Rh5DG251300

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0017497
Physical Location & Seq
Reverse (-)
29025746 .. 29026563
818 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG251300.1

Sequence Viewer

Length: 504 bp
ATGGCTCTTATGACACTGTCGGCCTTATTGACTGTCAATGTGAAAGTGAATTTTTGTTTAAATATCTCAAGATTATCGATTCAGCGCAAACCAAACTGCAATAGCCCTGGATCAGCATGCTATGATCCACGTTTCATCGGTGGTGATGGCATTGTTTTCTATTTCCACGGCAAGAGCAACGAGCGGTTCAGCTTAGTCTCAGACAAAAACCTCCAGATCAATGGCCGCTTCATTGGCCACAGACCAGCCGGCCGTGCTCGTGACTATACCTGGATTCAGGCCCTTGGAGTCCTTCTAAACTCCCAGAGTTTCTCTGTGGAAGCCACCAAAGTGGCTACATGGAACAACCAAATTGACCATCTGAGATTCACTCACAATGGAAATGATGTAGTTCTGGAAGAAGGGTATCTTTCCACTTGGTACTCACCAGATAAAGATATCAAAGTTGAGAGAATAGCAAGCAAGAACAGTGTACGTGATAGTGTCGCTCAAGGTTGTAGCTGA
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

167

Amino Acids

18.66

Weight (kDa)

9.16

Isoelectric Point (pI)

27.63

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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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Orthologous Genes (Group: OG0017497)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G27400 AT5G54370
malus_domestica MD11G1238300.v1.1
prunus_persica Prupe.4G188500_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0035121
rosa_multiflora Rmu_sc0000879.1_g000008 Rmu_sc0005362.1_g000004
rosa_rugosa Rorug05G0150200
rosa_samantha Rh5AG243000 Rh5BG242600 Rh5CG274200 Rh5DG251300

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 184
AciI CCGC 2 cut(s) 184, 226
AclWI GGATC 2 cut(s) 118, 119
AcoI YGGCCR 3 cut(s) 223, 235, 250
AcsI RAATTY 1 cut(s) 49
AfaI GTAC 2 cut(s) 422, 474
AjnI CCWGG 2 cut(s) 106, 269
AleI CACNNNNGTG 1 cut(s) 329
AluBI AGCT 2 cut(s) 192, 501
AluI AGCT 2 cut(s) 192, 501
Alw21I GWGCWC 1 cut(s) 259
Alw26I GTCTC 1 cut(s) 202
AlwI GGATC 2 cut(s) 118, 119
AoxI GGCC 5 cut(s) 21, 223, 235, 250, 279
ApoI RAATTY 1 cut(s) 49
AspLEI GCGC 1 cut(s) 87
AspS9I GGNCC 1 cut(s) 280
AsuHPI GGTGA 2 cut(s) 155, 417
BalI TGGCCA 1 cut(s) 237
BauI CACGAG 1 cut(s) 258
Bbv12I GWGCWC 1 cut(s) 259
BccI CCATC 2 cut(s) 140, 366
BceAI ACGGC 2 cut(s) 184, 237
BciT130I CCWGG 2 cut(s) 108, 271
BcoDI GTCTC 1 cut(s) 202
BisI GCNGC 1 cut(s) 226
BlsI GCNGC 1 cut(s) 227
Bme1390I CCNGG 2 cut(s) 108, 271
BmgT120I GGNCC 1 cut(s) 280
BmrFI CCNGG 2 cut(s) 108, 271
BplI GAGNNNNNCTC 2 cut(s) 355, 387
BpmI CTGGAG 1 cut(s) 197
BpuEI CTTGAG 2 cut(s) 52, 474
Bsa29I ATCGAT 1 cut(s) 77
BsaAI YACGTR 1 cut(s) 476
BsaJI CCNNGG 3 cut(s) 106, 166, 283
Bse118I RCCGGY 1 cut(s) 248
BseBI CCWGG 2 cut(s) 108, 271
BseCI ATCGAT 1 cut(s) 77
BseDI CCNNGG 3 cut(s) 106, 166, 283
BseMII CTCAG 2 cut(s) 213, 353
BseX3I CGGCCG 1 cut(s) 250
Bsh1285I CGRYCG 1 cut(s) 253
BshFI GGCC 5 cut(s) 23, 225, 237, 252, 281
BshVI ATCGAT 1 cut(s) 77
BsiEI CGRYCG 1 cut(s) 253
BsiHKAI GWGCWC 1 cut(s) 259
BsiSI CCGG 1 cut(s) 249
BsmAI GTCTC 1 cut(s) 202
BsnI GGCC 5 cut(s) 23, 225, 237, 252, 281
Bsp1286I GDGCHC 1 cut(s) 259
Bsp143I GATC 3 cut(s) 110, 124, 216
BspACI CCGC 2 cut(s) 184, 226
BspANI GGCC 5 cut(s) 23, 225, 237, 252, 281
BspCNI CTCAG 2 cut(s) 212, 354
BspDI ATCGAT 1 cut(s) 77
BspPI GGATC 2 cut(s) 118, 119
BsrBI CCGCTC 1 cut(s) 184
BsrFI RCCGGY 1 cut(s) 248
BssAI RCCGGY 1 cut(s) 248
BssECI CCNNGG 3 cut(s) 106, 166, 283
BssMI GATC 3 cut(s) 110, 124, 216
BssSI CACGAG 1 cut(s) 258
BssT1I CCWWGG 1 cut(s) 283
Bst2BI CACGAG 1 cut(s) 258
Bst2UI CCWGG 2 cut(s) 108, 271
Bst4CI ACNGT 3 cut(s) 18, 34, 470
BstBAI YACGTR 1 cut(s) 476
BstC8I GCNNGC 3 cut(s) 118, 250, 460
BstDEI CTNAG 3 cut(s) 193, 199, 362
BstDSI CCRYGG 1 cut(s) 166
BstHHI GCGC 1 cut(s) 87
BstKTI GATC 3 cut(s) 113, 127, 219
BstMAI GTCTC 1 cut(s) 202
BstMBI GATC 3 cut(s) 110, 124, 216
BstMCI CGRYCG 1 cut(s) 253
BstMWI GCNNNNNNNGC 2 cut(s) 234, 254
BstNI CCWGG 2 cut(s) 108, 271
BstNSI RCATGY 1 cut(s) 120
BstSCI CCNGG 2 cut(s) 106, 269
BstXI CCANNNNNNTGG 2 cut(s) 221, 331
BstZI CGGCCG 1 cut(s) 250
Bsu15I ATCGAT 1 cut(s) 77
BsuRI GGCC 5 cut(s) 23, 225, 237, 252, 281
BsuTUI ATCGAT 1 cut(s) 77
BtgI CCRYGG 1 cut(s) 166
BtsIMutI CAGTG 2 cut(s) 14, 475
Cac8I GCNNGC 3 cut(s) 118, 250, 460
CfoI GCGC 1 cut(s) 87
Cfr10I RCCGGY 1 cut(s) 248
Cfr13I GGNCC 1 cut(s) 280
ClaI ATCGAT 1 cut(s) 77
Csp6I GTAC 2 cut(s) 421, 473
CviAII CATG 2 cut(s) 117, 339
CviQI GTAC 2 cut(s) 421, 473
DdeI CTNAG 3 cut(s) 193, 199, 362
DpnI GATC 3 cut(s) 112, 126, 218
DpnII GATC 3 cut(s) 110, 124, 216
DraI TTTAAA 1 cut(s) 60
EaeI YGGCCR 3 cut(s) 223, 235, 250
EagI CGGCCG 1 cut(s) 250
EclXI CGGCCG 1 cut(s) 250
Eco130I CCWWGG 1 cut(s) 283
Eco32I GATATC 1 cut(s) 439
Eco52I CGGCCG 1 cut(s) 250
EcoO109I RGGNCCY 1 cut(s) 280
EcoRII CCWGG 2 cut(s) 106, 269
EcoRV GATATC 1 cut(s) 439
EcoT14I CCWWGG 1 cut(s) 283
ErhI CCWWGG 1 cut(s) 283
FaeI CATG 2 cut(s) 120, 342
FaiI YATR 5 cut(s) 11, 118, 123, 267, 340
FalI AAGNNNNNCTT 2 cut(s) 393, 425
FatI CATG 2 cut(s) 116, 338
Fnu4HI GCNGC 1 cut(s) 226
Fsp4HI GCNGC 1 cut(s) 226
GlaI GCGC 1 cut(s) 86
GluI GCNGC 1 cut(s) 226
GsuI CTGGAG 1 cut(s) 197
HaeIII GGCC 5 cut(s) 23, 225, 237, 252, 281
HapII CCGG 1 cut(s) 249
HhaI GCGC 1 cut(s) 87
Hin1II CATG 2 cut(s) 120, 342
Hin6I GCGC 1 cut(s) 85
HinP1I GCGC 1 cut(s) 85
HinfI GANTC 4 cut(s) 79, 274, 288, 366
HpaII CCGG 1 cut(s) 249
HphI GGTGA 2 cut(s) 155, 417
Hpy166II GTNNAC 1 cut(s) 473
Hpy188I TCNGA 2 cut(s) 202, 363
Hpy188III TCNNGA 4 cut(s) 69, 214, 260, 395
Hpy8I GTNNAC 1 cut(s) 473
HpyAV CCTTC 2 cut(s) 302, 395
HpyCH4III ACNGT 3 cut(s) 18, 34, 470
HpyCH4IV ACGT 2 cut(s) 130, 475
HpyCH4V TGCA 1 cut(s) 99
HpyF10VI GCNNNNNNNGC 2 cut(s) 234, 254
HpyF3I CTNAG 3 cut(s) 193, 199, 362
HpySE526I ACGT 2 cut(s) 130, 475
Hsp92II CATG 2 cut(s) 120, 342
HspAI GCGC 1 cut(s) 85
KroI GCCGGC 1 cut(s) 248
KroNI GCCGGC 1 cut(s) 250
Kzo9I GATC 3 cut(s) 110, 124, 216
MaeII ACGT 2 cut(s) 130, 475
MaeIII GTNAC 1 cut(s) 260
MalI GATC 3 cut(s) 112, 126, 218
MbiI CCGCTC 1 cut(s) 184
MboI GATC 3 cut(s) 110, 124, 216
MboII GAAGA 1 cut(s) 410
MhlI GDGCHC 1 cut(s) 259
MlsI TGGCCA 1 cut(s) 237
MluCI AATT 2 cut(s) 49, 351
MluNI TGGCCA 1 cut(s) 237
MlyI GAGTC 1 cut(s) 297
MnlI CCTC 1 cut(s) 221
Mox20I TGGCCA 1 cut(s) 237
MroNI GCCGGC 1 cut(s) 248
MscI TGGCCA 1 cut(s) 237
MseI TTAA 1 cut(s) 59
MslI CAYNNNNRTG 1 cut(s) 329
Msp20I TGGCCA 1 cut(s) 237
MspI CCGG 1 cut(s) 249
MspR9I CCNGG 2 cut(s) 108, 271
MvaI CCWGG 2 cut(s) 108, 271
MwoI GCNNNNNNNGC 2 cut(s) 234, 254
NaeI GCCGGC 1 cut(s) 250
NdeII GATC 3 cut(s) 110, 124, 216
NgoMIV GCCGGC 1 cut(s) 248
NlaIII CATG 2 cut(s) 120, 342
NmuCI GTSAC 1 cut(s) 260
NspI RCATGY 1 cut(s) 120
OliI CACNNNNGTG 1 cut(s) 329
PaeI GCATGC 1 cut(s) 120
PdiI GCCGGC 1 cut(s) 250
PfeI GAWTC 3 cut(s) 79, 274, 366
PflFI GACNNNGTC 1 cut(s) 16
PkrI GCNGC 1 cut(s) 227
PleI GAGTC 1 cut(s) 296
PpsI GAGTC 1 cut(s) 296
Ppu21I YACGTR 1 cut(s) 476
Psp6I CCWGG 2 cut(s) 106, 269
PspGI CCWGG 2 cut(s) 106, 269
PspPI GGNCC 1 cut(s) 280
PsyI GACNNNGTC 1 cut(s) 16
RsaI GTAC 2 cut(s) 422, 474
RsaNI GTAC 2 cut(s) 421, 473
RseI CAYNNNNRTG 1 cut(s) 329
SaqAI TTAA 1 cut(s) 59
SatI GCNGC 1 cut(s) 226
Sau3AI GATC 3 cut(s) 110, 124, 216
Sau96I GGNCC 1 cut(s) 280
SchI GAGTC 1 cut(s) 297
ScrFI CCNGG 2 cut(s) 108, 271
SduI GDGCHC 1 cut(s) 259
SetI ASST 7 cut(s) 133, 194, 213, 272, 478, 496, 503
SmiMI CAYNNNNRTG 1 cut(s) 329
SmlI CTYRAG 2 cut(s) 67, 489
SmoI CTYRAG 2 cut(s) 67, 489
SphI GCATGC 1 cut(s) 120
Sse9I AATT 2 cut(s) 49, 351
SsiI CCGC 2 cut(s) 184, 226
StyD4I CCNGG 2 cut(s) 106, 269
StyI CCWWGG 1 cut(s) 283
TaaI ACNGT 3 cut(s) 18, 34, 470
TaiI ACGT 2 cut(s) 133, 478
TaqI TCGA 1 cut(s) 77
TasI AATT 2 cut(s) 49, 351
TauI GCSGC 1 cut(s) 228
TfiI GAWTC 3 cut(s) 79, 274, 366
Tru1I TTAA 1 cut(s) 59
Tru9I TTAA 1 cut(s) 59
TscAI CASTG 2 cut(s) 21, 475
TseFI GTSAC 1 cut(s) 260
Tsp45I GTSAC 1 cut(s) 260
TspDTI ATGAA 2 cut(s) 124, 220
TspRI CASTG 2 cut(s) 21, 475
Tth111I GACNNNGTC 1 cut(s) 16
XapI RAATTY 1 cut(s) 49
XceI RCATGY 1 cut(s) 120
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.