Rh6AG078800

Root cap

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0002618
Physical Location & Seq
Forward (+)
11484683 .. 11486040
1358 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG078800.1

Sequence Viewer

Length: 399 bp
ATGGTTGAAGTTGAAGGCAAGTTTAGGATCACAGCCAAGGTTGTGCCTATAACTGAAGAAGACTCTAGAGTTCACAACTATGGTGTGACAAAAGATGATGCGTTGGCTCATCTTGATCTTGGGTTTAAGTTCTTCTCTTTGAGCAACCGAGTTAATGGTGTGTTGGGTCAGACTTACAGACCCGATTACGTGAGCCGGGTCAAGATTGGAGCCAACATGCCTGTGATGGGTGGTGACAGGGAGTTCCAAAGTTCAGGACTTTTCGCTGCGGATTGCTCCATTGCTAGGTTTAATGGTGCTAGCGACTCTGAGAATGAAGGGTCTGTTGAGGGTTTGGAGTTTCCAAGCTTGAACTGTGCTAGTGGGATTGATGGTCGAGGAGTTGTGTGCAAGAGATAG
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

132

Amino Acids

14.28

Weight (kDa)

5.36

Isoelectric Point (pI)

29.87

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Root_cap PF06830 41 - 97 1.2e-30 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)
AciI CCGC 1 cut(s) 269
AclWI GGATC 1 cut(s) 35
AcuI CTGAAG 1 cut(s) 75
AfiI CCNNNNNNNGG 2 cut(s) 227, 285
AgsI TTSAA 3 cut(s) 8, 14, 352
AluBI AGCT 1 cut(s) 348
AluI AGCT 1 cut(s) 348
AlwI GGATC 1 cut(s) 35
ApeKI GCWGC 1 cut(s) 266
AsuC2I CCSGG 1 cut(s) 197
AsuHPI GGTGA 1 cut(s) 245
AsuNHI GCTAGC 1 cut(s) 299
BbsI GAAGAC 1 cut(s) 66
BbvI GCAGC 1 cut(s) 253
BccI CCATC 2 cut(s) 220, 365
BcnI CCSGG 1 cut(s) 197
BfaI CTAG 4 cut(s) 66, 285, 300, 360
BisI GCNGC 1 cut(s) 267
BlsI GCNGC 1 cut(s) 268
Bme1390I CCNGG 1 cut(s) 197
BmiI GGNNCC 1 cut(s) 211
BmrFI CCNGG 1 cut(s) 197
BmsI GCATC 1 cut(s) 88
BmtI GCTAGC 1 cut(s) 303
BpiI GAAGAC 1 cut(s) 66
BpuMI CCSGG 1 cut(s) 197
BsaAI YACGTR 1 cut(s) 190
BsaJI CCNNGG 1 cut(s) 36
Bsc4I CCNNNNNNNGG 2 cut(s) 227, 285
Bse3DI GCAATG 1 cut(s) 279
BseDI CCNNGG 1 cut(s) 36
BseLI CCNNNNNNNGG 2 cut(s) 227, 285
BseMI GCAATG 1 cut(s) 279
BseMII CTCAG 1 cut(s) 300
BseRI GAGGAG 1 cut(s) 393
BseXI GCAGC 1 cut(s) 253
BsiSI CCGG 1 cut(s) 196
BslI CCNNNNNNNGG 2 cut(s) 227, 285
Bsp143I GATC 2 cut(s) 27, 115
BspACI CCGC 1 cut(s) 269
BspCNI CTCAG 1 cut(s) 301
BspLI GGNNCC 1 cut(s) 211
BspOI GCTAGC 1 cut(s) 303
BspPI GGATC 1 cut(s) 35
BsrDI GCAATG 1 cut(s) 279
BssECI CCNNGG 1 cut(s) 36
BssMI GATC 2 cut(s) 27, 115
BssT1I CCWWGG 1 cut(s) 36
Bst4CI ACNGT 1 cut(s) 356
BstBAI YACGTR 1 cut(s) 190
BstC8I GCNNGC 1 cut(s) 301
BstDEI CTNAG 1 cut(s) 309
BstKTI GATC 2 cut(s) 30, 118
BstMBI GATC 2 cut(s) 27, 115
BstNSI RCATGY 1 cut(s) 220
BstSCI CCNGG 1 cut(s) 195
BstV1I GCAGC 1 cut(s) 253
BstV2I GAAGAC 1 cut(s) 66
Cac8I GCNNGC 1 cut(s) 301
CviAII CATG 1 cut(s) 217
CviJI RGCY 5 cut(s) 35, 107, 195, 212, 348
CviKI_1 RGCY 5 cut(s) 35, 107, 195, 212, 348
DdeI CTNAG 1 cut(s) 309
DpnI GATC 2 cut(s) 29, 117
DpnII GATC 2 cut(s) 27, 115
Eco130I CCWWGG 1 cut(s) 36
Eco57I CTGAAG 1 cut(s) 75
EcoT14I CCWWGG 1 cut(s) 36
ErhI CCWWGG 1 cut(s) 36
FaeI CATG 1 cut(s) 220
FaiI YATR 3 cut(s) 50, 81, 218
FatI CATG 1 cut(s) 216
Fnu4HI GCNGC 1 cut(s) 267
Fsp4HI GCNGC 1 cut(s) 267
FspBI CTAG 4 cut(s) 66, 285, 300, 360
GluI GCNGC 1 cut(s) 267
HapII CCGG 1 cut(s) 196
Hin1II CATG 1 cut(s) 220
HindIII AAGCTT 1 cut(s) 346
HinfI GANTC 2 cut(s) 62, 305
HpaII CCGG 1 cut(s) 196
HphI GGTGA 1 cut(s) 245
Hpy166II GTNNAC 1 cut(s) 73
Hpy188I TCNGA 2 cut(s) 171, 310
Hpy188III TCNNGA 4 cut(s) 66, 113, 202, 255
Hpy8I GTNNAC 1 cut(s) 73
HpyAV CCTTC 2 cut(s) 8, 311
HpyCH4III ACNGT 1 cut(s) 356
HpyCH4IV ACGT 1 cut(s) 189
HpyCH4V TGCA 1 cut(s) 390
HpyF3I CTNAG 1 cut(s) 309
HpySE526I ACGT 1 cut(s) 189
Hsp92II CATG 1 cut(s) 220
Kzo9I GATC 2 cut(s) 27, 115
LmnI GCTCC 2 cut(s) 209, 281
LpnPI CCDG 4 cut(s) 209, 223, 234, 240
Lsp1109I GCAGC 1 cut(s) 253
LweI GCATC 1 cut(s) 88
MaeI CTAG 4 cut(s) 66, 285, 300, 360
MaeII ACGT 1 cut(s) 189
MaeIII GTNAC 2 cut(s) 85, 233
MalI GATC 2 cut(s) 29, 117
MboI GATC 2 cut(s) 27, 115
MboII GAAGA 3 cut(s) 68, 71, 124
MlyI GAGTC 2 cut(s) 56, 299
MnlI CCTC 2 cut(s) 322, 371
MseI TTAA 3 cut(s) 126, 153, 291
MslI CAYNNNNRTG 2 cut(s) 78, 221
MspI CCGG 1 cut(s) 196
MspR9I CCNGG 1 cut(s) 197
NciI CCSGG 1 cut(s) 197
NdeII GATC 2 cut(s) 27, 115
NheI GCTAGC 1 cut(s) 299
NlaIII CATG 1 cut(s) 220
NlaIV GGNNCC 1 cut(s) 211
NmuCI GTSAC 2 cut(s) 85, 233
NspI RCATGY 1 cut(s) 220
PkrI GCNGC 1 cut(s) 268
PleI GAGTC 2 cut(s) 56, 299
PpsI GAGTC 2 cut(s) 56, 299
Ppu21I YACGTR 1 cut(s) 190
PspN4I GGNNCC 1 cut(s) 211
RseI CAYNNNNRTG 2 cut(s) 78, 221
SaqAI TTAA 3 cut(s) 126, 153, 291
SatI GCNGC 1 cut(s) 267
Sau3AI GATC 2 cut(s) 27, 115
SchI GAGTC 2 cut(s) 56, 299
ScrFI CCNGG 1 cut(s) 197
SetI ASST 4 cut(s) 42, 192, 290, 350
SfaNI GCATC 1 cut(s) 88
SmiMI CAYNNNNRTG 2 cut(s) 78, 221
SsiI CCGC 1 cut(s) 269
SspMI CTAG 4 cut(s) 66, 285, 300, 360
StyD4I CCNGG 1 cut(s) 195
StyI CCWWGG 1 cut(s) 36
TaaI ACNGT 1 cut(s) 356
TaiI ACGT 1 cut(s) 192
TaqI TCGA 1 cut(s) 376
Tru1I TTAA 3 cut(s) 126, 153, 291
Tru9I TTAA 3 cut(s) 126, 153, 291
TseFI GTSAC 2 cut(s) 85, 233
TseI GCWGC 1 cut(s) 266
Tsp45I GTSAC 2 cut(s) 85, 233
TspDTI ATGAA 1 cut(s) 330
XbaI TCTAGA 1 cut(s) 65
XceI RCATGY 1 cut(s) 220
XspI CTAG 4 cut(s) 66, 285, 300, 360
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.