Rh5DG254000

B3 DNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0001196
Physical Location & Seq
Reverse (-)
29587235 .. 29591247
4013 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG254000.1

Sequence Viewer

Length: 585 bp
ATGGCTGCCAAAGCTTCGTGCTTTTCCTGCAAGGCCGAGAGTGATCAGTTCGTTAATGGCTGGGAGTTCAAGGATGGGTCTTTCGCCCAGCTCTGCAAGAAATGCGGTTTTGCTTATGTGAATGGTACATTTTGTGAAACTTTTCACATGGAAGCAGAAGGCTGGAGAGACTGTGCTGTTTGTGGGAAGCCACTCCATTGTGGGTGCATTATGTCATGCAACAAGTATGCACCACTGGATTTCGGAGGTGTAGGTTGCTCAAAATGCTTACCAGAAGTTGATCAGTCTATTGCTTCAGTTGCCACATATAAGACAGATCCAACAGTTTCATCTGATCCTACTGAGAAAGTTGTCGAGTCCCTTTCTCCTGGATCTTCACAAGCGCCTGCTCCTCATTTTGGAGAAGAAGCCAATACAGATGCATCTAAAGGAGATACAGCTTGTAAATTCAAAGTAGGCAGTGCAACACCTCAAGTGGATGCCCCCACAGGAAACCTTTTATACCCTGACAATCTGCCGAAGATGACAAGTGCTGAGCAACTCCAAAAAAGTCTCCGGAAAGTATCCATTAATCTTGTGTCATAG
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

194

Amino Acids

20.64

Weight (kDa)

5.39

Isoelectric Point (pI)

40.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf_VAL1_N PF25813 47 - 91 4.3e-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)
AccIII TCCGGA 1 cut(s) 555
AciI CCGC 1 cut(s) 105
AclWI GGATC 3 cut(s) 311, 329, 379
AcsI RAATTY 1 cut(s) 446
AcuI CTGAAG 1 cut(s) 279
AfaI GTAC 1 cut(s) 127
AfiI CCNNNNNNNGG 1 cut(s) 398
AgsI TTSAA 2 cut(s) 70, 451
AjnI CCWGG 1 cut(s) 367
AluBI AGCT 3 cut(s) 14, 91, 440
AluI AGCT 3 cut(s) 14, 91, 440
Alw26I GTCTC 2 cut(s) 162, 557
AlwI GGATC 3 cut(s) 311, 329, 379
Aor13HI TCCGGA 1 cut(s) 555
AoxI GGCC 1 cut(s) 33
ApeKI GCWGC 1 cut(s) 5
ApoI RAATTY 1 cut(s) 446
AseI ATTAAT 1 cut(s) 570
Asp700I GAANNNNTTC 1 cut(s) 141
AspLEI GCGC 1 cut(s) 385
BccI CCATC 1 cut(s) 68
BciT130I CCWGG 1 cut(s) 369
BciVI GTATCC 1 cut(s) 574
BclI TGATCA 2 cut(s) 43, 280
BcoDI GTCTC 2 cut(s) 162, 557
BfoI RGCGCY 1 cut(s) 386
BfuI GTATCC 1 cut(s) 574
BisI GCNGC 1 cut(s) 6
BlpI GCTNAGC 1 cut(s) 534
BlsI GCNGC 1 cut(s) 7
Bme1390I CCNGG 1 cut(s) 369
BmrFI CCNGG 1 cut(s) 369
BmsI GCATC 3 cut(s) 409, 431, 469
BpmI CTGGAG 1 cut(s) 184
Bpu1102I GCTNAGC 1 cut(s) 534
BpuEI CTTGAG 1 cut(s) 456
BsaWI WCCGGW 1 cut(s) 555
BsaXI ACNNNNNCTCC 2 cut(s) 157, 187
Bsc4I CCNNNNNNNGG 1 cut(s) 398
Bse1I ACTGG 1 cut(s) 240
BseAI TCCGGA 1 cut(s) 555
BseBI CCWGG 1 cut(s) 369
BseGI GGATG 2 cut(s) 79, 484
BseLI CCNNNNNNNGG 1 cut(s) 398
BseMII CTCAG 2 cut(s) 333, 525
BseNI ACTGG 1 cut(s) 240
BseRI GAGGAG 1 cut(s) 381
BseYI CCCAGC 2 cut(s) 60, 87
BshFI GGCC 1 cut(s) 35
BsiSI CCGG 1 cut(s) 556
BslFI GGGAC 1 cut(s) 343
BslI CCNNNNNNNGG 1 cut(s) 398
BsmAI GTCTC 2 cut(s) 162, 557
BsmFI GGGAC 1 cut(s) 343
BsnI GGCC 1 cut(s) 35
Bsp13I TCCGGA 1 cut(s) 555
Bsp143I GATC 5 cut(s) 43, 280, 316, 334, 371
Bsp1720I GCTNAGC 1 cut(s) 534
BspACI CCGC 1 cut(s) 105
BspANI GGCC 1 cut(s) 35
BspCNI CTCAG 2 cut(s) 334, 526
BspEI TCCGGA 1 cut(s) 555
BspPI GGATC 3 cut(s) 311, 329, 379
BsrI ACTGG 1 cut(s) 240
BssMI GATC 5 cut(s) 43, 280, 316, 334, 371
Bst2UI CCWGG 1 cut(s) 369
Bst4CI ACNGT 2 cut(s) 173, 325
BstAPI GCANNNNNTGC 1 cut(s) 102
BstC8I GCNNGC 1 cut(s) 387
BstDEI CTNAG 2 cut(s) 342, 534
BstF5I GGATG 2 cut(s) 79, 484
BstH2I RGCGCY 1 cut(s) 386
BstHHI GCGC 1 cut(s) 385
BstKTI GATC 5 cut(s) 46, 283, 319, 337, 374
BstMAI GTCTC 2 cut(s) 162, 557
BstMBI GATC 5 cut(s) 43, 280, 316, 334, 371
BstMWI GCNNNNNNNGC 5 cut(s) 11, 27, 102, 264, 299
BstNI CCWGG 1 cut(s) 369
BstSCI CCNGG 1 cut(s) 367
BstX2I RGATCY 2 cut(s) 316, 371
BstYI RGATCY 2 cut(s) 316, 371
BsuI GTATCC 1 cut(s) 574
BsuRI GGCC 1 cut(s) 35
BtsCI GGATG 2 cut(s) 79, 484
BtsI GCAGTG 1 cut(s) 466
BtsIMutI CAGTG 2 cut(s) 233, 466
Cac8I GCNNGC 1 cut(s) 387
CfoI GCGC 1 cut(s) 385
Csp6I GTAC 1 cut(s) 126
CviAII CATG 2 cut(s) 148, 216
CviJI RGCY 9 cut(s) 5, 14, 35, 60, 91, 162, 190, 410, 440
CviKI_1 RGCY 9 cut(s) 5, 14, 35, 60, 91, 162, 190, 410, 440
CviQI GTAC 1 cut(s) 126
DdeI CTNAG 2 cut(s) 342, 534
DpnI GATC 5 cut(s) 45, 282, 318, 336, 373
DpnII GATC 5 cut(s) 43, 280, 316, 334, 371
Eco57I CTGAAG 1 cut(s) 279
EcoRII CCWGG 1 cut(s) 367
EcoT22I ATGCAT 1 cut(s) 424
FaeI CATG 2 cut(s) 151, 219
FaiI YATR 9 cut(s) 117, 149, 212, 217, 228, 307, 309, 502, 583
FaqI GGGAC 1 cut(s) 343
FatI CATG 2 cut(s) 147, 215
FbaI TGATCA 2 cut(s) 43, 280
Fnu4HI GCNGC 1 cut(s) 6
FokI GGATG 2 cut(s) 86, 491
Fsp4HI GCNGC 1 cut(s) 6
GlaI GCGC 1 cut(s) 384
GluI GCNGC 1 cut(s) 6
GsaI CCCAGC 2 cut(s) 64, 91
GsuI CTGGAG 1 cut(s) 184
HaeII RGCGCY 1 cut(s) 386
HaeIII GGCC 1 cut(s) 35
HapII CCGG 1 cut(s) 556
HhaI GCGC 1 cut(s) 385
Hin1II CATG 2 cut(s) 151, 219
Hin6I GCGC 1 cut(s) 383
HinP1I GCGC 1 cut(s) 383
HindIII AAGCTT 1 cut(s) 12
HinfI GANTC 1 cut(s) 356
HpaII CCGG 1 cut(s) 556
Hpy188I TCNGA 2 cut(s) 245, 334
Hpy188III TCNNGA 1 cut(s) 556
HpyAV CCTTC 1 cut(s) 152
HpyCH4III ACNGT 2 cut(s) 173, 325
HpyCH4V TGCA 7 cut(s) 30, 96, 207, 219, 230, 422, 464
HpyF10VI GCNNNNNNNGC 5 cut(s) 11, 27, 102, 264, 299
HpyF3I CTNAG 2 cut(s) 342, 534
Hsp92II CATG 2 cut(s) 151, 219
HspAI GCGC 1 cut(s) 383
Kpn2I TCCGGA 1 cut(s) 555
Ksp22I TGATCA 2 cut(s) 43, 280
Kzo9I GATC 5 cut(s) 43, 280, 316, 334, 371
LmnI GCTCC 1 cut(s) 394
LweI GCATC 3 cut(s) 409, 431, 469
MalI GATC 5 cut(s) 45, 282, 318, 336, 373
MboI GATC 5 cut(s) 43, 280, 316, 334, 371
MboII GAAGA 3 cut(s) 366, 416, 532
MflI RGATCY 2 cut(s) 316, 371
MluCI AATT 1 cut(s) 446
MlyI GAGTC 1 cut(s) 365
MmeI TCCRAC 1 cut(s) 344
MnlI CCTC 3 cut(s) 239, 402, 480
Mph1103I ATGCAT 1 cut(s) 424
MroI TCCGGA 1 cut(s) 555
MroXI GAANNNNTTC 1 cut(s) 141
MseI TTAA 2 cut(s) 54, 570
MspI CCGG 1 cut(s) 556
MspR9I CCNGG 1 cut(s) 369
MvaI CCWGG 1 cut(s) 369
MwoI GCNNNNNNNGC 5 cut(s) 11, 27, 102, 264, 299
NdeII GATC 5 cut(s) 43, 280, 316, 334, 371
NlaIII CATG 2 cut(s) 151, 219
NmeAIII GCCGAG 1 cut(s) 61
NsiI ATGCAT 1 cut(s) 424
PdmI GAANNNNTTC 1 cut(s) 141
PfoI TCCNGGA 1 cut(s) 367
PkrI GCNGC 1 cut(s) 7
PleI GAGTC 1 cut(s) 364
PpsI GAGTC 1 cut(s) 364
PshBI ATTAAT 1 cut(s) 570
Psp6I CCWGG 1 cut(s) 367
PspFI CCCAGC 2 cut(s) 60, 87
PspGI CCWGG 1 cut(s) 367
PsuI RGATCY 2 cut(s) 316, 371
RsaI GTAC 1 cut(s) 127
RsaNI GTAC 1 cut(s) 126
SaqAI TTAA 2 cut(s) 54, 570
SatI GCNGC 1 cut(s) 6
Sau3AI GATC 5 cut(s) 43, 280, 316, 334, 371
SchI GAGTC 1 cut(s) 365
ScrFI CCNGG 1 cut(s) 369
SetI ASST 7 cut(s) 16, 93, 250, 256, 442, 472, 498
SfaNI GCATC 3 cut(s) 409, 431, 469
SmlI CTYRAG 1 cut(s) 471
SmoI CTYRAG 1 cut(s) 471
Sse9I AATT 1 cut(s) 446
SsiI CCGC 1 cut(s) 105
StyD4I CCNGG 1 cut(s) 367
TaaI ACNGT 2 cut(s) 173, 325
TaqI TCGA 1 cut(s) 354
TasI AATT 1 cut(s) 446
Tru1I TTAA 2 cut(s) 54, 570
Tru9I TTAA 2 cut(s) 54, 570
TscAI CASTG 2 cut(s) 240, 466
TseI GCWGC 1 cut(s) 5
TspDTI ATGAA 1 cut(s) 318
TspRI CASTG 2 cut(s) 240, 466
VspI ATTAAT 1 cut(s) 570
XapI RAATTY 1 cut(s) 446
XmnI GAANNNNTTC 1 cut(s) 141
Zsp2I ATGCAT 1 cut(s) 424
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.