RchiOBHm_Chr5g0035571

B3 DNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0001196
Physical Location & Seq
Reverse (-)
29526341 .. 29527562
1222 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ31442

Sequence Viewer

Length: 441 bp
ATGCAGCCACTCCATTGTGGGTGCATTATGTCACGCCACAAGTATGCACCACTGGATTTTGGAGGTGTAGGTTGCACAAAATGCTTACTAGAAGTTGATCAATCTATTGCTTCAGGTCGAATGACCAGAATGCTGAAAGAAATAGTTGCCAAGTACAAGATGGACCCAACAGTTTCATCTGATCTTACTAAGAAAGTTGTCGAGTCCCTTTTTCCTGAATCTTTACAAGCTCCAGCACCTCAGATTGGAGAAGAATCCAATACGGATGTATCTAATGGAGATACAGGTGAACCTAAATTGGAACCGACTCTAAATTCAGACCTAGAGACGAAATTCCATACCAGTTCAGCAACCCCAAAAGCACATGCGACTCCAAAGGCAAACCGGAACGTAATGCCAAAAATATATAACACGTCTTCCACTGATACACGTTTTCTATAG
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
B3

Protein Analysis

146

Amino Acids

15.96

Weight (kDa)

6.89

Isoelectric Point (pI)

46.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf_VAL1_N PF25813 2 - 30 1.9e-11 VAL1-like, N-terminal zinc finger domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AcsI RAATTY 2 cut(s) 313, 332
AcuI CTGAAG 1 cut(s) 96
AfaI GTAC 1 cut(s) 155
AfiI CCNNNNNNNGG 1 cut(s) 245
AflIII ACRYGT 2 cut(s) 411, 428
AjiI CACGTC 1 cut(s) 414
AluBI AGCT 1 cut(s) 230
AluI AGCT 1 cut(s) 230
Alw26I GTCTC 1 cut(s) 320
ApeKI GCWGC 1 cut(s) 4
ApoI RAATTY 2 cut(s) 313, 332
AspS9I GGNCC 1 cut(s) 163
AsuHPI GGTGA 1 cut(s) 299
AvaII GGWCC 1 cut(s) 163
BaeI ACNNNNGTAYC 2 cut(s) 252, 285
BbsI GAAGAC 1 cut(s) 408
BbvI GCAGC 1 cut(s) 16
BccI CCATC 1 cut(s) 154
BclI TGATCA 1 cut(s) 97
BcoDI GTCTC 1 cut(s) 320
BfaI CTAG 2 cut(s) 89, 323
BfmI CTRYAG 1 cut(s) 437
BisI GCNGC 1 cut(s) 5
BlsI GCNGC 1 cut(s) 6
Bme18I GGWCC 1 cut(s) 163
BmgBI CACGTC 1 cut(s) 414
BmgT120I GGNCC 1 cut(s) 163
BmiI GGNNCC 2 cut(s) 165, 303
BpiI GAAGAC 1 cut(s) 408
BpmI CTGGAG 1 cut(s) 216
BsaWI WCCGGW 1 cut(s) 384
Bsc4I CCNNNNNNNGG 1 cut(s) 245
Bse1I ACTGG 2 cut(s) 57, 342
BseGI GGATG 1 cut(s) 271
BseLI CCNNNNNNNGG 1 cut(s) 245
BseMII CTCAG 1 cut(s) 254
BseNI ACTGG 2 cut(s) 57, 342
BseXI GCAGC 1 cut(s) 16
BsiSI CCGG 1 cut(s) 385
BslFI GGGAC 1 cut(s) 190
BslI CCNNNNNNNGG 1 cut(s) 245
BsmAI GTCTC 1 cut(s) 320
BsmBI CGTCTC 1 cut(s) 320
BsmFI GGGAC 1 cut(s) 190
BsmI GAATGC 1 cut(s) 135
Bsp143I GATC 2 cut(s) 97, 181
BspCNI CTCAG 1 cut(s) 253
BspLI GGNNCC 2 cut(s) 165, 303
BsrI ACTGG 2 cut(s) 57, 342
BssMI GATC 2 cut(s) 97, 181
Bst4CI ACNGT 1 cut(s) 172
BstAPI GCANNNNNTGC 1 cut(s) 81
BstDEI CTNAG 2 cut(s) 189, 240
BstF5I GGATG 1 cut(s) 271
BstKTI GATC 2 cut(s) 100, 184
BstMAI GTCTC 1 cut(s) 320
BstMBI GATC 2 cut(s) 97, 181
BstMWI GCNNNNNNNGC 1 cut(s) 81
BstNSI RCATGY 1 cut(s) 368
BstSFI CTRYAG 1 cut(s) 437
BstV1I GCAGC 1 cut(s) 16
BstV2I GAAGAC 1 cut(s) 408
BtrI CACGTC 1 cut(s) 414
BtsCI GGATG 1 cut(s) 271
BtsIMutI CAGTG 2 cut(s) 50, 420
Cfr13I GGNCC 1 cut(s) 163
Csp6I GTAC 1 cut(s) 154
CviAII CATG 1 cut(s) 365
CviJI RGCY 2 cut(s) 7, 230
CviKI_1 RGCY 2 cut(s) 7, 230
CviQI GTAC 1 cut(s) 154
DdeI CTNAG 2 cut(s) 189, 240
DpnI GATC 2 cut(s) 99, 183
DpnII GATC 2 cut(s) 97, 181
Eco47I GGWCC 1 cut(s) 163
Eco57I CTGAAG 1 cut(s) 96
Esp3I CGTCTC 1 cut(s) 320
FaeI CATG 1 cut(s) 368
FaiI YATR 7 cut(s) 29, 45, 339, 366, 406, 408, 439
FaqI GGGAC 1 cut(s) 190
FatI CATG 1 cut(s) 364
FbaI TGATCA 1 cut(s) 97
Fnu4HI GCNGC 1 cut(s) 5
FokI GGATG 1 cut(s) 278
Fsp4HI GCNGC 1 cut(s) 5
FspBI CTAG 2 cut(s) 89, 323
GluI GCNGC 1 cut(s) 5
GsuI CTGGAG 1 cut(s) 216
HapII CCGG 1 cut(s) 385
Hin1II CATG 1 cut(s) 368
HinfI GANTC 5 cut(s) 203, 218, 254, 307, 370
HpaII CCGG 1 cut(s) 385
HphI GGTGA 1 cut(s) 299
Hpy166II GTNNAC 1 cut(s) 290
Hpy188I TCNGA 3 cut(s) 181, 243, 319
Hpy188III TCNNGA 1 cut(s) 215
Hpy8I GTNNAC 1 cut(s) 290
HpyCH4III ACNGT 1 cut(s) 172
HpyCH4IV ACGT 3 cut(s) 390, 413, 430
HpyCH4V TGCA 4 cut(s) 4, 24, 47, 75
HpyF10VI GCNNNNNNNGC 1 cut(s) 81
HpyF3I CTNAG 2 cut(s) 189, 240
HpySE526I ACGT 3 cut(s) 390, 413, 430
Hsp92II CATG 1 cut(s) 368
Ksp22I TGATCA 1 cut(s) 97
Kzo9I GATC 2 cut(s) 97, 181
LmnI GCTCC 1 cut(s) 235
LpnPI CCDG 8 cut(s) 38, 99, 139, 228, 246, 270, 355, 398
Lsp1109I GCAGC 1 cut(s) 16
MaeI CTAG 2 cut(s) 89, 323
MaeII ACGT 3 cut(s) 390, 413, 430
MaeIII GTNAC 1 cut(s) 30
MalI GATC 2 cut(s) 99, 183
MboI GATC 2 cut(s) 97, 181
MboII GAAGA 2 cut(s) 263, 408
MluCI AATT 3 cut(s) 296, 313, 332
MlyI GAGTC 3 cut(s) 212, 301, 364
MnlI CCTC 2 cut(s) 56, 249
MslI CAYNNNNRTG 1 cut(s) 42
MspI CCGG 1 cut(s) 385
Mva1269I GAATGC 1 cut(s) 135
MwoI GCNNNNNNNGC 1 cut(s) 81
NdeII GATC 2 cut(s) 97, 181
NlaIII CATG 1 cut(s) 368
NlaIV GGNNCC 2 cut(s) 165, 303
NmuCI GTSAC 1 cut(s) 30
NspI RCATGY 1 cut(s) 368
PctI GAATGC 1 cut(s) 135
PfeI GAWTC 2 cut(s) 218, 254
PkrI GCNGC 1 cut(s) 6
PleI GAGTC 3 cut(s) 211, 301, 364
PpsI GAGTC 3 cut(s) 211, 301, 364
PspN4I GGNNCC 2 cut(s) 165, 303
PspPI GGNCC 1 cut(s) 163
RsaI GTAC 1 cut(s) 155
RsaNI GTAC 1 cut(s) 154
RseI CAYNNNNRTG 1 cut(s) 42
SatI GCNGC 1 cut(s) 5
Sau3AI GATC 2 cut(s) 97, 181
Sau96I GGNCC 1 cut(s) 163
SchI GAGTC 3 cut(s) 212, 301, 364
SfcI CTRYAG 1 cut(s) 437
SinI GGWCC 1 cut(s) 163
SmiMI CAYNNNNRTG 1 cut(s) 42
Sse9I AATT 3 cut(s) 296, 313, 332
SspMI CTAG 2 cut(s) 89, 323
TaaI ACNGT 1 cut(s) 172
TaiI ACGT 3 cut(s) 393, 416, 433
TaqI TCGA 2 cut(s) 118, 201
TasI AATT 3 cut(s) 296, 313, 332
TatI WGTACW 1 cut(s) 153
TfiI GAWTC 2 cut(s) 218, 254
TscAI CASTG 2 cut(s) 57, 427
TseFI GTSAC 1 cut(s) 30
TseI GCWGC 1 cut(s) 4
Tsp45I GTSAC 1 cut(s) 30
TspDTI ATGAA 1 cut(s) 165
TspGWI ACGGA 1 cut(s) 278
TspRI CASTG 2 cut(s) 57, 427
VpaK11BI GGWCC 1 cut(s) 163
XapI RAATTY 2 cut(s) 313, 332
XceI RCATGY 1 cut(s) 368
XcmI CCANNNNNNNNNTGG 1 cut(s) 157
XspI CTAG 2 cut(s) 89, 323
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.