Rw5G022170

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0006038
Physical Location & Seq
Reverse (-)
30447704 .. 30448475
772 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G022170.1

Sequence Viewer

Length: 486 bp
ATGGCCCTGGATCAGCATGCCTGGACCCTCGCTTCATTGGTGGAAACTTCTATTAGAGTGGAGAGGACTTCGAGCAAAAACAGTGTCTTAGTCACTCTCCCAGAAGTTGCTGAAATTTCAGTCAATGTGGTACCTGTGATAAAGGAAGATGATAAGATCCACAATTATCAAATACCATCGGATGACTGTTTTGCTCACCTGGAAGTACAGTTCAGATTCTACGGTCTGTCATCAAATGTTGAAGGAGTACTTGGAAGGACTTACCAGCCAGATTTCAAGAACCCGGCAAAGGCTGGAGTAGCGATGCCGGTAGTTGGAGGTGAATACAAGTACAAAACAACATCACTGGTCTCTGCGGATTGTTTTGCTTGTGTGTTCACTCAGACCGGGATGTTGGATCAGACGGATTCAAGAGTGATGGATTACGGAAAGCTAGACTGCACCGGTACCACCTTCAGTGGGAATGGAATAGTTTGCAGGAAGTAA
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

161

Amino Acids

17.68

Weight (kDa)

5.31

Isoelectric Point (pI)

25.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 70 - 126 3e-26 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)
Acc65I GGTACC 2 cut(s) 130, 446
AccB1I GGYRCC 2 cut(s) 130, 446
AciI CCGC 1 cut(s) 356
AclWI GGATC 3 cut(s) 18, 151, 405
AcsI RAATTY 1 cut(s) 114
AcuI CTGAAG 1 cut(s) 439
AfaI GTAC 5 cut(s) 132, 207, 249, 332, 448
AfiI CCNNNNNNNGG 3 cut(s) 289, 314, 459
AgeI ACCGGT 1 cut(s) 443
AgsI TTSAA 3 cut(s) 242, 277, 411
AjnI CCWGG 3 cut(s) 6, 20, 198
AjuI GAANNNNNNNTTGG 2 cut(s) 234, 266
AloI GAACNNNNNNTCC 2 cut(s) 194, 226
AluBI AGCT 1 cut(s) 433
AluI AGCT 1 cut(s) 433
Alw26I GTCTC 1 cut(s) 355
AlwI GGATC 3 cut(s) 18, 151, 405
AoxI GGCC 1 cut(s) 3
ApoI RAATTY 1 cut(s) 114
ArsI GACNNNNNNTTYG 2 cut(s) 69, 101
AsiGI ACCGGT 1 cut(s) 443
Asp718I GGTACC 2 cut(s) 130, 446
AspS9I GGNCC 2 cut(s) 4, 24
AsuC2I CCSGG 2 cut(s) 284, 388
AsuHPI GGTGA 2 cut(s) 188, 332
AvaII GGWCC 1 cut(s) 24
BanI GGYRCC 2 cut(s) 130, 446
BccI CCATC 2 cut(s) 184, 412
BciT130I CCWGG 3 cut(s) 8, 22, 200
BcnI CCSGG 2 cut(s) 284, 388
BcoDI GTCTC 1 cut(s) 355
BfaI CTAG 1 cut(s) 434
BmcAI AGTACT 1 cut(s) 249
Bme1390I CCNGG 5 cut(s) 8, 22, 200, 284, 388
Bme18I GGWCC 1 cut(s) 24
BmgT120I GGNCC 2 cut(s) 4, 24
BmiI GGNNCC 3 cut(s) 26, 132, 448
BmrFI CCNGG 5 cut(s) 8, 22, 200, 284, 388
BmsI GCATC 1 cut(s) 294
BpmI CTGGAG 1 cut(s) 315
BpuMI CCSGG 2 cut(s) 284, 388
BsaI GGTCTC 1 cut(s) 355
BsaJI CCNNGG 1 cut(s) 6
BsaWI WCCGGW 1 cut(s) 443
Bsc4I CCNNNNNNNGG 3 cut(s) 289, 314, 459
Bse118I RCCGGY 2 cut(s) 307, 443
Bse1I ACTGG 1 cut(s) 351
BseBI CCWGG 3 cut(s) 8, 22, 200
BseDI CCNNGG 1 cut(s) 6
BseGI GGATG 2 cut(s) 187, 396
BseLI CCNNNNNNNGG 3 cut(s) 289, 314, 459
BseMII CTCAG 1 cut(s) 395
BseNI ACTGG 1 cut(s) 351
BsgI GTGCAG 1 cut(s) 424
BshFI GGCC 1 cut(s) 5
BshNI GGYRCC 2 cut(s) 130, 446
BshTI ACCGGT 1 cut(s) 443
BsiSI CCGG 4 cut(s) 284, 308, 387, 444
BslI CCNNNNNNNGG 3 cut(s) 289, 314, 459
BsmAI GTCTC 1 cut(s) 355
BsnI GGCC 1 cut(s) 5
Bso31I GGTCTC 1 cut(s) 355
Bsp143I GATC 3 cut(s) 10, 156, 397
BspACI CCGC 1 cut(s) 356
BspANI GGCC 1 cut(s) 5
BspCNI CTCAG 1 cut(s) 394
BspLI GGNNCC 3 cut(s) 26, 132, 448
BspPI GGATC 3 cut(s) 18, 151, 405
BspT107I GGYRCC 2 cut(s) 130, 446
BspTNI GGTCTC 1 cut(s) 355
BsrFI RCCGGY 2 cut(s) 307, 443
BsrI ACTGG 1 cut(s) 351
BssAI RCCGGY 2 cut(s) 307, 443
BssECI CCNNGG 1 cut(s) 6
BssMI GATC 3 cut(s) 10, 156, 397
Bst2UI CCWGG 3 cut(s) 8, 22, 200
Bst4CI ACNGT 4 cut(s) 83, 188, 210, 224
BstC8I GCNNGC 1 cut(s) 18
BstDEI CTNAG 2 cut(s) 88, 381
BstF5I GGATG 2 cut(s) 187, 396
BstKTI GATC 3 cut(s) 13, 159, 400
BstMAI GTCTC 1 cut(s) 355
BstMBI GATC 3 cut(s) 10, 156, 397
BstMWI GCNNNNNNNGC 1 cut(s) 299
BstNI CCWGG 3 cut(s) 8, 22, 200
BstNSI RCATGY 1 cut(s) 20
BstSCI CCNGG 5 cut(s) 6, 20, 198, 282, 386
BstX2I RGATCY 1 cut(s) 156
BstYI RGATCY 1 cut(s) 156
BsuRI GGCC 1 cut(s) 5
BtgZI GCGATG 1 cut(s) 317
BtsCI GGATG 2 cut(s) 187, 396
BtsIMutI CAGTG 3 cut(s) 88, 344, 463
Cac8I GCNNGC 1 cut(s) 18
Cfr10I RCCGGY 2 cut(s) 307, 443
Cfr13I GGNCC 2 cut(s) 4, 24
Csp6I GTAC 5 cut(s) 131, 206, 248, 331, 447
CspAI ACCGGT 1 cut(s) 443
CviAII CATG 1 cut(s) 17
CviJI RGCY 4 cut(s) 5, 268, 293, 433
CviKI_1 RGCY 4 cut(s) 5, 268, 293, 433
CviQI GTAC 5 cut(s) 131, 206, 248, 331, 447
DdeI CTNAG 2 cut(s) 88, 381
DpnI GATC 3 cut(s) 12, 158, 399
DpnII GATC 3 cut(s) 10, 156, 397
Eco31I GGTCTC 1 cut(s) 355
Eco47I GGWCC 1 cut(s) 24
Eco57I CTGAAG 1 cut(s) 439
EcoRII CCWGG 3 cut(s) 6, 20, 198
FaeI CATG 1 cut(s) 20
FaiI YATR 1 cut(s) 18
FalI AAGNNNNNCTT 2 cut(s) 234, 266
FatI CATG 1 cut(s) 16
FokI GGATG 2 cut(s) 194, 403
FspBI CTAG 1 cut(s) 434
GsuI CTGGAG 1 cut(s) 315
HaeIII GGCC 1 cut(s) 5
HapII CCGG 4 cut(s) 284, 308, 387, 444
Hin1II CATG 1 cut(s) 20
HinfI GANTC 2 cut(s) 216, 407
HpaII CCGG 4 cut(s) 284, 308, 387, 444
HphI GGTGA 2 cut(s) 188, 332
Hpy166II GTNNAC 1 cut(s) 378
Hpy188I TCNGA 4 cut(s) 181, 215, 384, 402
Hpy188III TCNNGA 2 cut(s) 277, 411
Hpy8I GTNNAC 1 cut(s) 378
HpyAV CCTTC 3 cut(s) 236, 249, 463
HpyCH4III ACNGT 4 cut(s) 83, 188, 210, 224
HpyCH4V TGCA 2 cut(s) 441, 477
HpyF10VI GCNNNNNNNGC 1 cut(s) 299
HpyF3I CTNAG 2 cut(s) 88, 381
Hsp92II CATG 1 cut(s) 20
KpnI GGTACC 2 cut(s) 134, 450
Kzo9I GATC 3 cut(s) 10, 156, 397
LweI GCATC 1 cut(s) 294
MaeI CTAG 1 cut(s) 434
MaeIII GTNAC 1 cut(s) 91
MalI GATC 3 cut(s) 12, 158, 399
MboI GATC 3 cut(s) 10, 156, 397
MboII GAAGA 1 cut(s) 158
MflI RGATCY 1 cut(s) 156
MluCI AATT 2 cut(s) 114, 163
MmeI TCCRAC 2 cut(s) 295, 375
MnlI CCTC 3 cut(s) 38, 57, 311
MspI CCGG 4 cut(s) 284, 308, 387, 444
MspR9I CCNGG 5 cut(s) 8, 22, 200, 284, 388
MvaI CCWGG 3 cut(s) 8, 22, 200
MwoI GCNNNNNNNGC 1 cut(s) 299
NciI CCSGG 2 cut(s) 284, 388
NdeII GATC 3 cut(s) 10, 156, 397
NlaIII CATG 1 cut(s) 20
NlaIV GGNNCC 3 cut(s) 26, 132, 448
NmuCI GTSAC 1 cut(s) 91
NspI RCATGY 1 cut(s) 20
PaeI GCATGC 1 cut(s) 20
PfeI GAWTC 2 cut(s) 216, 407
PinAI ACCGGT 1 cut(s) 443
Psp6I CCWGG 3 cut(s) 6, 20, 198
PspGI CCWGG 3 cut(s) 6, 20, 198
PspN4I GGNNCC 3 cut(s) 26, 132, 448
PspPI GGNCC 2 cut(s) 4, 24
PsuI RGATCY 1 cut(s) 156
RsaI GTAC 5 cut(s) 132, 207, 249, 332, 448
RsaNI GTAC 5 cut(s) 131, 206, 248, 331, 447
Sau3AI GATC 3 cut(s) 10, 156, 397
Sau96I GGNCC 2 cut(s) 4, 24
ScaI AGTACT 1 cut(s) 249
ScrFI CCNGG 5 cut(s) 8, 22, 200, 284, 388
SetI ASST 5 cut(s) 136, 201, 322, 435, 455
SfaNI GCATC 1 cut(s) 294
SinI GGWCC 1 cut(s) 24
SphI GCATGC 1 cut(s) 20
Sse9I AATT 2 cut(s) 114, 163
SsiI CCGC 1 cut(s) 356
SspMI CTAG 1 cut(s) 434
StyD4I CCNGG 5 cut(s) 6, 20, 198, 282, 386
TaaI ACNGT 4 cut(s) 83, 188, 210, 224
TaqI TCGA 1 cut(s) 71
TasI AATT 2 cut(s) 114, 163
TatI WGTACW 3 cut(s) 205, 247, 330
TfiI GAWTC 2 cut(s) 216, 407
TscAI CASTG 3 cut(s) 88, 351, 463
TseFI GTSAC 1 cut(s) 91
Tsp45I GTSAC 1 cut(s) 91
TspDTI ATGAA 1 cut(s) 24
TspGWI ACGGA 2 cut(s) 419, 441
TspRI CASTG 3 cut(s) 88, 351, 463
VpaK11BI GGWCC 1 cut(s) 24
XapI RAATTY 1 cut(s) 114
XceI RCATGY 1 cut(s) 20
XspI CTAG 1 cut(s) 434
ZrmI AGTACT 1 cut(s) 249
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.