Rroxscaffold_1G00025530

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0002618
Physical Location & Seq
Reverse (-)
32030277 .. 32030894
618 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00025530.1

Sequence Viewer

Length: 618 bp
ATGGGGAGAGACTTCACTTGGGTCCAGTCTCTAGGTATCCTCTTCGACAACCGCAAGCTCTTCATTGGTGCCAAACCAACCTCCACTTGGGATGATACCGTCGACCGCTTAACCCTAGCCATCAACGACGAAACCATTAGCCTTCCCGACAATGAAGGCGCATATTGGCAATCACAAGGACTCAGCATCACAAGGAGCAAGAACACAAATGCTGTAGAAATCAAAGCCGAAGGGAACTTCAAGATTAAAGCTATAGTGGTGCCGATAACGGAGAAAGAGTCAGTGATACACAAGTATGGGATTACGAAGGAGGATTGTTTTGCTCACCTGGACTTGAGCTTCAAGTTTTATGCACTAAGTGAGGAAGTGAATGGCGTGTTAGGGCAAACGTACGGTGAGAACTATGTGAGTAGGGTTAAGATGGGTATTGTGATGCCTGTTTTGGGTGGCGATAAAGAATTTGCATCGTCTAGTATCTTTTCCTCTGATTGTTCTGTTGCTAGGTTTAGCGGTGAGTTCAGCGAAAGCAACGGTTCTGATCGAGAGATTTCCAAGTATGCTAATACTATGAATTGTGCTAGTGGGATGGATGGCCGTGGAGTTGTTTGTAATAGGTAA
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

205

Amino Acids

22.6

Weight (kDa)

5.16

Isoelectric Point (pI)

25.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 113 - 169 6.8e-28 Root cap
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 68, 259
AccI GTMKAC 1 cut(s) 102
AciI CCGC 3 cut(s) 52, 106, 510
AcoI YGGCCR 1 cut(s) 592
AcsI RAATTY 1 cut(s) 458
AdeI CACNNNGTG 1 cut(s) 359
AfaI GTAC 1 cut(s) 392
AfiI CCNNNNNNNGG 2 cut(s) 87, 443
AgsI TTSAA 2 cut(s) 241, 343
AjnI CCWGG 1 cut(s) 327
AluBI AGCT 3 cut(s) 58, 251, 339
AluI AGCT 3 cut(s) 58, 251, 339
Alw26I GTCTC 2 cut(s) 3, 33
AoxI GGCC 1 cut(s) 592
ApoI RAATTY 1 cut(s) 458
AspLEI GCGC 1 cut(s) 161
AspS9I GGNCC 1 cut(s) 22
AsuHPI GGTGA 3 cut(s) 317, 407, 524
AvaII GGWCC 1 cut(s) 22
BaeI ACNNNNGTAYC 2 cut(s) 278, 311
BanI GGYRCC 2 cut(s) 68, 259
BccI CCATC 4 cut(s) 128, 415, 580, 584
BceAI ACGGC 1 cut(s) 579
BciT130I CCWGG 1 cut(s) 329
BciVI GTATCC 1 cut(s) 47
BcoDI GTCTC 2 cut(s) 3, 33
BfaI CTAG 5 cut(s) 32, 116, 471, 501, 579
BfmI CTRYAG 2 cut(s) 213, 252
BfuI GTATCC 1 cut(s) 47
Bme1390I CCNGG 1 cut(s) 329
Bme18I GGWCC 1 cut(s) 22
BmgT120I GGNCC 1 cut(s) 22
BmiI GGNNCC 3 cut(s) 23, 70, 261
BmrFI CCNGG 1 cut(s) 329
BmsI GCATC 3 cut(s) 195, 423, 473
BpuEI CTTGAG 1 cut(s) 355
BsaJI CCNNGG 1 cut(s) 595
BsaXI ACNNNNNCTCC 2 cut(s) 263, 293
Bsc4I CCNNNNNNNGG 2 cut(s) 87, 443
Bse1I ACTGG 1 cut(s) 25
BseBI CCWGG 1 cut(s) 329
BseDI CCNNGG 1 cut(s) 595
BseGI GGATG 3 cut(s) 97, 591, 595
BseLI CCNNNNNNNGG 2 cut(s) 87, 443
BseMII CTCAG 1 cut(s) 196
BseNI ACTGG 1 cut(s) 25
Bsh1285I CGRYCG 1 cut(s) 106
BshFI GGCC 1 cut(s) 594
BshNI GGYRCC 2 cut(s) 68, 259
BsiEI CGRYCG 1 cut(s) 106
BsiWI CGTACG 1 cut(s) 390
BslI CCNNNNNNNGG 2 cut(s) 87, 443
BsmAI GTCTC 2 cut(s) 3, 33
BsnI GGCC 1 cut(s) 594
Bsp143I GATC 1 cut(s) 538
BspACI CCGC 3 cut(s) 52, 106, 510
BspANI GGCC 1 cut(s) 594
BspCNI CTCAG 1 cut(s) 195
BspLI GGNNCC 3 cut(s) 23, 70, 261
BspQI GCTCTTC 1 cut(s) 65
BspT107I GGYRCC 2 cut(s) 68, 259
BsrI ACTGG 1 cut(s) 25
BssECI CCNNGG 1 cut(s) 595
BssMI GATC 1 cut(s) 538
Bst2UI CCWGG 1 cut(s) 329
Bst4CI ACNGT 3 cut(s) 100, 395, 533
Bst6I CTCTTC 2 cut(s) 47, 65
BstC8I GCNNGC 1 cut(s) 56
BstDEI CTNAG 2 cut(s) 182, 356
BstDSI CCRYGG 1 cut(s) 595
BstF5I GGATG 3 cut(s) 97, 591, 595
BstHHI GCGC 1 cut(s) 161
BstKTI GATC 1 cut(s) 541
BstMAI GTCTC 2 cut(s) 3, 33
BstMBI GATC 1 cut(s) 538
BstMCI CGRYCG 1 cut(s) 106
BstNI CCWGG 1 cut(s) 329
BstSCI CCNGG 1 cut(s) 327
BstSFI CTRYAG 2 cut(s) 213, 252
BsuI GTATCC 1 cut(s) 47
BsuRI GGCC 1 cut(s) 594
BtgI CCRYGG 1 cut(s) 595
BtsCI GGATG 3 cut(s) 97, 591, 595
BtsIMutI CAGTG 1 cut(s) 288
Cac8I GCNNGC 1 cut(s) 56
CfoI GCGC 1 cut(s) 161
Cfr13I GGNCC 1 cut(s) 22
Csp6I GTAC 1 cut(s) 391
CviJI RGCY 7 cut(s) 58, 119, 141, 227, 251, 339, 594
CviKI_1 RGCY 7 cut(s) 58, 119, 141, 227, 251, 339, 594
CviQI GTAC 1 cut(s) 391
DdeI CTNAG 2 cut(s) 182, 356
DpnI GATC 1 cut(s) 540
DpnII GATC 1 cut(s) 538
DraIII CACNNNGTG 1 cut(s) 359
EaeI YGGCCR 1 cut(s) 592
Eam1104I CTCTTC 2 cut(s) 47, 65
EarI CTCTTC 2 cut(s) 47, 65
Eco47I GGWCC 1 cut(s) 22
EcoRII CCWGG 1 cut(s) 327
FaiI YATR 7 cut(s) 163, 254, 297, 351, 405, 558, 569
FblI GTMKAC 1 cut(s) 102
FokI GGATG 3 cut(s) 104, 598, 602
FspBI CTAG 5 cut(s) 32, 116, 471, 501, 579
GlaI GCGC 1 cut(s) 160
HaeIII GGCC 1 cut(s) 594
HhaI GCGC 1 cut(s) 161
Hin6I GCGC 1 cut(s) 159
HinP1I GCGC 1 cut(s) 159
HincII GTYRAC 1 cut(s) 103
HindII GTYRAC 1 cut(s) 103
HinfI GANTC 2 cut(s) 180, 278
HphI GGTGA 3 cut(s) 317, 407, 524
Hpy166II GTNNAC 1 cut(s) 103
Hpy188I TCNGA 2 cut(s) 487, 538
Hpy188III TCNNGA 3 cut(s) 146, 241, 542
Hpy8I GTNNAC 1 cut(s) 103
Hpy99I CGWCG 2 cut(s) 104, 131
HpyAV CCTTC 4 cut(s) 149, 152, 224, 301
HpyCH4III ACNGT 3 cut(s) 100, 395, 533
HpyCH4IV ACGT 1 cut(s) 389
HpyCH4V TGCA 2 cut(s) 353, 464
HpyF3I CTNAG 2 cut(s) 182, 356
HpySE526I ACGT 1 cut(s) 389
HspAI GCGC 1 cut(s) 159
Kzo9I GATC 1 cut(s) 538
LguI GCTCTTC 1 cut(s) 65
LmnI GCTCC 1 cut(s) 195
LpnPI CCDG 4 cut(s) 38, 314, 341, 450
LweI GCATC 3 cut(s) 195, 423, 473
MaeI CTAG 5 cut(s) 32, 116, 471, 501, 579
MaeII ACGT 1 cut(s) 389
MalI GATC 1 cut(s) 540
MboI GATC 1 cut(s) 538
MboII GAAGA 2 cut(s) 34, 52
MluCI AATT 2 cut(s) 458, 571
MlyI GAGTC 2 cut(s) 174, 287
MnlI CCTC 5 cut(s) 50, 91, 304, 355, 493
MseI TTAA 3 cut(s) 110, 246, 417
MslI CAYNNNNRTG 1 cut(s) 294
MspR9I CCNGG 1 cut(s) 329
MvaI CCWGG 1 cut(s) 329
NdeII GATC 1 cut(s) 538
NlaIV GGNNCC 3 cut(s) 23, 70, 261
PciSI GCTCTTC 1 cut(s) 65
Pfl23II CGTACG 1 cut(s) 390
PleI GAGTC 2 cut(s) 174, 286
PpsI GAGTC 2 cut(s) 174, 286
Psp6I CCWGG 1 cut(s) 327
PspGI CCWGG 1 cut(s) 327
PspLI CGTACG 1 cut(s) 390
PspN4I GGNNCC 3 cut(s) 23, 70, 261
PspPI GGNCC 1 cut(s) 22
RsaI GTAC 1 cut(s) 392
RsaNI GTAC 1 cut(s) 391
RseI CAYNNNNRTG 1 cut(s) 294
SalI GTCGAC 1 cut(s) 101
SapI GCTCTTC 1 cut(s) 65
SaqAI TTAA 3 cut(s) 110, 246, 417
Sau3AI GATC 1 cut(s) 538
Sau96I GGNCC 1 cut(s) 22
SchI GAGTC 2 cut(s) 174, 287
ScrFI CCNGG 1 cut(s) 329
SetI ASST 9 cut(s) 37, 60, 83, 253, 330, 341, 392, 506, 617
SfaNI GCATC 3 cut(s) 195, 423, 473
SfcI CTRYAG 2 cut(s) 213, 252
SinI GGWCC 1 cut(s) 22
SmiMI CAYNNNNRTG 1 cut(s) 294
SmlI CTYRAG 1 cut(s) 334
SmoI CTYRAG 1 cut(s) 334
Sse9I AATT 2 cut(s) 458, 571
SsiI CCGC 3 cut(s) 52, 106, 510
SspMI CTAG 5 cut(s) 32, 116, 471, 501, 579
StyD4I CCNGG 1 cut(s) 327
TaaI ACNGT 3 cut(s) 100, 395, 533
TaiI ACGT 1 cut(s) 392
TaqI TCGA 3 cut(s) 45, 102, 541
TasI AATT 2 cut(s) 458, 571
Tru1I TTAA 3 cut(s) 110, 246, 417
Tru9I TTAA 3 cut(s) 110, 246, 417
TscAI CASTG 1 cut(s) 288
TspDTI ATGAA 3 cut(s) 52, 168, 584
TspGWI ACGGA 1 cut(s) 284
TspRI CASTG 1 cut(s) 288
VpaK11BI GGWCC 1 cut(s) 22
XapI RAATTY 1 cut(s) 458
XcmI CCANNNNNNNNNTGG 1 cut(s) 84
XmiI GTMKAC 1 cut(s) 102
XspI CTAG 5 cut(s) 32, 116, 471, 501, 579
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.