Rw5G016780

Zinc knuckle

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0008619
Physical Location & Seq
Forward (+)
21368887 .. 21371029
2143 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G016780.1

Sequence Viewer

Length: 678 bp
ATGGGTCTAAGGTCGAGTATTAGAAATATGGTTGAGCTACAACGTTGCTGGTCATTAGCAACGGCTGTTCAACTCGCCATGAAGGTGGAAGCCCAGCAACAGTTAGCTAACCATCGGTCAAGTCAGTTTGGGAAGAGACAAACGCAGTTAGAAGCTGAACCAGTCCAAGGAAATGCAAAGCTAAAACTTGGAGCTGCCTCCAACAATCTCCAGAACAATAAGGCAGCATCAAATTCTCAAGGGGGGCAAGTTCGTGGACGTGGAATGGGAAGTGATGTAGCTGGAAGCAACAACATAACCTCTCAATTCGTAGGAGGGAAGGTGATATGTTACAAGTGTGGACAAAAGGGGCACAAATCTTCCGATTGTAGGAAGACATCCAACAACCTACTTGTTAGTGAAGACGGAGAGGTCAACAATGAAGATGGACAATACCATGAAAGCCTTCTGGAATTTACAGAAGATGATGTCACATATGAAGATCAAGATCTTCCCAATCTGGTGATACGTCGTACCATGTTAACCCCAAAAGTTCCTGAAGGTGATTGGCGGCGTAACAACATCTTTAAGACAAGGTGTTCTTCTCATGGTAGGCTTTGCAATGTCATTATTGATGGGGGCAGTAGCGAGAATCTAGTTTCCAAGGAAATGGTGGCGAAATTGAAGCTCGACATCTAA
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
zf-CCHC

Protein Analysis

225

Amino Acids

24.77

Weight (kDa)

8.73

Isoelectric Point (pI)

45.56

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCHC PF00098 109 - 125 4e-06 Zinc knuckle
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)
AasI GACNNNNNNGTC 1 cut(s) 410
AciI CCGC 1 cut(s) 550
AclI AACGTT 1 cut(s) 43
AcsI RAATTY 2 cut(s) 232, 452
AcuI CTGAAG 1 cut(s) 558
AfaI GTAC 1 cut(s) 514
AfiI CCNNNNNNNGG 2 cut(s) 167, 369
AgsI TTSAA 2 cut(s) 71, 664
AjiI CACGTC 1 cut(s) 260
AluBI AGCT 7 cut(s) 37, 107, 155, 181, 194, 281, 667
AluI AGCT 7 cut(s) 37, 107, 155, 181, 194, 281, 667
Alw26I GTCTC 1 cut(s) 130
ApeKI GCWGC 2 cut(s) 194, 224
ApoI RAATTY 2 cut(s) 232, 452
Asp700I GAANNNNTTC 1 cut(s) 444
AsuHPI GGTGA 3 cut(s) 334, 514, 554
BaeGI GKGCMC 1 cut(s) 354
BbsI GAAGAC 2 cut(s) 380, 408
BbvI GCAGC 2 cut(s) 181, 236
BccI CCATC 3 cut(s) 120, 419, 608
BceAI ACGGC 1 cut(s) 78
BcoDI GTCTC 1 cut(s) 130
BfaI CTAG 1 cut(s) 635
BglII AGATCT 1 cut(s) 487
BisI GCNGC 3 cut(s) 195, 225, 551
BlsI GCNGC 3 cut(s) 196, 226, 552
BmgBI CACGTC 1 cut(s) 260
BmsI GCATC 1 cut(s) 236
BpiI GAAGAC 2 cut(s) 380, 408
BpmI CTGGAG 1 cut(s) 194
BpuEI CTTGAG 1 cut(s) 222
BsaBI GATNNNNATC 1 cut(s) 486
BsaJI CCNNGG 2 cut(s) 166, 642
BsaXI ACNNNNNCTCC 2 cut(s) 306, 336
Bsc4I CCNNNNNNNGG 2 cut(s) 167, 369
Bse1I ACTGG 1 cut(s) 161
Bse3DI GCAATG 1 cut(s) 607
Bse8I GATNNNNATC 1 cut(s) 486
BseDI CCNNGG 2 cut(s) 166, 642
BseGI GGATG 1 cut(s) 377
BseJI GATNNNNATC 1 cut(s) 486
BseLI CCNNNNNNNGG 2 cut(s) 167, 369
BseMI GCAATG 1 cut(s) 607
BseNI ACTGG 1 cut(s) 161
BseSI GKGCMC 1 cut(s) 354
BseXI GCAGC 2 cut(s) 181, 236
BseYI CCCAGC 1 cut(s) 93
BslI CCNNNNNNNGG 2 cut(s) 167, 369
BsmAI GTCTC 1 cut(s) 130
Bsp1286I GDGCHC 1 cut(s) 354
Bsp143I GATC 2 cut(s) 481, 487
BspACI CCGC 1 cut(s) 550
BsrDI GCAATG 1 cut(s) 607
BsrI ACTGG 1 cut(s) 161
BssECI CCNNGG 2 cut(s) 166, 642
BssMI GATC 2 cut(s) 481, 487
BssT1I CCWWGG 2 cut(s) 166, 642
Bst4CI ACNGT 1 cut(s) 102
Bst6I CTCTTC 1 cut(s) 128
BstDEI CTNAG 1 cut(s) 8
BstF5I GGATG 1 cut(s) 377
BstKTI GATC 2 cut(s) 484, 490
BstMAI GTCTC 1 cut(s) 130
BstMBI GATC 2 cut(s) 481, 487
BstSLI GKGCMC 1 cut(s) 354
BstV1I GCAGC 2 cut(s) 181, 236
BstV2I GAAGAC 2 cut(s) 380, 408
BstX2I RGATCY 1 cut(s) 487
BstXI CCANNNNNNTGG 2 cut(s) 85, 649
BstYI RGATCY 1 cut(s) 487
BtrI CACGTC 1 cut(s) 260
BtsCI GGATG 1 cut(s) 377
Csp6I GTAC 1 cut(s) 513
CviAII CATG 4 cut(s) 79, 437, 517, 587
CviQI GTAC 1 cut(s) 513
DdeI CTNAG 1 cut(s) 8
DpnI GATC 2 cut(s) 483, 489
DpnII GATC 2 cut(s) 481, 487
DrdI GACNNNNNNGTC 1 cut(s) 410
DseDI GACNNNNNNGTC 1 cut(s) 410
Eam1104I CTCTTC 1 cut(s) 128
EarI CTCTTC 1 cut(s) 128
Eco130I CCWWGG 2 cut(s) 166, 642
Eco57I CTGAAG 1 cut(s) 558
EcoT14I CCWWGG 2 cut(s) 166, 642
ErhI CCWWGG 2 cut(s) 166, 642
FaeI CATG 4 cut(s) 82, 440, 520, 590
FaiI YATR 9 cut(s) 29, 80, 296, 328, 438, 475, 477, 518, 588
FalI AAGNNNNNCTT 2 cut(s) 565, 597
FatI CATG 4 cut(s) 78, 436, 516, 586
FauNDI CATATG 1 cut(s) 475
Fnu4HI GCNGC 3 cut(s) 195, 225, 551
FokI GGATG 1 cut(s) 364
Fsp4HI GCNGC 3 cut(s) 195, 225, 551
FspBI CTAG 1 cut(s) 635
GluI GCNGC 3 cut(s) 195, 225, 551
GsaI CCCAGC 1 cut(s) 97
GsuI CTGGAG 1 cut(s) 194
Hin1II CATG 4 cut(s) 82, 440, 520, 590
HincII GTYRAC 2 cut(s) 415, 522
HindII GTYRAC 2 cut(s) 415, 522
HinfI GANTC 1 cut(s) 631
HpaI GTTAAC 1 cut(s) 522
HphI GGTGA 3 cut(s) 334, 514, 554
Hpy166II GTNNAC 4 cut(s) 257, 341, 415, 522
Hpy188I TCNGA 1 cut(s) 364
Hpy188III TCNNGA 4 cut(s) 211, 449, 485, 536
Hpy8I GTNNAC 4 cut(s) 257, 341, 415, 522
Hpy99I CGWCG 1 cut(s) 513
HpyAV CCTTC 4 cut(s) 76, 313, 455, 533
HpyCH4III ACNGT 1 cut(s) 102
HpyCH4IV ACGT 3 cut(s) 43, 259, 508
HpyCH4V TGCA 2 cut(s) 176, 600
HpyF3I CTNAG 1 cut(s) 8
HpySE526I ACGT 3 cut(s) 43, 259, 508
Hsp92II CATG 4 cut(s) 82, 440, 520, 590
KspAI GTTAAC 1 cut(s) 522
Kzo9I GATC 2 cut(s) 481, 487
LmnI GCTCC 1 cut(s) 191
LpnPI CCDG 8 cut(s) 34, 107, 174, 224, 267, 434, 485, 549
Lsp1109I GCAGC 2 cut(s) 181, 236
LweI GCATC 1 cut(s) 236
MaeI CTAG 1 cut(s) 635
MaeII ACGT 3 cut(s) 43, 259, 508
MaeIII GTNAC 3 cut(s) 329, 469, 554
MalI GATC 2 cut(s) 483, 489
MboI GATC 2 cut(s) 481, 487
MboII GAAGA 9 cut(s) 145, 351, 385, 413, 434, 473, 482, 491, 573
MflI RGATCY 1 cut(s) 487
MhlI GDGCHC 1 cut(s) 354
MluCI AATT 4 cut(s) 232, 305, 452, 659
MmeI TCCRAC 2 cut(s) 225, 405
MnlI CCTC 4 cut(s) 208, 308, 310, 403
MroXI GAANNNNTTC 1 cut(s) 444
MseI TTAA 2 cut(s) 521, 567
MslI CAYNNNNRTG 1 cut(s) 83
NdeI CATATG 1 cut(s) 475
NdeII GATC 2 cut(s) 481, 487
NlaIII CATG 4 cut(s) 82, 440, 520, 590
NmuCI GTSAC 1 cut(s) 469
PdmI GAANNNNTTC 1 cut(s) 444
PfeI GAWTC 1 cut(s) 631
PkrI GCNGC 3 cut(s) 196, 226, 552
Psp1406I AACGTT 1 cut(s) 43
PspFI CCCAGC 1 cut(s) 93
PsuI RGATCY 1 cut(s) 487
RsaI GTAC 1 cut(s) 514
RsaNI GTAC 1 cut(s) 513
RseI CAYNNNNRTG 1 cut(s) 83
SaqAI TTAA 2 cut(s) 521, 567
SatI GCNGC 3 cut(s) 195, 225, 551
Sau3AI GATC 2 cut(s) 481, 487
SduI GDGCHC 1 cut(s) 354
SfaNI GCATC 1 cut(s) 236
SmiMI CAYNNNNRTG 1 cut(s) 83
SmlI CTYRAG 1 cut(s) 237
SmoI CTYRAG 1 cut(s) 237
Sse9I AATT 4 cut(s) 232, 305, 452, 659
SsiI CCGC 1 cut(s) 550
SspMI CTAG 1 cut(s) 635
StyI CCWWGG 2 cut(s) 166, 642
TaaI ACNGT 1 cut(s) 102
TaiI ACGT 3 cut(s) 46, 262, 511
TaqI TCGA 2 cut(s) 14, 669
TaqII GACCGA 1 cut(s) 105
TasI AATT 4 cut(s) 232, 305, 452, 659
TauI GCSGC 1 cut(s) 553
TfiI GAWTC 1 cut(s) 631
Tru1I TTAA 2 cut(s) 521, 567
Tru9I TTAA 2 cut(s) 521, 567
TseFI GTSAC 1 cut(s) 469
TseI GCWGC 2 cut(s) 194, 224
Tsp45I GTSAC 1 cut(s) 469
TspDTI ATGAA 4 cut(s) 95, 435, 453, 492
TspGWI ACGGA 1 cut(s) 420
XapI RAATTY 2 cut(s) 232, 452
XcmI CCANNNNNNNNNTGG 1 cut(s) 649
XmnI GAANNNNTTC 1 cut(s) 444
XspI CTAG 1 cut(s) 635
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.