RchiOBHm_Chr5g0054971

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0002618
Physical Location & Seq
Forward (+)
57736452 .. 57737911
1460 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ33203

Sequence Viewer

Length: 1053 bp
ATGCCTCCTGCTACTAACCCATCACCACCGCCATCCCCTATTACTACTCCATCACCACCTTTGTCCACACCATCATCACCGCCACCCCCTACTCCTACTCCATCACCACCGCTGCCCCCTACTTCTACACCACCTTCTTTCTATCCTTCACCACCGCCTTCATCAGAGGCCGCGGGTGAAAAGAGAGTCAAATGCAAGAATAAGAACTACCCTCATTGCTATGGTCTGGAGCTAAGTTGTCCTAGTGGGTGCCCTGAGCAATGTGAAGTTGACTGCGTCACATGCAGTCCCGTTTGTAACTGCAACAAACCAGGTGCTGTTTGCCAAGACCCTAGATTTATTGGTGGTGATGGTATAACCTTCTACTTCCATGGCAAGCGAGACCAAGACTTCTGTCTCGTATCTGATTCCAACATCCACATCAACGCCCATTTCATCGGAAAAAGAGACCAAAATATGAAGAGGGACTTCACTTGGGTCCAATCTGTAGGTATCCTCTTTGACAATCGCAAGCTCTTCATAGGTGCCAAACCAACCTCCACTTGGGATGACACCGTCGACCGCCTAACCCTAGCCATTGACGACGAAACCATTAGCCTTGCCGACAACGAAGGCGCATATTGGCAATCACAAGGACTCAAGATCACAAGGAGCAAGAACACAAATGCTGTAGAAATTGAAGCTGAAGGGAACTTCAAGATCAAAGCAGTGGTGGTGCCGATAACGGAGAAAGAGTCGGTGATACACAGGTATGGGATTACACAGGAGGATTGCTTTGCTCACCTTGACTTGAGCTTCAAGTTTTATGCCCTAAGTGGGGAAGTTAATGGCGTGCTAGGACAGACATACGGTGAGAACTATGTTAGTAGGGTCAAGATGGGTGTCGTGATGCCTGTTTTGGGTGGCGATAGAGAATTTTCATCGTCTAGCATCTTTGCCTCGGATTGTGCTGTTGCTAGGTTTAGCGGTGAGTCTAGTGAAAAGTCCAAGTATGCTAGTACTATGAATTGCGCTAGTGGGATGGATGGCCGCGGAGTTGTTTGTAAGAGGTAA
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

350

Amino Acids

37.96

Weight (kDa)

5.92

Isoelectric Point (pI)

56.12

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 265 - 321 2.6e-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)
AccB1I GGYRCC 3 cut(s) 249, 524, 715
AccI GTMKAC 1 cut(s) 558
AccII CGCG 2 cut(s) 173, 1032
AcoI YGGCCR 1 cut(s) 1027
AcsI RAATTY 1 cut(s) 914
AcuI CTGAAG 1 cut(s) 705
AfaI GTAC 1 cut(s) 1000
AfiI CCNNNNNNNGG 4 cut(s) 543, 816, 817, 899
AgsI TTSAA 3 cut(s) 680, 697, 799
AjnI CCWGG 1 cut(s) 310
AluBI AGCT 4 cut(s) 232, 514, 683, 795
AluI AGCT 4 cut(s) 232, 514, 683, 795
Alw26I GTCTC 3 cut(s) 375, 401, 441
AlwNI CAGNNNCTG 1 cut(s) 317
AoxI GGCC 2 cut(s) 168, 1027
ApeKI GCWGC 1 cut(s) 112
ApoI RAATTY 1 cut(s) 914
AspLEI GCGC 2 cut(s) 617, 1013
AspS9I GGNCC 1 cut(s) 478
AvaII GGWCC 1 cut(s) 478
BaeGI GKGCMC 1 cut(s) 254
BaeI ACNNNNGTAYC 2 cut(s) 734, 767
BanI GGYRCC 3 cut(s) 249, 524, 715
BbvI GCAGC 1 cut(s) 99
BccI CCATC 9 cut(s) 28, 40, 58, 79, 109, 344, 871, 1015, 1019
BciT130I CCWGG 1 cut(s) 312
BciVI GTATCC 1 cut(s) 503
BcoDI GTCTC 3 cut(s) 375, 401, 441
BfaI CTAG 9 cut(s) 243, 333, 572, 836, 927, 957, 975, 996, 1014
BfmI CTRYAG 2 cut(s) 486, 669
BfuI GTATCC 1 cut(s) 503
BisI GCNGC 3 cut(s) 113, 171, 1030
BlsI GCNGC 3 cut(s) 114, 172, 1031
BmcAI AGTACT 1 cut(s) 1000
Bme1390I CCNGG 1 cut(s) 312
Bme18I GGWCC 1 cut(s) 478
BmgT120I GGNCC 1 cut(s) 478
BmiI GGNNCC 4 cut(s) 251, 479, 526, 717
BmrFI CCNGG 1 cut(s) 312
BmsI GCATC 2 cut(s) 879, 939
BoxI GACNNNNGTC 1 cut(s) 393
BpmI CTGGAG 1 cut(s) 248
Bpu10I CCTNAGC 1 cut(s) 255
BpuEI CTTGAG 2 cut(s) 623, 811
BsaI GGTCTC 2 cut(s) 375, 441
BsaJI CCNNGG 4 cut(s) 171, 370, 939, 1030
BsaXI ACNNNNNCTCC 4 cut(s) 82, 112, 719, 749
Bsc4I CCNNNNNNNGG 4 cut(s) 543, 816, 817, 899
Bse3DI GCAATG 2 cut(s) 214, 266
BseBI CCWGG 1 cut(s) 312
BseDI CCNNGG 4 cut(s) 171, 370, 939, 1030
BseGI GGATG 5 cut(s) 32, 414, 553, 1026, 1030
BseLI CCNNNNNNNGG 4 cut(s) 543, 816, 817, 899
BseMI GCAATG 2 cut(s) 214, 266
BseMII CTCAG 1 cut(s) 246
BseSI GKGCMC 1 cut(s) 254
BseXI GCAGC 1 cut(s) 99
Bsh1236I CGCG 2 cut(s) 173, 1032
Bsh1285I CGRYCG 1 cut(s) 562
BshFI GGCC 2 cut(s) 170, 1029
BshNI GGYRCC 3 cut(s) 249, 524, 715
BsiEI CGRYCG 1 cut(s) 562
BslFI GGGAC 2 cut(s) 273, 479
BslI CCNNNNNNNGG 4 cut(s) 543, 816, 817, 899
BsmAI GTCTC 3 cut(s) 375, 401, 441
BsmFI GGGAC 2 cut(s) 273, 479
BsnI GGCC 2 cut(s) 170, 1029
Bso31I GGTCTC 2 cut(s) 375, 441
Bsp1286I GDGCHC 1 cut(s) 254
Bsp143I GATC 2 cut(s) 642, 699
Bsp19I CCATGG 1 cut(s) 370
BspANI GGCC 2 cut(s) 170, 1029
BspCNI CTCAG 1 cut(s) 247
BspFNI CGCG 2 cut(s) 173, 1032
BspLI GGNNCC 4 cut(s) 251, 479, 526, 717
BspQI GCTCTTC 1 cut(s) 521
BspT107I GGYRCC 3 cut(s) 249, 524, 715
BspTNI GGTCTC 2 cut(s) 375, 441
BsrDI GCAATG 2 cut(s) 214, 266
BssECI CCNNGG 4 cut(s) 171, 370, 939, 1030
BssMI GATC 2 cut(s) 642, 699
BssT1I CCWWGG 1 cut(s) 370
Bst2UI CCWGG 1 cut(s) 312
Bst4CI ACNGT 2 cut(s) 556, 851
Bst6I CTCTTC 2 cut(s) 455, 521
BstC8I GCNNGC 3 cut(s) 377, 512, 833
BstDEI CTNAG 3 cut(s) 233, 255, 812
BstDSI CCRYGG 3 cut(s) 171, 370, 1030
BstF5I GGATG 5 cut(s) 32, 414, 553, 1026, 1030
BstFNI CGCG 2 cut(s) 173, 1032
BstHHI GCGC 2 cut(s) 617, 1013
BstKTI GATC 2 cut(s) 645, 702
BstMAI GTCTC 3 cut(s) 375, 401, 441
BstMBI GATC 2 cut(s) 642, 699
BstMCI CGRYCG 1 cut(s) 562
BstMWI GCNNNNNNNGC 1 cut(s) 282
BstNI CCWGG 1 cut(s) 312
BstNSI RCATGY 1 cut(s) 285
BstPAI GACNNNNGTC 1 cut(s) 393
BstSCI CCNGG 1 cut(s) 310
BstSFI CTRYAG 2 cut(s) 486, 669
BstSLI GKGCMC 1 cut(s) 254
BstUI CGCG 2 cut(s) 173, 1032
BstV1I GCAGC 1 cut(s) 99
BsuI GTATCC 1 cut(s) 503
BsuRI GGCC 2 cut(s) 170, 1029
BtgI CCRYGG 3 cut(s) 171, 370, 1030
BtsCI GGATG 5 cut(s) 32, 414, 553, 1026, 1030
BtsI GCAGTG 1 cut(s) 714
BtsIMutI CAGTG 1 cut(s) 714
Cac8I GCNNGC 3 cut(s) 377, 512, 833
CaiI CAGNNNCTG 1 cut(s) 317
CfoI GCGC 2 cut(s) 617, 1013
Cfr13I GGNCC 1 cut(s) 478
Cfr42I CCGCGG 2 cut(s) 174, 1033
CseI GACGC 1 cut(s) 265
CsiI ACCWGGT 1 cut(s) 310
Csp6I GTAC 1 cut(s) 999
CviAII CATG 2 cut(s) 282, 371
CviJI RGCY 8 cut(s) 170, 232, 514, 575, 597, 683, 795, 1029
CviKI_1 RGCY 8 cut(s) 170, 232, 514, 575, 597, 683, 795, 1029
CviQI GTAC 1 cut(s) 999
DdeI CTNAG 3 cut(s) 233, 255, 812
DpnI GATC 2 cut(s) 644, 701
DpnII GATC 2 cut(s) 642, 699
EaeI YGGCCR 1 cut(s) 1027
Eam1104I CTCTTC 2 cut(s) 455, 521
EarI CTCTTC 2 cut(s) 455, 521
Eco130I CCWWGG 1 cut(s) 370
Eco31I GGTCTC 2 cut(s) 375, 441
Eco47I GGWCC 1 cut(s) 478
Eco57I CTGAAG 1 cut(s) 705
EcoRII CCWGG 1 cut(s) 310
EcoT14I CCWWGG 1 cut(s) 370
ErhI CCWWGG 1 cut(s) 370
FaeI CATG 2 cut(s) 285, 374
FalI AAGNNNNNCTT 2 cut(s) 452, 484
FaqI GGGAC 2 cut(s) 273, 479
FatI CATG 2 cut(s) 281, 370
FauI CCCGC 1 cut(s) 166
FblI GTMKAC 1 cut(s) 558
Fnu4HI GCNGC 3 cut(s) 113, 171, 1030
FokI GGATG 5 cut(s) 19, 401, 560, 1033, 1037
Fsp4HI GCNGC 3 cut(s) 113, 171, 1030
FspBI CTAG 9 cut(s) 243, 333, 572, 836, 927, 957, 975, 996, 1014
GlaI GCGC 2 cut(s) 616, 1012
GluI GCNGC 3 cut(s) 113, 171, 1030
GsuI CTGGAG 1 cut(s) 248
HaeIII GGCC 2 cut(s) 170, 1029
HgaI GACGC 1 cut(s) 265
HhaI GCGC 2 cut(s) 617, 1013
Hin1II CATG 2 cut(s) 285, 374
Hin6I GCGC 2 cut(s) 615, 1011
HinP1I GCGC 2 cut(s) 615, 1011
HincII GTYRAC 2 cut(s) 271, 559
HindII GTYRAC 2 cut(s) 271, 559
HinfI GANTC 5 cut(s) 186, 407, 636, 734, 971
Hpy166II GTNNAC 3 cut(s) 66, 271, 559
Hpy188I TCNGA 4 cut(s) 166, 406, 440, 943
Hpy188III TCNNGA 5 cut(s) 227, 640, 697, 874, 886
Hpy8I GTNNAC 3 cut(s) 66, 271, 559
Hpy99I CGWCG 2 cut(s) 560, 587
HpyAV CCTTC 6 cut(s) 144, 156, 168, 370, 605, 680
HpyCH4III ACNGT 2 cut(s) 556, 851
HpyCH4V TGCA 3 cut(s) 195, 285, 303
HpyF10VI GCNNNNNNNGC 1 cut(s) 282
HpyF3I CTNAG 3 cut(s) 233, 255, 812
Hsp92II CATG 2 cut(s) 285, 374
HspAI GCGC 2 cut(s) 615, 1011
KspI CCGCGG 2 cut(s) 174, 1033
Kzo9I GATC 2 cut(s) 642, 699
LguI GCTCTTC 1 cut(s) 521
LmnI GCTCC 2 cut(s) 229, 651
LpnPI CCDG 8 cut(s) 21, 212, 267, 297, 324, 733, 749, 906
Lsp1109I GCAGC 1 cut(s) 99
LweI GCATC 2 cut(s) 879, 939
MabI ACCWGGT 1 cut(s) 310
MaeI CTAG 9 cut(s) 243, 333, 572, 836, 927, 957, 975, 996, 1014
MaeIII GTNAC 2 cut(s) 277, 296
MalI GATC 2 cut(s) 644, 701
MboI GATC 2 cut(s) 642, 699
MboII GAAGA 2 cut(s) 472, 508
MhlI GDGCHC 1 cut(s) 254
MluCI AATT 3 cut(s) 675, 914, 1006
MlyI GAGTC 4 cut(s) 195, 630, 743, 980
MmeI TCCRAC 1 cut(s) 435
MnlI CCTC 9 cut(s) 15, 160, 222, 456, 506, 547, 760, 949, 1041
MseI TTAA 1 cut(s) 825
MslI CAYNNNNRTG 2 cut(s) 219, 750
MspA1I CMGCKG 3 cut(s) 112, 173, 1032
MspR9I CCNGG 1 cut(s) 312
MvaI CCWGG 1 cut(s) 312
MvnI CGCG 2 cut(s) 173, 1032
MwoI GCNNNNNNNGC 1 cut(s) 282
NcoI CCATGG 1 cut(s) 370
NdeII GATC 2 cut(s) 642, 699
NlaIII CATG 2 cut(s) 285, 374
NlaIV GGNNCC 4 cut(s) 251, 479, 526, 717
NmuCI GTSAC 1 cut(s) 277
NspI RCATGY 1 cut(s) 285
PciSI GCTCTTC 1 cut(s) 521
PfeI GAWTC 1 cut(s) 407
PflFI GACNNNGTC 2 cut(s) 275, 554
PkrI GCNGC 3 cut(s) 114, 172, 1031
PleI GAGTC 4 cut(s) 194, 630, 742, 979
PpsI GAGTC 4 cut(s) 194, 630, 742, 979
PshAI GACNNNNGTC 1 cut(s) 393
Psp6I CCWGG 1 cut(s) 310
PspGI CCWGG 1 cut(s) 310
PspN4I GGNNCC 4 cut(s) 251, 479, 526, 717
PspPI GGNCC 1 cut(s) 478
PstNI CAGNNNCTG 1 cut(s) 317
PsyI GACNNNGTC 2 cut(s) 275, 554
RsaI GTAC 1 cut(s) 1000
RsaNI GTAC 1 cut(s) 999
RseI CAYNNNNRTG 2 cut(s) 219, 750
SacII CCGCGG 2 cut(s) 174, 1033
SalI GTCGAC 1 cut(s) 557
SapI GCTCTTC 1 cut(s) 521
SaqAI TTAA 1 cut(s) 825
SatI GCNGC 3 cut(s) 113, 171, 1030
Sau3AI GATC 2 cut(s) 642, 699
Sau96I GGNCC 1 cut(s) 478
ScaI AGTACT 1 cut(s) 1000
SchI GAGTC 4 cut(s) 195, 630, 743, 980
ScrFI CCNGG 1 cut(s) 312
SduI GDGCHC 1 cut(s) 254
SexAI ACCWGGT 1 cut(s) 310
SfaNI GCATC 2 cut(s) 879, 939
SfcI CTRYAG 2 cut(s) 486, 669
Sfr303I CCGCGG 2 cut(s) 174, 1033
SgrBI CCGCGG 2 cut(s) 174, 1033
SinI GGWCC 1 cut(s) 478
SmiMI CAYNNNNRTG 2 cut(s) 219, 750
SmlI CTYRAG 2 cut(s) 638, 790
SmoI CTYRAG 2 cut(s) 638, 790
Sse9I AATT 3 cut(s) 675, 914, 1006
SspMI CTAG 9 cut(s) 243, 333, 572, 836, 927, 957, 975, 996, 1014
StyD4I CCNGG 1 cut(s) 310
StyI CCWWGG 1 cut(s) 370
TaaI ACNGT 2 cut(s) 556, 851
TaqI TCGA 1 cut(s) 558
TasI AATT 3 cut(s) 675, 914, 1006
TatI WGTACW 1 cut(s) 998
TauI GCSGC 2 cut(s) 173, 1032
TfiI GAWTC 1 cut(s) 407
Tru1I TTAA 1 cut(s) 825
Tru9I TTAA 1 cut(s) 825
TscAI CASTG 1 cut(s) 714
TseFI GTSAC 1 cut(s) 277
TseI GCWGC 1 cut(s) 112
Tsp45I GTSAC 1 cut(s) 277
TspDTI ATGAA 6 cut(s) 150, 424, 473, 508, 909, 1019
TspGWI ACGGA 1 cut(s) 740
TspRI CASTG 1 cut(s) 714
Tth111I GACNNNGTC 2 cut(s) 275, 554
VpaK11BI GGWCC 1 cut(s) 478
XapI RAATTY 1 cut(s) 914
XceI RCATGY 1 cut(s) 285
XcmI CCANNNNNNNNNTGG 1 cut(s) 540
XmiI GTMKAC 1 cut(s) 558
XspI CTAG 9 cut(s) 243, 333, 572, 836, 927, 957, 975, 996, 1014
ZrmI AGTACT 1 cut(s) 1000
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.