Rh5AG242700

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0006038
Physical Location & Seq
Reverse (-)
29604375 .. 29613610
9236 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG242700.1

Sequence Viewer

Length: 474 bp
ATGGCTATCACAGTTGATAGATTTAGAGTGGAAACTTCTATTAGAGTGGAGAGGGCTTCGAGCAAGAACAGTGTCTTAGTCACCCTCCCAGAAGTAGCTGAAATTTCAGTCAATGTGGTACCTGTGACAAAGGAAGATGATAAGATCCACAATTATCAGATACCATCAGATGACTGTTTTGCTCACCTGGAAGTACAGTTCAGATTCTACGGTCTGTCATCAAATGTTGAAGGAGTACTTGGAAGGACTTACCAGCCAGATTTCAAGAACCCGGCAAAGGCTGGAGTAGCCATGCCGGTAGTTGGAGGTGAATACAAGTACAAAACAACATCACTTGTCTCTGCGGATTGTTTTGCTTGTGTGTTCACTCAGGCCGGGATGTTGGATCAGACGGATTCAAGAGTGATGGATTACGGAAAGCTAGACTGCACCGGTAACACCTTCAGTGGGAATGGAATAGTTTGCAGGAAGTAA
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

157

Amino Acids

17.28

Weight (kDa)

5.68

Isoelectric Point (pI)

25.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 66 - 122 2.9e-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 1 cut(s) 118
AccB1I GGYRCC 1 cut(s) 118
AciI CCGC 1 cut(s) 344
AclWI GGATC 2 cut(s) 139, 393
AcsI RAATTY 1 cut(s) 102
AcuI CTGAAG 1 cut(s) 427
AfaI GTAC 4 cut(s) 120, 195, 237, 320
AfiI CCNNNNNNNGG 3 cut(s) 277, 302, 447
AgeI ACCGGT 1 cut(s) 431
AgsI TTSAA 3 cut(s) 230, 265, 399
AjnI CCWGG 1 cut(s) 186
AjuI GAANNNNNNNTTGG 2 cut(s) 222, 254
AloI GAACNNNNNNTCC 2 cut(s) 182, 214
AluBI AGCT 2 cut(s) 98, 421
AluI AGCT 2 cut(s) 98, 421
Alw26I GTCTC 1 cut(s) 343
AlwI GGATC 2 cut(s) 139, 393
AoxI GGCC 1 cut(s) 372
ApoI RAATTY 1 cut(s) 102
AsiGI ACCGGT 1 cut(s) 431
Asp718I GGTACC 1 cut(s) 118
AsuC2I CCSGG 2 cut(s) 272, 376
AsuHPI GGTGA 3 cut(s) 73, 176, 320
BanI GGYRCC 1 cut(s) 118
BccI CCATC 2 cut(s) 172, 400
BciT130I CCWGG 1 cut(s) 188
BcnI CCSGG 2 cut(s) 272, 376
BcoDI GTCTC 1 cut(s) 343
BfaI CTAG 1 cut(s) 422
BmcAI AGTACT 1 cut(s) 237
Bme1390I CCNGG 3 cut(s) 188, 272, 376
BmiI GGNNCC 1 cut(s) 120
BmrFI CCNGG 3 cut(s) 188, 272, 376
BpmI CTGGAG 1 cut(s) 303
BpuMI CCSGG 2 cut(s) 272, 376
BsaWI WCCGGW 1 cut(s) 431
Bsc4I CCNNNNNNNGG 3 cut(s) 277, 302, 447
Bse118I RCCGGY 2 cut(s) 295, 431
BseBI CCWGG 1 cut(s) 188
BseGI GGATG 1 cut(s) 384
BseLI CCNNNNNNNGG 3 cut(s) 277, 302, 447
BseMII CTCAG 1 cut(s) 383
BsgI GTGCAG 1 cut(s) 412
BshFI GGCC 1 cut(s) 374
BshNI GGYRCC 1 cut(s) 118
BshTI ACCGGT 1 cut(s) 431
BsiSI CCGG 4 cut(s) 272, 296, 375, 432
BslI CCNNNNNNNGG 3 cut(s) 277, 302, 447
BsmAI GTCTC 1 cut(s) 343
BsnI GGCC 1 cut(s) 374
Bsp143I GATC 2 cut(s) 144, 385
BspACI CCGC 1 cut(s) 344
BspANI GGCC 1 cut(s) 374
BspCNI CTCAG 1 cut(s) 382
BspLI GGNNCC 1 cut(s) 120
BspPI GGATC 2 cut(s) 139, 393
BspT107I GGYRCC 1 cut(s) 118
BsrFI RCCGGY 2 cut(s) 295, 431
BssAI RCCGGY 2 cut(s) 295, 431
BssMI GATC 2 cut(s) 144, 385
Bst2UI CCWGG 1 cut(s) 188
Bst4CI ACNGT 5 cut(s) 13, 71, 176, 198, 212
BstDEI CTNAG 2 cut(s) 76, 369
BstF5I GGATG 1 cut(s) 384
BstKTI GATC 2 cut(s) 147, 388
BstMAI GTCTC 1 cut(s) 343
BstMBI GATC 2 cut(s) 144, 385
BstMWI GCNNNNNNNGC 1 cut(s) 287
BstNI CCWGG 1 cut(s) 188
BstSCI CCNGG 3 cut(s) 186, 270, 374
BstX2I RGATCY 1 cut(s) 144
BstYI RGATCY 1 cut(s) 144
BsuRI GGCC 1 cut(s) 374
BtsCI GGATG 1 cut(s) 384
BtsIMutI CAGTG 2 cut(s) 76, 451
Cfr10I RCCGGY 2 cut(s) 295, 431
Csp6I GTAC 4 cut(s) 119, 194, 236, 319
CspAI ACCGGT 1 cut(s) 431
CviAII CATG 1 cut(s) 292
CviJI RGCY 8 cut(s) 5, 56, 98, 256, 281, 290, 374, 421
CviKI_1 RGCY 8 cut(s) 5, 56, 98, 256, 281, 290, 374, 421
CviQI GTAC 4 cut(s) 119, 194, 236, 319
DdeI CTNAG 2 cut(s) 76, 369
DpnI GATC 2 cut(s) 146, 387
DpnII GATC 2 cut(s) 144, 385
Eco57I CTGAAG 1 cut(s) 427
EcoRII CCWGG 1 cut(s) 186
FaeI CATG 1 cut(s) 295
FaiI YATR 1 cut(s) 293
FalI AAGNNNNNCTT 2 cut(s) 222, 254
FatI CATG 1 cut(s) 291
FokI GGATG 1 cut(s) 391
FspBI CTAG 1 cut(s) 422
GsuI CTGGAG 1 cut(s) 303
HaeIII GGCC 1 cut(s) 374
HapII CCGG 4 cut(s) 272, 296, 375, 432
Hin1II CATG 1 cut(s) 295
HinfI GANTC 2 cut(s) 204, 395
HpaII CCGG 4 cut(s) 272, 296, 375, 432
HphI GGTGA 3 cut(s) 73, 176, 320
Hpy166II GTNNAC 1 cut(s) 366
Hpy188I TCNGA 4 cut(s) 159, 169, 203, 390
Hpy188III TCNNGA 2 cut(s) 265, 399
Hpy8I GTNNAC 1 cut(s) 366
HpyAV CCTTC 3 cut(s) 224, 237, 451
HpyCH4III ACNGT 5 cut(s) 13, 71, 176, 198, 212
HpyCH4V TGCA 2 cut(s) 429, 465
HpyF10VI GCNNNNNNNGC 1 cut(s) 287
HpyF3I CTNAG 2 cut(s) 76, 369
Hsp92II CATG 1 cut(s) 295
KpnI GGTACC 1 cut(s) 122
Kzo9I GATC 2 cut(s) 144, 385
MaeI CTAG 1 cut(s) 422
MaeIII GTNAC 3 cut(s) 79, 124, 434
MalI GATC 2 cut(s) 146, 387
MboI GATC 2 cut(s) 144, 385
MboII GAAGA 1 cut(s) 146
MflI RGATCY 1 cut(s) 144
MluCI AATT 2 cut(s) 102, 151
MmeI TCCRAC 2 cut(s) 283, 363
MnlI CCTC 3 cut(s) 45, 95, 299
MspI CCGG 4 cut(s) 272, 296, 375, 432
MspR9I CCNGG 3 cut(s) 188, 272, 376
MvaI CCWGG 1 cut(s) 188
MwoI GCNNNNNNNGC 1 cut(s) 287
NciI CCSGG 2 cut(s) 272, 376
NdeII GATC 2 cut(s) 144, 385
NlaIII CATG 1 cut(s) 295
NlaIV GGNNCC 1 cut(s) 120
NmuCI GTSAC 2 cut(s) 79, 124
PfeI GAWTC 2 cut(s) 204, 395
PinAI ACCGGT 1 cut(s) 431
Psp6I CCWGG 1 cut(s) 186
PspGI CCWGG 1 cut(s) 186
PspN4I GGNNCC 1 cut(s) 120
PsuI RGATCY 1 cut(s) 144
RsaI GTAC 4 cut(s) 120, 195, 237, 320
RsaNI GTAC 4 cut(s) 119, 194, 236, 319
Sau3AI GATC 2 cut(s) 144, 385
ScaI AGTACT 1 cut(s) 237
ScrFI CCNGG 3 cut(s) 188, 272, 376
SetI ASST 6 cut(s) 100, 124, 189, 310, 423, 443
Sse9I AATT 2 cut(s) 102, 151
SsiI CCGC 1 cut(s) 344
SspMI CTAG 1 cut(s) 422
StyD4I CCNGG 3 cut(s) 186, 270, 374
TaaI ACNGT 5 cut(s) 13, 71, 176, 198, 212
TaqI TCGA 1 cut(s) 59
TasI AATT 2 cut(s) 102, 151
TatI WGTACW 3 cut(s) 193, 235, 318
TfiI GAWTC 2 cut(s) 204, 395
TscAI CASTG 2 cut(s) 76, 451
TseFI GTSAC 2 cut(s) 79, 124
Tsp45I GTSAC 2 cut(s) 79, 124
TspGWI ACGGA 2 cut(s) 407, 429
TspRI CASTG 2 cut(s) 76, 451
XapI RAATTY 1 cut(s) 102
XspI CTAG 1 cut(s) 422
ZrmI AGTACT 1 cut(s) 237
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.