Rh5BG370700

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0002618
Physical Location & Seq
Forward (+)
58292098 .. 58293977
1880 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG370700.1

Sequence Viewer

Length: 1470 bp
ATGGCGCGCCTGGGTGCGGTTTTGGTCATTCTGTTGATTGCTTTTGTTGTAGCTGAGGGATCTCCTAAACCAAAGGCTAAGAAAGTCAAGTGCCAAGACAAGAAGTTCTACAAGTGTTACCATAAAGATCTCTACTGCCCAGCAGCATGCCTCCGCACTTGTGTTGTGGATTGTAAGAAATGCAAAGCTGTTTGTAAGGCGCCGCCTCCACCACCACCACCTCCTCCACCGCCGCCACCCAGACGAAAGTGGCGCCACCCACCCCCTCCTCCCCCAAAGAGTTATCACCACTCACCGCCTCCTCCTCCCAAGACTTATCCTTCACCACCACCTGCCCCTTCAGTTGTTCCTACTCCCCCTCCTCCAGCTACAACTCCACCTCCGTCACCCCCTATCTCTACCCCGTCGTCACAACCGATGCCTCCTGCTACTACCCCATCACCACCGCCATCCCCTATTACTACTCCATCACCACCTTTGTCCACACCATCATCACCGCCACCCCCTACTCCTACTCCATCACCACCGCTGCCCCCTACTTCTACACCACCTTCTTTCTATCCTCCACCACCGCCTTCATCAGAGGCCGCGGGTGAAAAGAGAGTCAAATGCAAGAATAAGAACTACCCTCATTGCTATGGTCTGGAGCTAAGTTGTCCTAGTGGGTGCCCTGAGCAATGTGAAGTTGACTGCGTCACATGCAGTCCCGTTTGTAACTGCAACAAACCAGGTGCTGTTTGCCAAGACCCTAGATTTATTGGTGGTGATGGTATAACCTTCTACTTCCATGGCAAGCGAGACCAAGACTTCTGTCTCGTATCTGATTCCAACATCCACATCAACGCCCATTTCATCGGAAAAAGAGACCAAAATATGAAGAGGGACTTCACTTGGGTCCAATCTGTAGGTATCCTCTTTGACAATCGCAAGCTCTTCATAGGTGCCAAACCAACCTCCACTTGGGATGACACCGTCGACCGCCTAACCCTAGCCATTGACGACGAAACCATTAGCCTTGCCGACAACGAAGGCGCATATTGGCAATCACAAGGACTCAAGATCACAAGGAGCAAGAACACAAATGCTGTAGAAATTGAAGCTGAAGGGAACTTCAAGATCAAAGCAGTGGTGGTGCCGATAACGGAGAAAGAGTCGGTGATACACACGTATGGGATTACACAGGAGGATTGCTTTGCTCACCTTGACTTGAGCTTCAAGTTTTATGCCCTAAGTGGGGAAGTTAATGGCGTGCTAGGACAGACATACGGTGAGAACTATGTTAGTAGGGTCAAGATGGGTGTCGCGATGCCTGTTTTGGGTGGCGATAGAGAATTTTCATCGTCTAGCATCTTTGCCTCGGATTGTGCTGTCGCTAGGTTTAGCGGTGAGTCTAGTGAAAAGTCCAAGTATGCTAGTACTATGAATTGCGCTAGTGGGATGGATGGCCGTGGAGTTGTTTGTAAGAGGTAA
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

489

Amino Acids

52.81

Weight (kDa)

8.75

Isoelectric Point (pI)

67.88

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 404 - 460 1.1e-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) 340
Acc36I ACCTGC 1 cut(s) 340
AccB1I GGYRCC 5 cut(s) 199, 252, 666, 941, 1132
AccI GTMKAC 1 cut(s) 975
AccII CGCG 3 cut(s) 7, 590, 1304
AclWI GGATC 1 cut(s) 67
AcoI YGGCCR 1 cut(s) 1444
AcsI RAATTY 1 cut(s) 1331
AcuI CTGAAG 2 cut(s) 324, 1122
AcyI GRCGYC 2 cut(s) 200, 253
AfaI GTAC 1 cut(s) 1417
AfiI CCNNNNNNNGG 5 cut(s) 16, 960, 1233, 1234, 1316
AflIII ACRYGT 1 cut(s) 1164
AgsI TTSAA 3 cut(s) 1097, 1114, 1216
AjnI CCWGG 2 cut(s) 9, 727
AluBI AGCT 7 cut(s) 53, 188, 368, 649, 931, 1100, 1212
AluI AGCT 7 cut(s) 53, 188, 368, 649, 931, 1100, 1212
Alw26I GTCTC 3 cut(s) 792, 818, 858
AlwI GGATC 1 cut(s) 67
AlwNI CAGNNNCTG 1 cut(s) 734
AoxI GGCC 2 cut(s) 585, 1444
ApeKI GCWGC 2 cut(s) 143, 529
ApoI RAATTY 1 cut(s) 1331
AscI GGCGCGCC 1 cut(s) 5
AspLEI GCGC 6 cut(s) 7, 9, 202, 255, 1034, 1430
AspS9I GGNCC 1 cut(s) 895
AvaII GGWCC 1 cut(s) 895
BaeGI GKGCMC 1 cut(s) 671
BaeI ACNNNNGTAYC 2 cut(s) 1151, 1184
BanI GGYRCC 5 cut(s) 199, 252, 666, 941, 1132
BbvCI CCTCAGC 1 cut(s) 54
BbvI GCAGC 2 cut(s) 155, 516
BccI CCATC 9 cut(s) 445, 457, 475, 496, 526, 761, 1288, 1432, 1436
BceAI ACGGC 1 cut(s) 1431
BciT130I CCWGG 2 cut(s) 11, 729
BciVI GTATCC 1 cut(s) 920
BcoDI GTCTC 3 cut(s) 792, 818, 858
BfaI CTAG 9 cut(s) 660, 750, 989, 1253, 1344, 1374, 1392, 1413, 1431
BfmI CTRYAG 2 cut(s) 903, 1086
BfoI RGCGCY 2 cut(s) 203, 256
BfuAI ACCTGC 1 cut(s) 340
BfuI GTATCC 1 cut(s) 920
BglII AGATCT 1 cut(s) 127
BisI GCNGC 5 cut(s) 144, 203, 233, 530, 588
BlsI GCNGC 5 cut(s) 145, 204, 234, 531, 589
BmcAI AGTACT 1 cut(s) 1417
Bme1390I CCNGG 2 cut(s) 11, 729
Bme18I GGWCC 1 cut(s) 895
BmgT120I GGNCC 1 cut(s) 895
BmiI GGNNCC 6 cut(s) 201, 254, 668, 896, 943, 1134
BmrFI CCNGG 2 cut(s) 11, 729
BmsI GCATC 3 cut(s) 408, 1296, 1356
BoxI GACNNNNGTC 1 cut(s) 810
BpmI CTGGAG 2 cut(s) 348, 665
Bpu10I CCTNAGC 2 cut(s) 54, 672
BpuEI CTTGAG 2 cut(s) 1040, 1228
BsaAI YACGTR 1 cut(s) 1167
BsaHI GRCGYC 2 cut(s) 200, 253
BsaI GGTCTC 2 cut(s) 792, 858
BsaJI CCNNGG 5 cut(s) 10, 588, 787, 1356, 1447
BsaXI ACNNNNNCTCC 8 cut(s) 343, 364, 373, 394, 499, 529, 1136, 1166
Bsc4I CCNNNNNNNGG 5 cut(s) 16, 960, 1233, 1234, 1316
Bse3DI GCAATG 2 cut(s) 631, 683
BseBI CCWGG 2 cut(s) 11, 729
BseDI CCNNGG 5 cut(s) 10, 588, 787, 1356, 1447
BseGI GGATG 5 cut(s) 449, 831, 970, 1443, 1447
BseLI CCNNNNNNNGG 5 cut(s) 16, 960, 1233, 1234, 1316
BseMI GCAATG 2 cut(s) 631, 683
BseMII CTCAG 2 cut(s) 45, 663
BsePI GCGCGC 1 cut(s) 5
BseRI GAGGAG 5 cut(s) 213, 258, 291, 294, 351
BseSI GKGCMC 1 cut(s) 671
BseXI GCAGC 2 cut(s) 155, 516
BseYI CCCAGC 1 cut(s) 139
Bsh1236I CGCG 3 cut(s) 7, 590, 1304
Bsh1285I CGRYCG 1 cut(s) 979
BshFI GGCC 2 cut(s) 587, 1446
BshNI GGYRCC 5 cut(s) 199, 252, 666, 941, 1132
BsiEI CGRYCG 1 cut(s) 979
BslFI GGGAC 2 cut(s) 690, 896
BslI CCNNNNNNNGG 5 cut(s) 16, 960, 1233, 1234, 1316
BsmAI GTCTC 3 cut(s) 792, 818, 858
BsmFI GGGAC 2 cut(s) 690, 896
BsnI GGCC 2 cut(s) 587, 1446
Bso31I GGTCTC 2 cut(s) 792, 858
Bsp1286I GDGCHC 1 cut(s) 671
Bsp143I GATC 4 cut(s) 59, 127, 1059, 1116
Bsp19I CCATGG 1 cut(s) 787
Bsp68I TCGCGA 1 cut(s) 1304
BspANI GGCC 2 cut(s) 587, 1446
BspCNI CTCAG 2 cut(s) 46, 664
BspFNI CGCG 3 cut(s) 7, 590, 1304
BspLI GGNNCC 6 cut(s) 201, 254, 668, 896, 943, 1134
BspMI ACCTGC 1 cut(s) 340
BspPI GGATC 1 cut(s) 67
BspQI GCTCTTC 1 cut(s) 938
BspT107I GGYRCC 5 cut(s) 199, 252, 666, 941, 1132
BspTNI GGTCTC 2 cut(s) 792, 858
BsrDI GCAATG 2 cut(s) 631, 683
BssECI CCNNGG 5 cut(s) 10, 588, 787, 1356, 1447
BssHII GCGCGC 1 cut(s) 5
BssMI GATC 4 cut(s) 59, 127, 1059, 1116
BssNI GRCGYC 2 cut(s) 200, 253
BssT1I CCWWGG 1 cut(s) 787
Bst2UI CCWGG 2 cut(s) 11, 729
Bst4CI ACNGT 2 cut(s) 973, 1268
Bst6I CTCTTC 2 cut(s) 872, 938
BstACI GRCGYC 2 cut(s) 200, 253
BstBAI YACGTR 1 cut(s) 1167
BstC8I GCNNGC 5 cut(s) 7, 148, 794, 929, 1250
BstDEI CTNAG 5 cut(s) 54, 78, 650, 672, 1229
BstDSI CCRYGG 3 cut(s) 588, 787, 1447
BstF5I GGATG 5 cut(s) 449, 831, 970, 1443, 1447
BstFNI CGCG 3 cut(s) 7, 590, 1304
BstH2I RGCGCY 2 cut(s) 203, 256
BstHHI GCGC 6 cut(s) 7, 9, 202, 255, 1034, 1430
BstKTI GATC 4 cut(s) 62, 130, 1062, 1119
BstMAI GTCTC 3 cut(s) 792, 818, 858
BstMBI GATC 4 cut(s) 59, 127, 1059, 1116
BstMCI CGRYCG 1 cut(s) 979
BstMWI GCNNNNNNNGC 1 cut(s) 699
BstNI CCWGG 2 cut(s) 11, 729
BstNSI RCATGY 2 cut(s) 150, 702
BstPAI GACNNNNGTC 1 cut(s) 810
BstSCI CCNGG 2 cut(s) 9, 727
BstSFI CTRYAG 2 cut(s) 903, 1086
BstSLI GKGCMC 1 cut(s) 671
BstUI CGCG 3 cut(s) 7, 590, 1304
BstV1I GCAGC 2 cut(s) 155, 516
BstX2I RGATCY 2 cut(s) 59, 127
BstYI RGATCY 2 cut(s) 59, 127
BsuI GTATCC 1 cut(s) 920
BsuRI GGCC 2 cut(s) 587, 1446
BtgI CCRYGG 3 cut(s) 588, 787, 1447
BtgZI GCGATG 1 cut(s) 1319
BtsCI GGATG 5 cut(s) 449, 831, 970, 1443, 1447
BtsI GCAGTG 1 cut(s) 1131
BtsIMutI CAGTG 1 cut(s) 1131
BtuMI TCGCGA 1 cut(s) 1304
BveI ACCTGC 1 cut(s) 340
Cac8I GCNNGC 5 cut(s) 7, 148, 794, 929, 1250
CaiI CAGNNNCTG 1 cut(s) 734
CfoI GCGC 6 cut(s) 7, 9, 202, 255, 1034, 1430
Cfr13I GGNCC 1 cut(s) 895
Cfr42I CCGCGG 1 cut(s) 591
CseI GACGC 1 cut(s) 682
CsiI ACCWGGT 1 cut(s) 727
Csp6I GTAC 1 cut(s) 1416
CviAII CATG 3 cut(s) 147, 699, 788
CviQI GTAC 1 cut(s) 1416
DdeI CTNAG 5 cut(s) 54, 78, 650, 672, 1229
DinI GGCGCC 2 cut(s) 201, 254
DpnI GATC 4 cut(s) 61, 129, 1061, 1118
DpnII GATC 4 cut(s) 59, 127, 1059, 1116
EaeI YGGCCR 1 cut(s) 1444
Eam1104I CTCTTC 2 cut(s) 872, 938
EarI CTCTTC 2 cut(s) 872, 938
Eco130I CCWWGG 1 cut(s) 787
Eco31I GGTCTC 2 cut(s) 792, 858
Eco47I GGWCC 1 cut(s) 895
Eco57I CTGAAG 2 cut(s) 324, 1122
EcoRII CCWGG 2 cut(s) 9, 727
EcoT14I CCWWGG 1 cut(s) 787
EgeI GGCGCC 2 cut(s) 201, 254
EheI GGCGCC 2 cut(s) 201, 254
ErhI CCWWGG 1 cut(s) 787
FaeI CATG 3 cut(s) 150, 702, 791
FalI AAGNNNNNCTT 2 cut(s) 869, 901
FaqI GGGAC 2 cut(s) 690, 896
FatI CATG 3 cut(s) 146, 698, 787
FauI CCCGC 1 cut(s) 583
FblI GTMKAC 1 cut(s) 975
Fnu4HI GCNGC 5 cut(s) 144, 203, 233, 530, 588
FokI GGATG 5 cut(s) 436, 818, 977, 1450, 1454
Fsp4HI GCNGC 5 cut(s) 144, 203, 233, 530, 588
FspBI CTAG 9 cut(s) 660, 750, 989, 1253, 1344, 1374, 1392, 1413, 1431
GlaI GCGC 6 cut(s) 6, 8, 201, 254, 1033, 1429
GluI GCNGC 5 cut(s) 144, 203, 233, 530, 588
GsaI CCCAGC 1 cut(s) 143
GsuI CTGGAG 2 cut(s) 348, 665
HaeII RGCGCY 2 cut(s) 203, 256
HaeIII GGCC 2 cut(s) 587, 1446
HgaI GACGC 1 cut(s) 682
HhaI GCGC 6 cut(s) 7, 9, 202, 255, 1034, 1430
Hin1I GRCGYC 2 cut(s) 200, 253
Hin1II CATG 3 cut(s) 150, 702, 791
Hin6I GCGC 6 cut(s) 5, 7, 200, 253, 1032, 1428
HinP1I GCGC 6 cut(s) 5, 7, 200, 253, 1032, 1428
HincII GTYRAC 2 cut(s) 688, 976
HindII GTYRAC 2 cut(s) 688, 976
HinfI GANTC 5 cut(s) 603, 824, 1053, 1151, 1388
Hpy166II GTNNAC 3 cut(s) 483, 688, 976
Hpy188I TCNGA 4 cut(s) 583, 823, 857, 1360
Hpy188III TCNNGA 5 cut(s) 644, 1057, 1114, 1291, 1303
Hpy8I GTNNAC 3 cut(s) 483, 688, 976
Hpy99I CGWCG 3 cut(s) 409, 977, 1004
HpyAV CCTTC 7 cut(s) 330, 348, 561, 585, 787, 1022, 1097
HpyCH4III ACNGT 2 cut(s) 973, 1268
HpyCH4IV ACGT 1 cut(s) 1166
HpyCH4V TGCA 4 cut(s) 183, 612, 702, 720
HpyF10VI GCNNNNNNNGC 1 cut(s) 699
HpyF3I CTNAG 5 cut(s) 54, 78, 650, 672, 1229
HpySE526I ACGT 1 cut(s) 1166
Hsp92I GRCGYC 2 cut(s) 200, 253
Hsp92II CATG 3 cut(s) 150, 702, 791
HspAI GCGC 6 cut(s) 5, 7, 200, 253, 1032, 1428
KasI GGCGCC 2 cut(s) 199, 252
KspI CCGCGG 1 cut(s) 591
Kzo9I GATC 4 cut(s) 59, 127, 1059, 1116
LguI GCTCTTC 1 cut(s) 938
LmnI GCTCC 2 cut(s) 646, 1068
Lsp1109I GCAGC 2 cut(s) 155, 516
LweI GCATC 3 cut(s) 408, 1296, 1356
MabI ACCWGGT 1 cut(s) 727
MaeI CTAG 9 cut(s) 660, 750, 989, 1253, 1344, 1374, 1392, 1413, 1431
MaeII ACGT 1 cut(s) 1166
MaeIII GTNAC 5 cut(s) 116, 384, 408, 694, 713
MalI GATC 4 cut(s) 61, 129, 1061, 1118
MboI GATC 4 cut(s) 59, 127, 1059, 1116
MboII GAAGA 2 cut(s) 889, 925
MflI RGATCY 2 cut(s) 59, 127
MhlI GDGCHC 1 cut(s) 671
MluCI AATT 3 cut(s) 1092, 1331, 1423
Mly113I GGCGCC 2 cut(s) 200, 253
MlyI GAGTC 4 cut(s) 612, 1047, 1160, 1397
MmeI TCCRAC 1 cut(s) 852
MseI TTAA 1 cut(s) 1242
MslI CAYNNNNRTG 2 cut(s) 636, 1167
MspA1I CMGCKG 2 cut(s) 529, 590
MspR9I CCNGG 2 cut(s) 11, 729
MvaI CCWGG 2 cut(s) 11, 729
MvnI CGCG 3 cut(s) 7, 590, 1304
MwoI GCNNNNNNNGC 1 cut(s) 699
NarI GGCGCC 2 cut(s) 200, 253
NcoI CCATGG 1 cut(s) 787
NdeII GATC 4 cut(s) 59, 127, 1059, 1116
NlaIII CATG 3 cut(s) 150, 702, 791
NlaIV GGNNCC 6 cut(s) 201, 254, 668, 896, 943, 1134
NmuCI GTSAC 3 cut(s) 384, 408, 694
NruI TCGCGA 1 cut(s) 1304
NspI RCATGY 2 cut(s) 150, 702
PaeI GCATGC 1 cut(s) 150
PalAI GGCGCGCC 1 cut(s) 5
PaqCI CACCTGC 1 cut(s) 340
PauI GCGCGC 1 cut(s) 5
PciSI GCTCTTC 1 cut(s) 938
PcsI WCGNNNNNNNCGW 1 cut(s) 413
PfeI GAWTC 1 cut(s) 824
PflFI GACNNNGTC 2 cut(s) 692, 971
PkrI GCNGC 5 cut(s) 145, 204, 234, 531, 589
PleI GAGTC 4 cut(s) 611, 1047, 1159, 1396
PluTI GGCGCC 2 cut(s) 203, 256
PpsI GAGTC 4 cut(s) 611, 1047, 1159, 1396
Ppu21I YACGTR 1 cut(s) 1167
PshAI GACNNNNGTC 1 cut(s) 810
Psp6I CCWGG 2 cut(s) 9, 727
PspFI CCCAGC 1 cut(s) 139
PspGI CCWGG 2 cut(s) 9, 727
PspN4I GGNNCC 6 cut(s) 201, 254, 668, 896, 943, 1134
PspPI GGNCC 1 cut(s) 895
PstNI CAGNNNCTG 1 cut(s) 734
PsuI RGATCY 2 cut(s) 59, 127
PsyI GACNNNGTC 2 cut(s) 692, 971
PteI GCGCGC 1 cut(s) 5
RruI TCGCGA 1 cut(s) 1304
RsaI GTAC 1 cut(s) 1417
RsaNI GTAC 1 cut(s) 1416
RseI CAYNNNNRTG 2 cut(s) 636, 1167
SacII CCGCGG 1 cut(s) 591
SalI GTCGAC 1 cut(s) 974
SapI GCTCTTC 1 cut(s) 938
SaqAI TTAA 1 cut(s) 1242
SatI GCNGC 5 cut(s) 144, 203, 233, 530, 588
Sau3AI GATC 4 cut(s) 59, 127, 1059, 1116
Sau96I GGNCC 1 cut(s) 895
ScaI AGTACT 1 cut(s) 1417
SchI GAGTC 4 cut(s) 612, 1047, 1160, 1397
ScrFI CCNGG 2 cut(s) 11, 729
SduI GDGCHC 1 cut(s) 671
SexAI ACCWGGT 1 cut(s) 727
SfaNI GCATC 3 cut(s) 408, 1296, 1356
SfcI CTRYAG 2 cut(s) 903, 1086
SfoI GGCGCC 2 cut(s) 201, 254
Sfr303I CCGCGG 1 cut(s) 591
SgrBI CCGCGG 1 cut(s) 591
SgsI GGCGCGCC 1 cut(s) 5
SinI GGWCC 1 cut(s) 895
SmiMI CAYNNNNRTG 2 cut(s) 636, 1167
SmlI CTYRAG 2 cut(s) 1055, 1207
SmoI CTYRAG 2 cut(s) 1055, 1207
SphI GCATGC 1 cut(s) 150
Sse9I AATT 3 cut(s) 1092, 1331, 1423
SspDI GGCGCC 2 cut(s) 199, 252
SspMI CTAG 9 cut(s) 660, 750, 989, 1253, 1344, 1374, 1392, 1413, 1431
StyD4I CCNGG 2 cut(s) 9, 727
StyI CCWWGG 1 cut(s) 787
TaaI ACNGT 2 cut(s) 973, 1268
TaiI ACGT 1 cut(s) 1169
TaqI TCGA 1 cut(s) 975
TasI AATT 3 cut(s) 1092, 1331, 1423
TatI WGTACW 1 cut(s) 1415
TauI GCSGC 3 cut(s) 205, 235, 590
TfiI GAWTC 1 cut(s) 824
Tru1I TTAA 1 cut(s) 1242
Tru9I TTAA 1 cut(s) 1242
TscAI CASTG 1 cut(s) 1131
TseFI GTSAC 3 cut(s) 384, 408, 694
TseI GCWGC 2 cut(s) 143, 529
Tsp45I GTSAC 3 cut(s) 384, 408, 694
TspDTI ATGAA 6 cut(s) 567, 841, 890, 925, 1326, 1436
TspGWI ACGGA 2 cut(s) 372, 1157
TspRI CASTG 1 cut(s) 1131
Tth111I GACNNNGTC 2 cut(s) 692, 971
VpaK11BI GGWCC 1 cut(s) 895
XapI RAATTY 1 cut(s) 1331
XceI RCATGY 2 cut(s) 150, 702
XcmI CCANNNNNNNNNTGG 1 cut(s) 957
XmiI GTMKAC 1 cut(s) 975
XspI CTAG 9 cut(s) 660, 750, 989, 1253, 1344, 1374, 1392, 1413, 1431
ZrmI AGTACT 1 cut(s) 1417
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.