Rroxscaffold_5G00384430

At4g28440-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0003500
Physical Location & Seq
Reverse (-)
63812028 .. 63815088
3061 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00384430.1

Sequence Viewer

Length: 414 bp
ATGGCAGACTCGAAACAAGCACTGAGGAAACCAACCTTCACAAAGGTCGGGCAGCTCCGTCCAAGCACCTCTGGTCACACTCTCACTGTAAAGGTTGTTAGTACTAAGATGGTATTGCAGAAGGGACGTGCTGATGGCCCTCAAGTACGCCAAATGCGAATTGCTGAATGCTTGGTTGGCGATGAAACGGGAATGATAATCTTCACAGCTAGAAACGATCAAGTGGACTTGATGAAAGAGGGTTCGACTGTAACCCTGCGGAATGCCAAAATTGACATGTTCAAAGGATCAATGAGGCTTGCTGTGGACAAATGGGGCCGAGTTGAAGTTGCTGAGCCTGCTAGTTTTACCGTGATGGAAGATAACAACCTTTCACTCATTGAATATGAACTTGTCAATGTTGTTGAAGAGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03030 ko03420 ko03430 ko03440 ko03460 map03030 map03420 map03430 map03440 map03460
Pfam Domains
Protein Families
No domains found.

Protein Analysis

137

Amino Acids

15.23

Weight (kDa)

7.85

Isoelectric Point (pI)

30.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
OB_Ssb-like PF21473 19 - 110 4.4e-46 Single-stranded DNA binding protein Ssb-like, OB fold
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 259
AclWI GGATC 1 cut(s) 295
AfaI GTAC 2 cut(s) 103, 147
AflIII ACRYGT 1 cut(s) 276
AgsI TTSAA 4 cut(s) 283, 326, 383, 407
AjiI CACGTC 1 cut(s) 128
AjuI GAANNNNNNNTTGG 2 cut(s) 159, 191
AluBI AGCT 2 cut(s) 55, 209
AluI AGCT 2 cut(s) 55, 209
AlwI GGATC 1 cut(s) 295
AoxI GGCC 2 cut(s) 136, 316
ApeKI GCWGC 1 cut(s) 52
AspS9I GGNCC 2 cut(s) 137, 316
BbvI GCAGC 1 cut(s) 64
BccI CCATC 3 cut(s) 103, 128, 349
BfaI CTAG 2 cut(s) 210, 342
BisI GCNGC 1 cut(s) 53
BlpI GCTNAGC 1 cut(s) 333
BlsI GCNGC 1 cut(s) 54
BmcAI AGTACT 1 cut(s) 103
BmgBI CACGTC 1 cut(s) 128
BmgT120I GGNCC 2 cut(s) 137, 316
BmiI GGNNCC 1 cut(s) 317
Bpu1102I GCTNAGC 1 cut(s) 333
BpuEI CTTGAG 1 cut(s) 126
BseMII CTCAG 2 cut(s) 14, 324
BseXI GCAGC 1 cut(s) 64
BshFI GGCC 2 cut(s) 138, 318
BslFI GGGAC 1 cut(s) 138
BsmFI GGGAC 1 cut(s) 138
BsmI GAATGC 2 cut(s) 173, 268
BsnI GGCC 2 cut(s) 138, 318
Bsp143I GATC 2 cut(s) 217, 287
Bsp1720I GCTNAGC 1 cut(s) 333
BspACI CCGC 1 cut(s) 259
BspANI GGCC 2 cut(s) 138, 318
BspCNI CTCAG 2 cut(s) 15, 325
BspLI GGNNCC 1 cut(s) 317
BspPI GGATC 1 cut(s) 295
BssMI GATC 2 cut(s) 217, 287
Bst4CI ACNGT 3 cut(s) 88, 250, 352
Bst6I CTCTTC 1 cut(s) 402
BstC8I GCNNGC 2 cut(s) 300, 339
BstDEI CTNAG 3 cut(s) 23, 105, 333
BstKTI GATC 2 cut(s) 220, 290
BstMBI GATC 2 cut(s) 217, 287
BstMWI GCNNNNNNNGC 2 cut(s) 177, 338
BstNSI RCATGY 1 cut(s) 280
BstV1I GCAGC 1 cut(s) 64
BsuRI GGCC 2 cut(s) 138, 318
BtgZI GCGATG 1 cut(s) 195
BtrI CACGTC 1 cut(s) 128
BtsIMutI CAGTG 2 cut(s) 20, 84
Cac8I GCNNGC 2 cut(s) 300, 339
Cfr13I GGNCC 2 cut(s) 137, 316
Csp6I GTAC 2 cut(s) 102, 146
CviAII CATG 1 cut(s) 277
CviJI RGCY 6 cut(s) 55, 138, 209, 298, 318, 337
CviKI_1 RGCY 6 cut(s) 55, 138, 209, 298, 318, 337
CviQI GTAC 2 cut(s) 102, 146
DdeI CTNAG 3 cut(s) 23, 105, 333
DpnI GATC 2 cut(s) 219, 289
DpnII GATC 2 cut(s) 217, 287
Eam1104I CTCTTC 1 cut(s) 402
EarI CTCTTC 1 cut(s) 402
FaeI CATG 1 cut(s) 280
FaiI YATR 2 cut(s) 278, 387
FaqI GGGAC 1 cut(s) 138
FatI CATG 1 cut(s) 276
Fnu4HI GCNGC 1 cut(s) 53
Fsp4HI GCNGC 1 cut(s) 53
FspBI CTAG 2 cut(s) 210, 342
GluI GCNGC 1 cut(s) 53
HaeIII GGCC 2 cut(s) 138, 318
Hin1II CATG 1 cut(s) 280
HinfI GANTC 1 cut(s) 8
Hpy166II GTNNAC 2 cut(s) 226, 307
Hpy8I GTNNAC 2 cut(s) 226, 307
HpyAV CCTTC 2 cut(s) 46, 115
HpyCH4III ACNGT 3 cut(s) 88, 250, 352
HpyCH4IV ACGT 1 cut(s) 127
HpyCH4V TGCA 1 cut(s) 118
HpyF10VI GCNNNNNNNGC 2 cut(s) 177, 338
HpyF3I CTNAG 3 cut(s) 23, 105, 333
HpySE526I ACGT 1 cut(s) 127
Hsp92II CATG 1 cut(s) 280
Kzo9I GATC 2 cut(s) 217, 287
LmnI GCTCC 1 cut(s) 60
LpnPI CCDG 3 cut(s) 57, 269, 351
Lsp1109I GCAGC 1 cut(s) 64
MaeI CTAG 2 cut(s) 210, 342
MaeII ACGT 1 cut(s) 127
MaeIII GTNAC 2 cut(s) 74, 250
MalI GATC 2 cut(s) 219, 289
MboI GATC 2 cut(s) 217, 287
MboII GAAGA 2 cut(s) 193, 371
MluCI AATT 2 cut(s) 159, 270
MlyI GAGTC 1 cut(s) 2
MnlI CCTC 5 cut(s) 18, 79, 150, 232, 288
Mva1269I GAATGC 2 cut(s) 173, 268
MwoI GCNNNNNNNGC 2 cut(s) 177, 338
NdeII GATC 2 cut(s) 217, 287
NlaIII CATG 1 cut(s) 280
NlaIV GGNNCC 1 cut(s) 317
NmeAIII GCCGAG 1 cut(s) 344
NmuCI GTSAC 1 cut(s) 74
NspI RCATGY 1 cut(s) 280
PciI ACATGT 1 cut(s) 276
PcsI WCGNNNNNNNCGW 1 cut(s) 154
PctI GAATGC 2 cut(s) 173, 268
PkrI GCNGC 1 cut(s) 54
PleI GAGTC 1 cut(s) 2
PpsI GAGTC 1 cut(s) 2
PscI ACATGT 1 cut(s) 276
PspN4I GGNNCC 1 cut(s) 317
PspPI GGNCC 2 cut(s) 137, 316
RsaI GTAC 2 cut(s) 103, 147
RsaNI GTAC 2 cut(s) 102, 146
SatI GCNGC 1 cut(s) 53
Sau3AI GATC 2 cut(s) 217, 287
Sau96I GGNCC 2 cut(s) 137, 316
ScaI AGTACT 1 cut(s) 103
SchI GAGTC 1 cut(s) 2
SetI ASST 8 cut(s) 38, 48, 57, 71, 96, 130, 211, 372
SmlI CTYRAG 1 cut(s) 141
SmoI CTYRAG 1 cut(s) 141
Sse9I AATT 2 cut(s) 159, 270
SsiI CCGC 1 cut(s) 259
SspMI CTAG 2 cut(s) 210, 342
TaaI ACNGT 3 cut(s) 88, 250, 352
TaiI ACGT 1 cut(s) 130
TaqI TCGA 2 cut(s) 11, 245
TasI AATT 2 cut(s) 159, 270
TatI WGTACW 1 cut(s) 101
TscAI CASTG 2 cut(s) 27, 91
TseFI GTSAC 1 cut(s) 74
TseI GCWGC 1 cut(s) 52
Tsp45I GTSAC 1 cut(s) 74
TspDTI ATGAA 3 cut(s) 198, 248, 402
TspGWI ACGGA 1 cut(s) 47
TspRI CASTG 2 cut(s) 27, 91
XceI RCATGY 1 cut(s) 280
XspI CTAG 2 cut(s) 210, 342
ZrmI AGTACT 1 cut(s) 103
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.