Rroxscaffold_1G00020950

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0002778
Physical Location & Seq
Reverse (-)
25520715 .. 25548272
27558 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00020950.1

Sequence Viewer

Length: 1419 bp
ATGGAAGCCAGCTCTGTTCTGGGCCAAGGCAGTGGAAACGGAAATGGGAATGGGAATGGCAACACTGGCAGTGGCAATGGAAATGGGAACGGCAATGGCAACACTGGCAATGGCAACGGGAATGGGAACGGGAATGGCAACACTGGCAGTGGCAACGGCAACGGAAATGGGAACGGCAACGAAGCCAACGGCAATGGAAATGCGAATGGAAACGGCAACACTGGCAGTGGCAACGGAAATGCCAACGGCAACGGCAACACCGGCAGTGGCAACGGGAATGGGAACGGCAATGGGAACACTGGCAGTGGCAACGGCAATGGGAATGGGAACGGCAACACTGGCAGTGGCAATGGCAACGGGAATGGGAACGGCAATACTGGCAGTGGCAACGGAAACGGGAATGGAAACGGCAACGGGAATGGCAATGGCAATGTAAACGGAAACGGGAATGGGAATGGAAATCAAGTTAATGCTGATGTTACAAACTACCAGGTATTGCCACCACTAGCAACCGGACAAGAGAGATGCATGTGCAAAGCTCAGGGCGCCTGTTTCTACAAGACCCTTGTCTGTCCACCGGAGTGCCCTCAGAGAAAGCCTAAGCAGAACAAGAAACACAAGGGCTGCTTCGTCAACTGCGGCAGCAAGTGTGAAGTCACCTGCAAGTTTAGAAGAGCCAAATGTAATGGGTATGGTTCTCTCTGCTATGATCCTCGATTTGTTGGTGGAGATGGTGTTATGTTCTACTTCCATGGAGCCAAGGGAGGAAACTTTGCCATTGTTTCAGACGATAACCTCCAGATCAATGCACATTTCATTGGGACTCGACCACTAGGAAGGACTCGCGACTTTACATGGGTTCAAGCCCTCTCAATCATGTTCGACAATCACAACCTTGTCATTGCAGCAAAGAGGGTCTCAAAGTGGGATGACAAAGTTGATGCTCTCATTGTAAGGTGGGATGGCGAGTCGGTTAGCATTCCTTCCGATGGAGAAGCCGAATGGAGGACTAATGGTGATAAAAAACGACAGGTAATAGTGGAAAGAACCGACGACACTAACAACGTAAGAGTTACAGTTGCAGGGCTACTGGAAATGGACATAAGGATTAGGCCTATTGGAGAAGAAGAAAACAAGGTTCATAAGTATCAAATACCAGCTGATGATACTTTTGCTCACTTGGAAACACAGTTCAGATTTTCGAACTTGTCTGATCTTGTCGAAGGAGTTTTGGGCAAGACTTATAGGCCAGGTTATGTTAGTCCAGTCAAGGTTGGAGTTCCAATGCCAATGATGGGTGGGGAGGACAAGTACAGAACTCCTTCACTATTCTCACCACTCTGCAAGGTTTGCAGGTTCCAAACTACTAGTCAATCTTCATGGTTTGAAATTACAAGTGGAGGAGTGGCATCATATTGA
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

472

Amino Acids

48.98

Weight (kDa)

8.49

Isoelectric Point (pI)

-2.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 397 - 453 2e-29 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) 668
Acc36I ACCTGC 2 cut(s) 668, 1344
AccB1I GGYRCC 1 cut(s) 545
AccII CGCG 1 cut(s) 846
AciI CCGC 1 cut(s) 639
AclWI GGATC 1 cut(s) 704
AcyI GRCGYC 1 cut(s) 546
AfaI GTAC 1 cut(s) 1313
AfiI CCNNNNNNNGG 3 cut(s) 989, 1005, 1295
AgsI TTSAA 2 cut(s) 863, 1388
AhlI ACTAGT 1 cut(s) 1367
AjnI CCWGG 2 cut(s) 489, 1249
AleI CACNNNNGTG 1 cut(s) 580
AloI GAACNNNNNNTCC 2 cut(s) 1175, 1207
AluBI AGCT 3 cut(s) 12, 539, 1160
AluI AGCT 3 cut(s) 12, 539, 1160
Alw26I GTCTC 1 cut(s) 922
AlwI GGATC 1 cut(s) 704
AoxI GGCC 3 cut(s) 22, 1112, 1247
ApeKI GCWGC 3 cut(s) 624, 642, 905
ArsI GACNNNNNNTTYG 2 cut(s) 1354, 1386
Asp700I GAANNNNTTC 1 cut(s) 1321
AspLEI GCGC 1 cut(s) 548
AspS9I GGNCC 1 cut(s) 22
AsuHPI GGTGA 3 cut(s) 649, 1028, 1326
AsuII TTCGAA 1 cut(s) 1202
BaeGI GKGCMC 1 cut(s) 587
BanI GGYRCC 1 cut(s) 545
BbvI GCAGC 3 cut(s) 611, 654, 917
BccI CCATC 4 cut(s) 725, 956, 983, 1288
BciT130I CCWGG 2 cut(s) 491, 1251
BcoDI GTCTC 1 cut(s) 922
BcuI ACTAGT 1 cut(s) 1367
BfaI CTAG 3 cut(s) 506, 833, 1368
BfoI RGCGCY 1 cut(s) 549
BfuAI ACCTGC 2 cut(s) 668, 1344
BisI GCNGC 4 cut(s) 625, 640, 643, 906
BlsI GCNGC 4 cut(s) 626, 641, 644, 907
Bme1390I CCNGG 2 cut(s) 491, 1251
BmgT120I GGNCC 1 cut(s) 22
BmiI GGNNCC 3 cut(s) 547, 757, 1358
BmrFI CCNGG 2 cut(s) 491, 1251
BmsI GCATC 2 cut(s) 515, 931
BoxI GACNNNNGTC 1 cut(s) 566
BpmI CTGGAG 1 cut(s) 782
Bpu10I CCTNAGC 2 cut(s) 540, 600
Bpu14I TTCGAA 1 cut(s) 1202
BsaHI GRCGYC 1 cut(s) 546
BsaI GGTCTC 1 cut(s) 922
BsaJI CCNNGG 3 cut(s) 25, 751, 759
BsaWI WCCGGW 2 cut(s) 512, 577
BsaXI ACNNNNNCTCC 4 cut(s) 720, 750, 1295, 1325
Bsc4I CCNNNNNNNGG 3 cut(s) 989, 1005, 1295
Bse118I RCCGGY 1 cut(s) 260
Bse1I ACTGG 9 cut(s) 70, 109, 148, 226, 304, 343, 382, 1095, 1265
BseBI CCWGG 2 cut(s) 491, 1251
BseDI CCNNGG 3 cut(s) 25, 751, 759
BseGI GGATG 2 cut(s) 934, 967
BseLI CCNNNNNNNGG 3 cut(s) 989, 1005, 1295
BseMII CTCAG 2 cut(s) 554, 602
BseNI ACTGG 9 cut(s) 70, 109, 148, 226, 304, 343, 382, 1095, 1265
BseRI GAGGAG 1 cut(s) 1416
BseSI GKGCMC 1 cut(s) 587
BseXI GCAGC 3 cut(s) 611, 654, 917
Bsh1236I CGCG 1 cut(s) 846
BshFI GGCC 3 cut(s) 24, 1114, 1249
BshNI GGYRCC 1 cut(s) 545
BsiSI CCGG 3 cut(s) 261, 513, 578
BslFI GGGAC 1 cut(s) 835
BslI CCNNNNNNNGG 3 cut(s) 989, 1005, 1295
BsmAI GTCTC 1 cut(s) 922
BsmFI GGGAC 1 cut(s) 835
BsmI GAATGC 1 cut(s) 978
BsnI GGCC 3 cut(s) 24, 1114, 1249
Bso31I GGTCTC 1 cut(s) 922
Bsp119I TTCGAA 1 cut(s) 1202
Bsp1286I GDGCHC 1 cut(s) 587
Bsp143I GATC 3 cut(s) 709, 801, 1213
Bsp19I CCATGG 1 cut(s) 751
Bsp68I TCGCGA 1 cut(s) 846
BspACI CCGC 1 cut(s) 639
BspANI GGCC 3 cut(s) 24, 1114, 1249
BspCNI CTCAG 2 cut(s) 553, 601
BspFNI CGCG 1 cut(s) 846
BspLI GGNNCC 3 cut(s) 547, 757, 1358
BspMI ACCTGC 2 cut(s) 668, 1344
BspPI GGATC 1 cut(s) 704
BspQI GCTCTTC 1 cut(s) 667
BspT104I TTCGAA 1 cut(s) 1202
BspT107I GGYRCC 1 cut(s) 545
BspTNI GGTCTC 1 cut(s) 922
BsrFI RCCGGY 1 cut(s) 260
BsrI ACTGG 9 cut(s) 70, 109, 148, 226, 304, 343, 382, 1095, 1265
BssAI RCCGGY 1 cut(s) 260
BssECI CCNNGG 3 cut(s) 25, 751, 759
BssMI GATC 3 cut(s) 709, 801, 1213
BssNI GRCGYC 1 cut(s) 546
BssT1I CCWWGG 3 cut(s) 25, 751, 759
Bst2UI CCWGG 2 cut(s) 491, 1251
Bst4CI ACNGT 2 cut(s) 1078, 1191
Bst6I CTCTTC 1 cut(s) 667
BstACI GRCGYC 1 cut(s) 546
BstAPI GCANNNNNTGC 1 cut(s) 1350
BstBI TTCGAA 1 cut(s) 1202
BstC8I GCNNGC 1 cut(s) 10
BstDEI CTNAG 3 cut(s) 540, 588, 600
BstDSI CCRYGG 1 cut(s) 751
BstF5I GGATG 2 cut(s) 934, 967
BstFNI CGCG 1 cut(s) 846
BstH2I RGCGCY 1 cut(s) 549
BstHHI GCGC 1 cut(s) 548
BstKTI GATC 3 cut(s) 712, 804, 1216
BstMAI GTCTC 1 cut(s) 922
BstMBI GATC 3 cut(s) 709, 801, 1213
BstMWI GCNNNNNNNGC 9 cut(s) 66, 105, 144, 222, 261, 339, 378, 545, 1350
BstNI CCWGG 2 cut(s) 491, 1251
BstNSI RCATGY 1 cut(s) 532
BstPAI GACNNNNGTC 1 cut(s) 566
BstSCI CCNGG 2 cut(s) 489, 1249
BstSLI GKGCMC 1 cut(s) 587
BstUI CGCG 1 cut(s) 846
BstV1I GCAGC 3 cut(s) 611, 654, 917
BstXI CCANNNNNNTGG 1 cut(s) 32
BsuRI GGCC 3 cut(s) 24, 1114, 1249
BtgI CCRYGG 1 cut(s) 751
BtsCI GGATG 2 cut(s) 934, 967
BtsI GCAGTG 8 cut(s) 37, 76, 154, 232, 271, 310, 349, 388
BtuMI TCGCGA 1 cut(s) 846
BveI ACCTGC 2 cut(s) 668, 1344
Cac8I GCNNGC 1 cut(s) 10
CfoI GCGC 1 cut(s) 548
Cfr10I RCCGGY 1 cut(s) 260
Cfr13I GGNCC 1 cut(s) 22
CsiI ACCWGGT 1 cut(s) 489
Csp6I GTAC 1 cut(s) 1312
CviAII CATG 5 cut(s) 529, 752, 855, 877, 1380
CviQI GTAC 1 cut(s) 1312
DdeI CTNAG 3 cut(s) 540, 588, 600
DinI GGCGCC 1 cut(s) 547
DpnI GATC 3 cut(s) 711, 803, 1215
DpnII GATC 3 cut(s) 709, 801, 1213
Eam1104I CTCTTC 1 cut(s) 667
EarI CTCTTC 1 cut(s) 667
Eco130I CCWWGG 3 cut(s) 25, 751, 759
Eco147I AGGCCT 1 cut(s) 1114
Eco31I GGTCTC 1 cut(s) 922
EcoRII CCWGG 2 cut(s) 489, 1249
EcoT14I CCWWGG 3 cut(s) 25, 751, 759
EcoT22I ATGCAT 1 cut(s) 530
EgeI GGCGCC 1 cut(s) 547
EheI GGCGCC 1 cut(s) 547
ErhI CCWWGG 3 cut(s) 25, 751, 759
FaeI CATG 5 cut(s) 532, 755, 858, 880, 1383
FalI AAGNNNNNCTT 2 cut(s) 611, 643
FaqI GGGAC 1 cut(s) 835
FatI CATG 5 cut(s) 528, 751, 854, 876, 1379
Fnu4HI GCNGC 4 cut(s) 625, 640, 643, 906
FokI GGATG 2 cut(s) 941, 974
Fsp4HI GCNGC 4 cut(s) 625, 640, 643, 906
FspBI CTAG 3 cut(s) 506, 833, 1368
GlaI GCGC 1 cut(s) 547
GluI GCNGC 4 cut(s) 625, 640, 643, 906
GsuI CTGGAG 1 cut(s) 782
HaeII RGCGCY 1 cut(s) 549
HaeIII GGCC 3 cut(s) 24, 1114, 1249
HapII CCGG 3 cut(s) 261, 513, 578
HhaI GCGC 1 cut(s) 548
Hin1I GRCGYC 1 cut(s) 546
Hin1II CATG 5 cut(s) 532, 755, 858, 880, 1383
Hin6I GCGC 1 cut(s) 546
HinP1I GCGC 1 cut(s) 546
HincII GTYRAC 1 cut(s) 634
HindII GTYRAC 1 cut(s) 634
HinfI GANTC 3 cut(s) 823, 841, 968
HpaII CCGG 3 cut(s) 261, 513, 578
HphI GGTGA 3 cut(s) 649, 1028, 1326
Hpy166II GTNNAC 3 cut(s) 436, 575, 634
Hpy188I TCNGA 5 cut(s) 591, 787, 988, 1196, 1213
Hpy188III TCNNGA 2 cut(s) 799, 845
Hpy8I GTNNAC 3 cut(s) 436, 575, 634
Hpy99I CGWCG 1 cut(s) 1055
HpyAV CCTTC 4 cut(s) 831, 993, 1217, 1332
HpyCH4III ACNGT 2 cut(s) 1078, 1191
HpyCH4IV ACGT 1 cut(s) 1065
HpyCH4V TGCA 8 cut(s) 528, 534, 663, 809, 905, 1082, 1344, 1353
HpyF10VI GCNNNNNNNGC 9 cut(s) 66, 105, 144, 222, 261, 339, 378, 545, 1350
HpyF3I CTNAG 3 cut(s) 540, 588, 600
HpySE526I ACGT 1 cut(s) 1065
Hsp92I GRCGYC 1 cut(s) 546
Hsp92II CATG 5 cut(s) 532, 755, 858, 880, 1383
HspAI GCGC 1 cut(s) 546
KasI GGCGCC 1 cut(s) 545
Kzo9I GATC 3 cut(s) 709, 801, 1213
LguI GCTCTTC 1 cut(s) 667
LmnI GCTCC 1 cut(s) 755
Lsp1109I GCAGC 3 cut(s) 611, 654, 917
LweI GCATC 2 cut(s) 515, 931
MabI ACCWGGT 1 cut(s) 489
MaeI CTAG 3 cut(s) 506, 833, 1368
MaeII ACGT 1 cut(s) 1065
MaeIII GTNAC 3 cut(s) 478, 655, 1072
MalI GATC 3 cut(s) 711, 803, 1215
MboI GATC 3 cut(s) 709, 801, 1213
MboII GAAGA 4 cut(s) 684, 1136, 1139, 1368
MhlI GDGCHC 1 cut(s) 587
MluCI AATT 1 cut(s) 1389
Mly113I GGCGCC 1 cut(s) 546
MlyI GAGTC 3 cut(s) 817, 835, 977
MmeI TCCRAC 1 cut(s) 1255
MnlI CCTC 9 cut(s) 597, 723, 758, 806, 878, 906, 999, 1297, 1394
Mph1103I ATGCAT 1 cut(s) 530
MroXI GAANNNNTTC 1 cut(s) 1321
MseI TTAA 1 cut(s) 468
MslI CAYNNNNRTG 1 cut(s) 580
MspA1I CMGCKG 1 cut(s) 1160
MspI CCGG 3 cut(s) 261, 513, 578
MspR9I CCNGG 2 cut(s) 491, 1251
Mva1269I GAATGC 1 cut(s) 978
MvaI CCWGG 2 cut(s) 491, 1251
MvnI CGCG 1 cut(s) 846
MwoI GCNNNNNNNGC 9 cut(s) 66, 105, 144, 222, 261, 339, 378, 545, 1350
NarI GGCGCC 1 cut(s) 546
NcoI CCATGG 1 cut(s) 751
NdeII GATC 3 cut(s) 709, 801, 1213
NlaIII CATG 5 cut(s) 532, 755, 858, 880, 1383
NlaIV GGNNCC 3 cut(s) 547, 757, 1358
NmuCI GTSAC 1 cut(s) 655
NruI TCGCGA 1 cut(s) 846
NsiI ATGCAT 1 cut(s) 530
NspI RCATGY 1 cut(s) 532
NspV TTCGAA 1 cut(s) 1202
OliI CACNNNNGTG 1 cut(s) 580
PaqCI CACCTGC 1 cut(s) 668
PceI AGGCCT 1 cut(s) 1114
PciSI GCTCTTC 1 cut(s) 667
PctI GAATGC 1 cut(s) 978
PdmI GAANNNNTTC 1 cut(s) 1321
PkrI GCNGC 4 cut(s) 626, 641, 644, 907
PleI GAGTC 3 cut(s) 817, 835, 976
PluTI GGCGCC 1 cut(s) 549
PpsI GAGTC 3 cut(s) 817, 835, 976
PshAI GACNNNNGTC 1 cut(s) 566
Psp6I CCWGG 2 cut(s) 489, 1249
PspGI CCWGG 2 cut(s) 489, 1249
PspN4I GGNNCC 3 cut(s) 547, 757, 1358
PspPI GGNCC 1 cut(s) 22
PvuII CAGCTG 1 cut(s) 1160
RruI TCGCGA 1 cut(s) 846
RsaI GTAC 1 cut(s) 1313
RsaNI GTAC 1 cut(s) 1312
RseI CAYNNNNRTG 1 cut(s) 580
SapI GCTCTTC 1 cut(s) 667
SaqAI TTAA 1 cut(s) 468
SatI GCNGC 4 cut(s) 625, 640, 643, 906
Sau3AI GATC 3 cut(s) 709, 801, 1213
Sau96I GGNCC 1 cut(s) 22
SchI GAGTC 3 cut(s) 817, 835, 977
ScrFI CCNGG 2 cut(s) 491, 1251
SduI GDGCHC 1 cut(s) 587
SexAI ACCWGGT 1 cut(s) 489
SfaNI GCATC 2 cut(s) 515, 931
SfoI GGCGCC 1 cut(s) 547
SfuI TTCGAA 1 cut(s) 1202
SmiMI CAYNNNNRTG 1 cut(s) 580
SpeI ACTAGT 1 cut(s) 1367
Sse9I AATT 1 cut(s) 1389
SseBI AGGCCT 1 cut(s) 1114
SsiI CCGC 1 cut(s) 639
SspDI GGCGCC 1 cut(s) 545
SspMI CTAG 3 cut(s) 506, 833, 1368
StuI AGGCCT 1 cut(s) 1114
StyD4I CCNGG 2 cut(s) 489, 1249
StyI CCWWGG 3 cut(s) 25, 751, 759
TaaI ACNGT 2 cut(s) 1078, 1191
TaiI ACGT 1 cut(s) 1068
TaqI TCGA 5 cut(s) 715, 826, 882, 1202, 1221
TasI AATT 1 cut(s) 1389
TatI WGTACW 1 cut(s) 1311
TauI GCSGC 1 cut(s) 642
Tru1I TTAA 1 cut(s) 468
Tru9I TTAA 1 cut(s) 468
TseFI GTSAC 1 cut(s) 655
TseI GCWGC 3 cut(s) 624, 642, 905
Tsp45I GTSAC 1 cut(s) 655
TspDTI ATGAA 3 cut(s) 805, 1130, 1368
TspGWI ACGGA 5 cut(s) 54, 177, 249, 405, 453
XceI RCATGY 1 cut(s) 532
XcmI CCANNNNNNNNNTGG 1 cut(s) 16
XmnI GAANNNNTTC 1 cut(s) 1321
XspI CTAG 3 cut(s) 506, 833, 1368
Zsp2I ATGCAT 1 cut(s) 530
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.