Rroxscaffold_1G00020940

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0002778
Physical Location & Seq
Reverse (-)
25502400 .. 25503498
1099 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00020940.1

Sequence Viewer

Length: 903 bp
ATGCCTGCTATTACAAGACCCTTGTCTGTCCATCAGAATGCCCTCAGAGAAAGCCAAAGAAGAACAAGAAACACAAGGGTTGTTTCATCAACTGCGGCAACAAATGCGAAGTCACTTGCAAGTGTAAGAGCCTCCTTATCTAGTCTTCATTTCAACCCTTATTTTTCCTTTCTTCAGTTAAGCGGGAGGAAAGCCAAGTGTAATGGGTATGGTTCTCTCTGCTATGATCCAAGGTTTGTAGGCGGTGATGGTGTAATGTTCTACTTCCATGGAGCAAAAGGAGGAAACTTTGCCATTGTTTCAGATAACAACCTCCAAATCAATGCACACTTCATTGGAACTCGACCACTAGGAAGGACTCGCGACTTCACATGGGTTCAAGCCCTCTCAATCATGTTCGACACTCACACCCTTGTAATTGCAGCAAAGAGAGTCTCAGAGTGGGATGACAAAGTTGACGCTCTCATGGTAAAGTGGGATGGTGAGTCCGTCAGCATCCCAACTGATGGAGAAGCCGAATGGAGGATCATGGCCGAAGGAAGAGAAGTAATAGTTGAAAGAACCGATGATAGAAACTACGTAAGAGTTACAGTTTCAGGGCTGGTAGAGATGGACATAAGGGTCAGGCCTATTGGAGCAGAAGAAAACAAGGTTCACAACTACCAAATACCATCAGATGATACTTTTGCTCACTTAGAGACACAATTCAGGTTTTCCAACTTATCTGATCTTGTGGAAGGAGTTTTGGGAAAGACTTACAGGCCAGGCTATGTTAGTCCAGTTAAGGTTGGAGTTCCGATGCCAATGATGGGCGGAGAGGACAAGTACGAAACTCCATCACTCTTTTCACCTCTCTGCAAGGTTTGCAGGTTCCAAAGGCAATCTGGACTTGCTCAATACTGA
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

300

Amino Acids

33.6

Weight (kDa)

8.83

Isoelectric Point (pI)

25.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 235 - 291 1.4e-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)
AasI GACNNNNNNGTC 1 cut(s) 620
Acc36I ACCTGC 1 cut(s) 858
AccB7I CCANNNNNTGG 1 cut(s) 506
AccII CGCG 1 cut(s) 363
AciI CCGC 4 cut(s) 95, 183, 243, 813
AclWI GGATC 2 cut(s) 221, 533
AcoI YGGCCR 1 cut(s) 531
AcuI CTGAAG 1 cut(s) 158
AfaI GTAC 1 cut(s) 827
AfiI CCNNNNNNNGG 3 cut(s) 506, 522, 809
AgsI TTSAA 3 cut(s) 154, 380, 557
AjnI CCWGG 1 cut(s) 763
Alw26I GTCTC 2 cut(s) 439, 692
AlwI GGATC 2 cut(s) 221, 533
AoxI GGCC 3 cut(s) 531, 626, 761
ApeKI GCWGC 1 cut(s) 422
ArsI GACNNNNNNTTYG 2 cut(s) 95, 127
AsuHPI GGTGA 3 cut(s) 257, 494, 840
BbsI GAAGAC 1 cut(s) 137
BbvI GCAGC 1 cut(s) 434
BccI CCATC 8 cut(s) 39, 242, 473, 500, 604, 679, 802, 844
BciT130I CCWGG 1 cut(s) 765
BcoDI GTCTC 2 cut(s) 439, 692
BfaI CTAG 2 cut(s) 141, 350
BfuAI ACCTGC 1 cut(s) 858
BisI GCNGC 2 cut(s) 96, 423
BlsI GCNGC 2 cut(s) 97, 424
Bme1390I CCNGG 1 cut(s) 765
BmiI GGNNCC 1 cut(s) 872
BmrFI CCNGG 1 cut(s) 765
BmsI GCATC 2 cut(s) 504, 789
BoxI GACNNNNGTC 1 cut(s) 22
BpiI GAAGAC 1 cut(s) 137
BsaAI YACGTR 1 cut(s) 580
BsaJI CCNNGG 2 cut(s) 230, 268
Bsc4I CCNNNNNNNGG 3 cut(s) 506, 522, 809
Bse1I ACTGG 1 cut(s) 779
BseBI CCWGG 1 cut(s) 765
BseDI CCNNGG 2 cut(s) 230, 268
BseGI GGATG 3 cut(s) 451, 484, 495
BseLI CCNNNNNNNGG 3 cut(s) 506, 522, 809
BseMII CTCAG 2 cut(s) 58, 450
BseNI ACTGG 1 cut(s) 779
BseXI GCAGC 1 cut(s) 434
Bsh1236I CGCG 1 cut(s) 363
BshFI GGCC 3 cut(s) 533, 628, 763
BslI CCNNNNNNNGG 3 cut(s) 506, 522, 809
BsmAI GTCTC 2 cut(s) 439, 692
BsmI GAATGC 1 cut(s) 43
BsnI GGCC 3 cut(s) 533, 628, 763
Bsp143I GATC 3 cut(s) 226, 525, 727
Bsp19I CCATGG 1 cut(s) 268
Bsp68I TCGCGA 1 cut(s) 363
BspACI CCGC 4 cut(s) 95, 183, 243, 813
BspANI GGCC 3 cut(s) 533, 628, 763
BspCNI CTCAG 2 cut(s) 57, 449
BspFNI CGCG 1 cut(s) 363
BspLI GGNNCC 1 cut(s) 872
BspMI ACCTGC 1 cut(s) 858
BspPI GGATC 2 cut(s) 221, 533
BsrI ACTGG 1 cut(s) 779
BssECI CCNNGG 2 cut(s) 230, 268
BssMI GATC 3 cut(s) 226, 525, 727
BssT1I CCWWGG 2 cut(s) 230, 268
Bst2UI CCWGG 1 cut(s) 765
Bst4CI ACNGT 1 cut(s) 592
Bst6I CTCTTC 1 cut(s) 535
BstAPI GCANNNNNTGC 2 cut(s) 104, 864
BstBAI YACGTR 1 cut(s) 580
BstC8I GCNNGC 1 cut(s) 6
BstDEI CTNAG 3 cut(s) 44, 436, 694
BstDSI CCRYGG 1 cut(s) 268
BstF5I GGATG 3 cut(s) 451, 484, 495
BstFNI CGCG 1 cut(s) 363
BstKTI GATC 3 cut(s) 229, 528, 730
BstMAI GTCTC 2 cut(s) 439, 692
BstMBI GATC 3 cut(s) 226, 525, 727
BstMWI GCNNNNNNNGC 2 cut(s) 104, 864
BstNI CCWGG 1 cut(s) 765
BstPAI GACNNNNGTC 1 cut(s) 22
BstSCI CCNGG 1 cut(s) 763
BstSNI TACGTA 1 cut(s) 580
BstUI CGCG 1 cut(s) 363
BstV1I GCAGC 1 cut(s) 434
BstV2I GAAGAC 1 cut(s) 137
BsuRI GGCC 3 cut(s) 533, 628, 763
BtgI CCRYGG 1 cut(s) 268
BtsCI GGATG 3 cut(s) 451, 484, 495
BtuMI TCGCGA 1 cut(s) 363
BveI ACCTGC 1 cut(s) 858
Cac8I GCNNGC 1 cut(s) 6
CseI GACGC 1 cut(s) 467
Csp6I GTAC 1 cut(s) 826
CviAII CATG 5 cut(s) 269, 372, 394, 466, 529
CviQI GTAC 1 cut(s) 826
DdeI CTNAG 3 cut(s) 44, 436, 694
DpnI GATC 3 cut(s) 228, 527, 729
DpnII GATC 3 cut(s) 226, 525, 727
DrdI GACNNNNNNGTC 1 cut(s) 620
DseDI GACNNNNNNGTC 1 cut(s) 620
EaeI YGGCCR 1 cut(s) 531
Eam1104I CTCTTC 1 cut(s) 535
EarI CTCTTC 1 cut(s) 535
EciI GGCGGA 1 cut(s) 828
Eco105I TACGTA 1 cut(s) 580
Eco130I CCWWGG 2 cut(s) 230, 268
Eco147I AGGCCT 1 cut(s) 628
Eco57I CTGAAG 1 cut(s) 158
EcoRII CCWGG 1 cut(s) 763
EcoT14I CCWWGG 2 cut(s) 230, 268
ErhI CCWWGG 2 cut(s) 230, 268
FaeI CATG 5 cut(s) 272, 375, 397, 469, 532
FaiI YATR 9 cut(s) 210, 225, 270, 373, 395, 467, 530, 617, 771
FatI CATG 5 cut(s) 268, 371, 393, 465, 528
FauI CCCGC 1 cut(s) 176
Fnu4HI GCNGC 2 cut(s) 96, 423
FokI GGATG 3 cut(s) 458, 482, 491
Fsp4HI GCNGC 2 cut(s) 96, 423
FspBI CTAG 2 cut(s) 141, 350
GluI GCNGC 2 cut(s) 96, 423
HaeIII GGCC 3 cut(s) 533, 628, 763
HgaI GACGC 1 cut(s) 467
Hin1II CATG 5 cut(s) 272, 375, 397, 469, 532
HincII GTYRAC 1 cut(s) 457
HindII GTYRAC 1 cut(s) 457
HinfI GANTC 3 cut(s) 358, 432, 485
HphI GGTGA 3 cut(s) 257, 494, 840
Hpy166II GTNNAC 2 cut(s) 457, 655
Hpy188I TCNGA 7 cut(s) 36, 47, 304, 439, 676, 727, 798
Hpy188III TCNNGA 2 cut(s) 362, 885
Hpy8I GTNNAC 2 cut(s) 457, 655
HpyAV CCTTC 3 cut(s) 348, 530, 731
HpyCH4III ACNGT 1 cut(s) 592
HpyCH4IV ACGT 1 cut(s) 579
HpyCH4V TGCA 5 cut(s) 119, 326, 422, 858, 867
HpyF10VI GCNNNNNNNGC 2 cut(s) 104, 864
HpyF3I CTNAG 3 cut(s) 44, 436, 694
HpySE526I ACGT 1 cut(s) 579
Hsp92II CATG 5 cut(s) 272, 375, 397, 469, 532
Kzo9I GATC 3 cut(s) 226, 525, 727
LmnI GCTCC 2 cut(s) 272, 635
Lsp1109I GCAGC 1 cut(s) 434
LweI GCATC 2 cut(s) 504, 789
MaeI CTAG 2 cut(s) 141, 350
MaeII ACGT 1 cut(s) 579
MaeIII GTNAC 2 cut(s) 111, 586
MalI GATC 3 cut(s) 228, 527, 729
MboI GATC 3 cut(s) 226, 525, 727
MboII GAAGA 5 cut(s) 72, 137, 164, 552, 653
MluCI AATT 2 cut(s) 417, 704
MlyI GAGTC 3 cut(s) 352, 441, 494
MmeI TCCRAC 2 cut(s) 741, 769
MnlI CCTC 9 cut(s) 53, 142, 180, 275, 323, 395, 516, 811, 861
MseI TTAA 2 cut(s) 179, 783
MslI CAYNNNNRTG 1 cut(s) 36
MspR9I CCNGG 1 cut(s) 765
Mva1269I GAATGC 1 cut(s) 43
MvaI CCWGG 1 cut(s) 765
MvnI CGCG 1 cut(s) 363
MwoI GCNNNNNNNGC 2 cut(s) 104, 864
NcoI CCATGG 1 cut(s) 268
NdeII GATC 3 cut(s) 226, 525, 727
NlaIII CATG 5 cut(s) 272, 375, 397, 469, 532
NlaIV GGNNCC 1 cut(s) 872
NmuCI GTSAC 1 cut(s) 111
NruI TCGCGA 1 cut(s) 363
PceI AGGCCT 1 cut(s) 628
PctI GAATGC 1 cut(s) 43
PflMI CCANNNNNTGG 1 cut(s) 506
PkrI GCNGC 2 cut(s) 97, 424
PleI GAGTC 3 cut(s) 352, 440, 493
PpsI GAGTC 3 cut(s) 352, 440, 493
Ppu21I YACGTR 1 cut(s) 580
PshAI GACNNNNGTC 1 cut(s) 22
Psp6I CCWGG 1 cut(s) 763
PspGI CCWGG 1 cut(s) 763
PspN4I GGNNCC 1 cut(s) 872
RruI TCGCGA 1 cut(s) 363
RsaI GTAC 1 cut(s) 827
RsaNI GTAC 1 cut(s) 826
RseI CAYNNNNRTG 1 cut(s) 36
SaqAI TTAA 2 cut(s) 179, 783
SatI GCNGC 2 cut(s) 96, 423
Sau3AI GATC 3 cut(s) 226, 525, 727
SchI GAGTC 3 cut(s) 352, 441, 494
ScrFI CCNGG 1 cut(s) 765
SetI ASST 9 cut(s) 236, 315, 582, 654, 713, 789, 853, 864, 872
SfaNI GCATC 2 cut(s) 504, 789
SmiMI CAYNNNNRTG 1 cut(s) 36
SnaBI TACGTA 1 cut(s) 580
Sse9I AATT 2 cut(s) 417, 704
SseBI AGGCCT 1 cut(s) 628
SsiI CCGC 4 cut(s) 95, 183, 243, 813
SspMI CTAG 2 cut(s) 141, 350
StuI AGGCCT 1 cut(s) 628
StyD4I CCNGG 1 cut(s) 763
StyI CCWWGG 2 cut(s) 230, 268
TaaI ACNGT 1 cut(s) 592
TaiI ACGT 1 cut(s) 582
TaqI TCGA 2 cut(s) 343, 399
TasI AATT 2 cut(s) 417, 704
TauI GCSGC 1 cut(s) 98
Tru1I TTAA 2 cut(s) 179, 783
Tru9I TTAA 2 cut(s) 179, 783
TseFI GTSAC 1 cut(s) 111
TseI GCWGC 1 cut(s) 422
Tsp45I GTSAC 1 cut(s) 111
TspDTI ATGAA 3 cut(s) 75, 137, 322
TspGWI ACGGA 1 cut(s) 478
Van91I CCANNNNNTGG 1 cut(s) 506
XcmI CCANNNNNNNNNTGG 1 cut(s) 881
XspI CTAG 2 cut(s) 141, 350
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.