RchiOBHm_Chr5g0035401

B3 DNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0001196
Physical Location & Seq
Reverse (-)
29275981 .. 29290945
14965 bp
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UTR
Exon/CDS
Intron
PRQ31429

Sequence Viewer

Length: 663 bp
ATGGTAACTTACTTAATCCTTTACAAAGTTAGTTTTGCTTATGTGAATGGTATATTTTGTGAAACTTTTCACATGGAAGCGGAAGGCTGGAGAGACTGTGCTGTTTGTGGGAAGCCACTCCATTGTGGGTGCATTATGTCATGCAACAAGTATGCACCACTGGATTTCGGAGGTGTAGGTTGCTCAAAATGCTTACTAGAAGTTGATCAGTCCATTGCTTCAGGTCGAATGACCAGAATGCTGAAAGAAATAGTTGCCACGTATAAGACAGATCCAACAGTTTCATCTGATCCTACTGAGAAAGTTGTCGAGTCCCTTTCTCCTGGATCTTCACAAGCGCCTGCTCCTCATTTTGGAGAAGAAGCCAATACGGATGCATCTAAAGGAGATACAGCTTGTGAAACCAAAGTAGACAGTGAAACACCTCAAGTGGATATCTCCACAGGAAACCATTTACACCCTGACAATCTGCCGAAGATGACAAATGCTGAGCAACTCCAAAAAGTCTCCGGAAACTTAAACTCTGATCTTATACCTCTGTTTGAGAAGTCATCAACCACATGTGATGCTAATCGGAGTACAGGATGTCTTGTGATACCAAAGAAATACGCAGAGAGGAAGAACACTCTCCAAGGGACATTGAAACAAGTCCAACACCTGTAG
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

220

Amino Acids

23.92

Weight (kDa)

5.68

Isoelectric Point (pI)

36.23

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf_VAL1_N PF25813 22 - 66 9.2e-21 VAL1-like, N-terminal zinc finger domain
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)
AccI GTMKAC 1 cut(s) 411
AccIII TCCGGA 1 cut(s) 509
AciI CCGC 1 cut(s) 80
AclWI GGATC 3 cut(s) 266, 284, 334
AcuI CTGAAG 1 cut(s) 204
AfaI GTAC 1 cut(s) 580
AfiI CCNNNNNNNGG 1 cut(s) 353
AflIII ACRYGT 1 cut(s) 560
AgsI TTSAA 1 cut(s) 643
AjnI CCWGG 1 cut(s) 322
AluBI AGCT 1 cut(s) 395
AluI AGCT 1 cut(s) 395
Alw26I GTCTC 2 cut(s) 87, 511
AlwI GGATC 3 cut(s) 266, 284, 334
Aor13HI TCCGGA 1 cut(s) 509
Asp700I GAANNNNTTC 1 cut(s) 66
AspLEI GCGC 1 cut(s) 340
BciT130I CCWGG 1 cut(s) 324
BclI TGATCA 1 cut(s) 205
BcoDI GTCTC 2 cut(s) 87, 511
BfaI CTAG 1 cut(s) 197
BfmI CTRYAG 1 cut(s) 659
BfoI RGCGCY 1 cut(s) 341
BlpI GCTNAGC 1 cut(s) 489
Bme1390I CCNGG 1 cut(s) 324
BmrFI CCNGG 1 cut(s) 324
BmsI GCATC 3 cut(s) 364, 386, 556
BpmI CTGGAG 1 cut(s) 109
Bpu1102I GCTNAGC 1 cut(s) 489
BpuEI CTTGAG 1 cut(s) 411
BsaAI YACGTR 1 cut(s) 261
BsaBI GATNNNNATC 1 cut(s) 570
BsaJI CCNNGG 1 cut(s) 631
BsaWI WCCGGW 1 cut(s) 509
BsaXI ACNNNNNCTCC 2 cut(s) 82, 112
Bsc4I CCNNNNNNNGG 1 cut(s) 353
Bse1I ACTGG 1 cut(s) 165
Bse3DI GCAATG 1 cut(s) 213
Bse8I GATNNNNATC 1 cut(s) 570
BseAI TCCGGA 1 cut(s) 509
BseBI CCWGG 1 cut(s) 324
BseDI CCNNGG 1 cut(s) 631
BseGI GGATG 2 cut(s) 379, 590
BseJI GATNNNNATC 1 cut(s) 570
BseLI CCNNNNNNNGG 1 cut(s) 353
BseMI GCAATG 1 cut(s) 213
BseMII CTCAG 2 cut(s) 288, 480
BseNI ACTGG 1 cut(s) 165
BseRI GAGGAG 1 cut(s) 336
BsiSI CCGG 1 cut(s) 510
BslFI GGGAC 2 cut(s) 298, 649
BslI CCNNNNNNNGG 1 cut(s) 353
BsmAI GTCTC 2 cut(s) 87, 511
BsmFI GGGAC 2 cut(s) 298, 649
BsmI GAATGC 1 cut(s) 243
Bsp13I TCCGGA 1 cut(s) 509
Bsp143I GATC 5 cut(s) 205, 271, 289, 326, 526
Bsp1720I GCTNAGC 1 cut(s) 489
BspACI CCGC 1 cut(s) 80
BspCNI CTCAG 2 cut(s) 289, 481
BspEI TCCGGA 1 cut(s) 509
BspPI GGATC 3 cut(s) 266, 284, 334
BsrDI GCAATG 1 cut(s) 213
BsrI ACTGG 1 cut(s) 165
BssECI CCNNGG 1 cut(s) 631
BssMI GATC 5 cut(s) 205, 271, 289, 326, 526
BssT1I CCWWGG 1 cut(s) 631
Bst2UI CCWGG 1 cut(s) 324
Bst4CI ACNGT 3 cut(s) 98, 280, 416
BstBAI YACGTR 1 cut(s) 261
BstC8I GCNNGC 1 cut(s) 342
BstDEI CTNAG 2 cut(s) 297, 489
BstF5I GGATG 2 cut(s) 379, 590
BstH2I RGCGCY 1 cut(s) 341
BstHHI GCGC 1 cut(s) 340
BstKTI GATC 5 cut(s) 208, 274, 292, 329, 529
BstMAI GTCTC 2 cut(s) 87, 511
BstMBI GATC 5 cut(s) 205, 271, 289, 326, 526
BstMWI GCNNNNNNNGC 1 cut(s) 189
BstNI CCWGG 1 cut(s) 324
BstNSI RCATGY 1 cut(s) 564
BstSCI CCNGG 1 cut(s) 322
BstSFI CTRYAG 1 cut(s) 659
BstX2I RGATCY 2 cut(s) 271, 326
BstYI RGATCY 2 cut(s) 271, 326
BtsCI GGATG 2 cut(s) 379, 590
BtsIMutI CAGTG 2 cut(s) 158, 421
Cac8I GCNNGC 1 cut(s) 342
CfoI GCGC 1 cut(s) 340
Csp6I GTAC 1 cut(s) 579
CviAII CATG 3 cut(s) 73, 141, 561
CviJI RGCY 4 cut(s) 87, 115, 365, 395
CviKI_1 RGCY 4 cut(s) 87, 115, 365, 395
CviQI GTAC 1 cut(s) 579
DdeI CTNAG 2 cut(s) 297, 489
DpnI GATC 5 cut(s) 207, 273, 291, 328, 528
DpnII GATC 5 cut(s) 205, 271, 289, 326, 526
Eco130I CCWWGG 1 cut(s) 631
Eco32I GATATC 1 cut(s) 436
Eco57I CTGAAG 1 cut(s) 204
EcoRII CCWGG 1 cut(s) 322
EcoRV GATATC 1 cut(s) 436
EcoT14I CCWWGG 1 cut(s) 631
EcoT22I ATGCAT 1 cut(s) 379
ErhI CCWWGG 1 cut(s) 631
FaeI CATG 3 cut(s) 76, 144, 564
FaiI YATR 9 cut(s) 42, 53, 74, 137, 142, 153, 264, 533, 562
FaqI GGGAC 2 cut(s) 298, 649
FatI CATG 3 cut(s) 72, 140, 560
FbaI TGATCA 1 cut(s) 205
FblI GTMKAC 1 cut(s) 411
FokI GGATG 2 cut(s) 386, 597
FspBI CTAG 1 cut(s) 197
GlaI GCGC 1 cut(s) 339
GsuI CTGGAG 1 cut(s) 109
HaeII RGCGCY 1 cut(s) 341
HapII CCGG 1 cut(s) 510
HhaI GCGC 1 cut(s) 340
Hin1II CATG 3 cut(s) 76, 144, 564
Hin6I GCGC 1 cut(s) 338
HinP1I GCGC 1 cut(s) 338
HinfI GANTC 1 cut(s) 311
HpaII CCGG 1 cut(s) 510
Hpy166II GTNNAC 1 cut(s) 412
Hpy188I TCNGA 4 cut(s) 170, 289, 526, 576
Hpy188III TCNNGA 1 cut(s) 510
Hpy8I GTNNAC 1 cut(s) 412
HpyAV CCTTC 1 cut(s) 77
HpyCH4III ACNGT 3 cut(s) 98, 280, 416
HpyCH4IV ACGT 1 cut(s) 260
HpyCH4V TGCA 4 cut(s) 132, 144, 155, 377
HpyF10VI GCNNNNNNNGC 1 cut(s) 189
HpyF3I CTNAG 2 cut(s) 297, 489
HpySE526I ACGT 1 cut(s) 260
Hsp92II CATG 3 cut(s) 76, 144, 564
HspAI GCGC 1 cut(s) 338
Kpn2I TCCGGA 1 cut(s) 509
Ksp22I TGATCA 1 cut(s) 205
Kzo9I GATC 5 cut(s) 205, 271, 289, 326, 526
LmnI GCTCC 1 cut(s) 349
LweI GCATC 3 cut(s) 364, 386, 556
MaeI CTAG 1 cut(s) 197
MaeII ACGT 1 cut(s) 260
MaeIII GTNAC 1 cut(s) 4
MalI GATC 5 cut(s) 207, 273, 291, 328, 528
MboI GATC 5 cut(s) 205, 271, 289, 326, 526
MboII GAAGA 4 cut(s) 321, 371, 487, 631
MflI RGATCY 2 cut(s) 271, 326
MlyI GAGTC 1 cut(s) 320
MmeI TCCRAC 1 cut(s) 299
MnlI CCTC 5 cut(s) 164, 357, 435, 546, 609
Mph1103I ATGCAT 1 cut(s) 379
MroI TCCGGA 1 cut(s) 509
MroXI GAANNNNTTC 1 cut(s) 66
MseI TTAA 2 cut(s) 14, 518
MspI CCGG 1 cut(s) 510
MspR9I CCNGG 1 cut(s) 324
Mva1269I GAATGC 1 cut(s) 243
MvaI CCWGG 1 cut(s) 324
MwoI GCNNNNNNNGC 1 cut(s) 189
NdeII GATC 5 cut(s) 205, 271, 289, 326, 526
NlaIII CATG 3 cut(s) 76, 144, 564
NsiI ATGCAT 1 cut(s) 379
NspI RCATGY 1 cut(s) 564
PciI ACATGT 1 cut(s) 560
PctI GAATGC 1 cut(s) 243
PdmI GAANNNNTTC 1 cut(s) 66
PfoI TCCNGGA 1 cut(s) 322
PleI GAGTC 1 cut(s) 319
PpsI GAGTC 1 cut(s) 319
Ppu21I YACGTR 1 cut(s) 261
PscI ACATGT 1 cut(s) 560
Psp6I CCWGG 1 cut(s) 322
PspGI CCWGG 1 cut(s) 322
PsuI RGATCY 2 cut(s) 271, 326
RsaI GTAC 1 cut(s) 580
RsaNI GTAC 1 cut(s) 579
SaqAI TTAA 2 cut(s) 14, 518
Sau3AI GATC 5 cut(s) 205, 271, 289, 326, 526
SchI GAGTC 1 cut(s) 320
ScrFI CCNGG 1 cut(s) 324
SetI ASST 8 cut(s) 175, 181, 226, 263, 397, 427, 538, 660
SfaNI GCATC 3 cut(s) 364, 386, 556
SfcI CTRYAG 1 cut(s) 659
SmlI CTYRAG 1 cut(s) 426
SmoI CTYRAG 1 cut(s) 426
SsiI CCGC 1 cut(s) 80
SspMI CTAG 1 cut(s) 197
StyD4I CCNGG 1 cut(s) 322
StyI CCWWGG 1 cut(s) 631
TaaI ACNGT 3 cut(s) 98, 280, 416
TaiI ACGT 1 cut(s) 263
TaqI TCGA 2 cut(s) 226, 309
TatI WGTACW 1 cut(s) 578
Tru1I TTAA 2 cut(s) 14, 518
Tru9I TTAA 2 cut(s) 14, 518
TscAI CASTG 2 cut(s) 165, 421
TspDTI ATGAA 1 cut(s) 273
TspGWI ACGGA 1 cut(s) 386
TspRI CASTG 2 cut(s) 165, 421
XceI RCATGY 1 cut(s) 564
XmiI GTMKAC 1 cut(s) 411
XmnI GAANNNNTTC 1 cut(s) 66
XspI CTAG 1 cut(s) 197
Zsp2I ATGCAT 1 cut(s) 379
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.