) 152, 912
Bst4CI ACNGT 4 cut(s) 344, 739, 852, 990
Bst6I CTCTTC 1 cut(s) 328
BstAPI GCANNNNNTGC 1 cut(s) 1011
BstBI TTCGAA 1 cut(s) 863
BstDEI CTNAG 3 cut(s) 201, 249, 261
BstDSI CCRYGG 1 cut(s) 412
BstF5I GGATG 1 cut(s) 628
BstFNI CGCG 1 cut(s) 507
BstKTI GATC 4 cut(s) 373, 465, 682, 877
BstMAI GTCTC 1 cut(s) 583
BstMBI GATC 4 cut(s) 370, 462, 679, 874
BstMWI GCNNNNNNNGC 2 cut(s) 123, 1011
BstNI CCWGG 2 cut(s) 152, 912
BstNSI RCATGY 1 cut(s) 193
BstPAI GACNNNNGTC 1 cut(s) 227
BstSCI CCNGG 2 cut(s) 150, 910
BstSLI GKGCMC 2 cut(s) 209, 248
BstUI CGCG 1 cut(s) 507
BstV1I GCAGC 3 cut(s) 272, 315, 578
BsuRI GGCC 2 cut(s) 775, 910
BtgI CCRYGG 1 cut(s) 412
BtsCI GGATG 1 cut(s) 628
BtsIMutI CAGTG 3 cut(s) 120, 236, 986
BtuMI TCGCGA 1 cut(s) 507
BveI ACCTGC 2 cut(s) 329, 1005
CsiI ACCWGGT 1 cut(s) 150
Csp6I GTAC 1 cut(s) 973
CviAII CATG 4 cut(s) 190, 413, 516, 538
CviQI GTAC 1 cut(s) 973
DdeI CTNAG 3 cut(s) 201, 249, 261
DpnI GATC 4 cut(s) 372, 464, 681, 876
DpnII GATC 4 cut(s) 370, 462, 679, 874
Eam1104I CTCTTC 1 cut(s) 328
EarI CTCTTC 1 cut(s) 328
Eco130I CCWWGG 2 cut(s) 412, 420
Eco147I AGGCCT 1 cut(s) 775
Eco32I GATATC 1 cut(s) 1051
Eco57I CTGAAG 1 cut(s) 1023
EcoRII CCWGG 2 cut(s) 150, 910
EcoRV GATATC 1 cut(s) 1051
EcoT14I CCWWGG 2 cut(s) 412, 420
EcoT22I ATGCAT 1 cut(s) 191
ErhI CCWWGG 2 cut(s) 412, 420
FaeI CATG 4 cut(s) 193, 416, 519, 541
FalI AAGNNNNNCTT 2 cut(s) 272, 304
FaqI GGGAC 1 cut(s) 496
FatI CATG 4 cut(s) 189, 412, 515, 537
FbaI TGATCA 1 cut(s) 679
Fnu4HI GCNGC 4 cut(s) 286, 301, 304, 567
FokI GGATG 1 cut(s) 635
Fsp4HI GCNGC 4 cut(s) 286, 301, 304, 567
FspBI CTAG 3 cut(s) 167, 494, 1029
GluI GCNGC 4 cut(s) 286, 301, 304, 567
GsuI CTGGAG 2 cut(s) 260, 443
HaeIII GGCC 2 cut(s) 775, 910
HapII CCGG 1 cut(s) 174
Hin1II CATG 4 cut(s) 193, 416, 519, 541
HincII GTYRAC 1 cut(s) 295
HindII GTYRAC 1 cut(s) 295
HinfI GANTC 3 cut(s) 484, 502, 629
HpaII CCGG 1 cut(s) 174
HphI GGTGA 4 cut(s) 153, 310, 689, 987
Hpy166II GTNNAC 3 cut(s) 236, 295, 430
Hpy188I TCNGA 4 cut(s) 252, 448, 857, 874
Hpy188III TCNNGA 2 cut(s) 460, 506
Hpy8I GTNNAC 3 cut(s) 236, 295, 430
Hpy99I CGWCG 1 cut(s) 955
HpyAV CCTTC 3 cut(s) 492, 878, 993
HpyCH4III ACNGT 4 cut(s) 344, 739, 852, 990
HpyCH4IV ACGT 1 cut(s) 726
HpyCH4V TGCA 8 cut(s) 189, 195, 324, 470, 566, 743, 1005, 1014
HpyF10VI GCNNNNNNNGC 2 cut(s) 123, 1011
HpyF3I CTNAG 3 cut(s) 201, 249, 261
HpySE526I ACGT 1 cut(s) 726
Hsp92II CATG 4 cut(s) 193, 416, 519, 541
Ksp22I TGATCA 1 cut(s) 679
Kzo9I GATC 4 cut(s) 370, 462, 679, 874
LguI GCTCTTC 1 cut(s) 328
LmnI GCTCC 1 cut(s) 416
Lsp1109I GCAGC 3 cut(s) 272, 315, 578
LweI GCATC 2 cut(s) 176, 592
MabI ACCWGGT 1 cut(s) 150
MaeI CTAG 3 cut(s) 167, 494, 1029
MaeII ACGT 1 cut(s) 726
MaeIII GTNAC 4 cut(s) 139, 159, 316, 733
MalI GATC 4 cut(s) 372, 464, 681, 876
MboI GATC 4 cut(s) 370, 462, 679, 874
MboII GAAGA 5 cut(s) 345, 583, 797, 800, 1029
MhlI GDGCHC 3 cut(s) 51, 209, 248
MlyI GAGTC 3 cut(s) 478, 496, 638
MmeI TCCRAC 1 cut(s) 916
Mph1103I ATGCAT 1 cut(s) 191
MroXI GAANNNNTTC 1 cut(s) 982
MseI TTAA 1 cut(s) 129
MslI CAYNNNNRTG 2 cut(s) 56, 241
MspA1I CMGCKG 1 cut(s) 821
MspI CCGG 1 cut(s) 174
MspR9I CCNGG 2 cut(s) 152, 912
Mva1269I GAATGC 1 cut(s) 639
MvaI CCWGG 2 cut(s) 152, 912
MvnI CGCG 1 cut(s) 507
MwoI GCNNNNNNNGC 2 cut(s) 123, 1011
NcoI CCATGG 1 cut(s) 412
NdeII GATC 4 cut(s) 370, 462, 679, 874
NlaIII CATG 4 cut(s) 193, 416, 519, 541
NlaIV GGNNCC 3 cut(s) 208, 418, 1019
NmuCI GTSAC 2 cut(s) 159, 316
NruI TCGCGA 1 cut(s) 507
NsiI ATGCAT 1 cut(s) 191
NspI RCATGY 1 cut(s) 193
NspV TTCGAA 1 cut(s) 863
OliI CACNNNNGTG 1 cut(s) 241
PaqCI CACCTGC 1 cut(s) 329
PceI AGGCCT 1 cut(s) 775
PciSI GCTCTTC 1 cut(s) 328
PctI GAATGC 1 cut(s) 639
PdmI GAANNNNTTC 1 cut(s) 982
PkrI GCNGC 4 cut(s) 287, 302, 305, 568
PleI GAGTC 3 cut(s) 478, 496, 637
PpsI GAGTC 3 cut(s) 478, 496, 637
PshAI GACNNNNGTC 1 cut(s) 227
PshBI ATTAAT 1 cut(s) 129
Psp6I CCWGG 2 cut(s) 150, 910
PspGI CCWGG 2 cut(s) 150, 910
PspN4I GGNNCC 3 cut(s) 208, 418, 1019
PsrI GAACNNNNNNTAC 2 cut(s) 700, 732
PvuII CAGCTG 1 cut(s) 821
RruI TCGCGA 1 cut(s) 507
RsaI GTAC 1 cut(s) 974
RsaNI GTAC 1 cut(s) 973
RseI CAYNNNNRTG 2 cut(s) 56, 241
SapI GCTCTTC 1 cut(s) 328
SaqAI TTAA 1 cut(s) 129
SatI GCNGC 4 cut(s) 286, 301, 304, 567
Sau3AI GATC 4 cut(s) 370, 462, 679, 874
SchI GAGTC 3 cut(s) 478, 496, 638
ScrFI CCNGG 2 cut(s) 152, 912
SduI GDGCHC 3 cut(s) 51, 209, 248
SexAI ACCWGGT 1 cut(s) 150
SfaNI GCATC 2 cut(s) 176, 592
SfuI TTCGAA 1 cut(s) 863
SmiMI CAYNNNNRTG 2 cut(s) 56, 241
SpeI ACTAGT 1 cut(s) 1028
SseBI AGGCCT 1 cut(s) 775
SsiI CCGC 1 cut(s) 300
SspMI CTAG 3 cut(s) 167, 494, 1029
StuI AGGCCT 1 cut(s) 775
StyD4I CCNGG 2 cut(s) 150, 910
StyI CCWWGG 2 cut(s) 412, 420
TaaI ACNGT 4 cut(s) 344, 739, 852, 990
TaiI ACGT 1 cut(s) 729
TaqI TCGA 6 cut(s) 56, 376, 487, 543, 863, 882
TatI WGTACW 1 cut(s) 972
TauI GCSGC 1 cut(s) 303
Tru1I TTAA 1 cut(s) 129
Tru9I TTAA 1 cut(s) 129
TscAI CASTG 3 cut(s) 127, 243, 993
TseFI GTSAC 2 cut(s) 159, 316
TseI GCWGC 3 cut(s) 285, 303, 566
Tsp45I GTSAC 2 cut(s) 159, 316
TspDTI ATGAA 2 cut(s) 466, 791
TspRI CASTG 3 cut(s) 127, 243, 993
VspI ATTAAT 1 cut(s) 129
XceI RCATGY 1 cut(s) 193
XmnI GAANNNNTTC 1 cut(s) 982
XspI CTAG 3 cut(s) 167, 494, 1029
Zsp2I ATGCAT 1 cut(s) 191
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.