Rroxscaffold_3G00254120

HIT zinc finger

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0010570
Physical Location & Seq
Reverse (-)
48262853 .. 48267799
4947 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00254120.1

Sequence Viewer

Length: 1152 bp
ATGACGACGAGGACGAACTTCTACAAGAACCCTTCCATTACTTACAAGAAGGACCTCAGTCTCTCCTCCGTTCTTCAAAACCTCCAAGGTAATCCTTCCTTCCCCGTTTTCTTTCTCTTCCCACCTAAACGCACCGTTTTTCGTCTTCTCAAATCTCAACTCGAATTCCCTCTACTTTCAGCTTACAACATCGCCACCGGCAATGCTCCGCCTCCTGAAGAACATCCTCCGCCAGCCGCCGATGCCAAAACGGCAGGTCGTAAACGCCAGCGCGATCCAAAACCGCCGCCTTGTGGCGGAAAGCGTGAAATTGAAGAGCGCGATGGACCTATAAAAGAAGCTTTTGCAACGCCAGCATTTGAAGAATTAACTGCGGATGTTTTGGGAAAGCAAGGAACTTCCAATTCATGTTTAAATTTGGTACAGTATGACAGTGATGAGAGTAGTTCTTCAGAATGTGAAGAGAAGCAGCATGATCCTCCAAATTTTGTTCACAGGAATGAATCTGATGGAGTAAAGTGCAGAAGTGAACAGCGTTTGCCTCACCCAGGCGAACCTGTTTGTGTAATGTGTGGTAAATACGGAGAATATATATGCAACGAGACGGATGACGACATCTGCAGCATGGAGTGCAAAGCTGAGTTACTGGAAGCTCTTAAAGTTGTCAAGGATCCATTAAGCAATGAAAGACCAGATGTCTCCTTATCCGGGCCCAACTATACCTTACTCATGCCTGATTTTGGTGAAGACACTTGGGATTATGAACGTCATCGCTGGTCGAAGAAGACTTCCAGTCTTTGTACTTATGAATGCTGGAAATGCAAGAGACCTGGACACCTTGCTCAAGATTGTTTGGTGATGACAAATAACCAGGTGAAATGCTGTAAATCAACATGCAAGGTGACTGACATCAAGGATCTTTTGGCATGCCAGTACTGTTTCGATAAAGCTTTTGATAAGTTCTATGACATGTATACTGCATCTTGGAAAGGAACTGGTCTTTCAATCATATCAGGTTCTATTTGCTGTGAAGATCACTTTGATTGGCATCGTATGAACTGTTTCAATGCTGGTGTGGAAGACAGTGCATATATTATCAGTAGGACACCCCTGAGAGAGAAGCATATTCAGCTTAGTGACTTCATCTTCTGA
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 zf-HIT

Protein Analysis

383

Amino Acids

43.4

Weight (kDa)

5.69

Isoelectric Point (pI)

50.99

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-HIT PF04438 185 - 212 2.1e-06 HIT zinc finger
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)
Acc36I ACCTGC 1 cut(s) 245
AccI GTMKAC 1 cut(s) 974
AccII CGCG 2 cut(s) 273, 321
AciI CCGC 7 cut(s) 209, 230, 237, 284, 287, 297, 374
AclWI GGATC 5 cut(s) 269, 470, 665, 678, 924
AcsI RAATTY 3 cut(s) 164, 415, 484
AcuI CTGAAG 2 cut(s) 237, 435
AfaI GTAC 3 cut(s) 423, 802, 935
AfiI CCNNNNNNNGG 5 cut(s) 293, 296, 548, 708, 740
AflIII ACRYGT 1 cut(s) 969
AgsI TTSAA 5 cut(s) 77, 314, 362, 1005, 1066
AhdI GACNNNNNGTC 2 cut(s) 695, 792
AjnI CCWGG 3 cut(s) 547, 829, 870
AluBI AGCT 6 cut(s) 182, 341, 638, 653, 950, 1132
AluI AGCT 6 cut(s) 182, 341, 638, 653, 950, 1132
Alw26I GTCTC 4 cut(s) 65, 596, 703, 820
AlwI GGATC 5 cut(s) 269, 470, 665, 678, 924
AoxI GGCC 1 cut(s) 710
ApaI GGGCCC 1 cut(s) 714
ApeKI GCWGC 2 cut(s) 469, 621
ApoI RAATTY 3 cut(s) 164, 415, 484
Asp700I GAANNNNTTC 1 cut(s) 1061
AspLEI GCGC 2 cut(s) 273, 321
AspS9I GGNCC 4 cut(s) 52, 326, 710, 711
AsuC2I CCSGG 1 cut(s) 709
AsuHPI GGTGA 5 cut(s) 536, 755, 868, 886, 913
AvaII GGWCC 2 cut(s) 52, 326
BaeGI GKGCMC 1 cut(s) 714
BamHI GGATCC 1 cut(s) 670
BanII GRGCYC 1 cut(s) 714
BbsI GAAGAC 4 cut(s) 137, 753, 791, 1086
BbvI GCAGC 2 cut(s) 481, 633
BccI CCATC 2 cut(s) 317, 503
BceAI ACGGC 1 cut(s) 267
BciT130I CCWGG 3 cut(s) 549, 831, 872
BcnI CCSGG 1 cut(s) 709
BcoDI GTCTC 4 cut(s) 65, 596, 703, 820
BfmI CTRYAG 1 cut(s) 619
BfuAI ACCTGC 1 cut(s) 245
BglI GCCNNNNNGGC 1 cut(s) 251
BisI GCNGC 4 cut(s) 237, 287, 470, 622
BlsI GCNGC 4 cut(s) 238, 288, 471, 623
BmcAI AGTACT 1 cut(s) 935
Bme1390I CCNGG 4 cut(s) 549, 709, 831, 872
Bme18I GGWCC 2 cut(s) 52, 326
BmeRI GACNNNNNGTC 2 cut(s) 695, 792
BmgT120I GGNCC 4 cut(s) 52, 326, 710, 711
BmiI GGNNCC 2 cut(s) 672, 712
BmrFI CCNGG 4 cut(s) 549, 709, 831, 872
BmsI GCATC 3 cut(s) 232, 989, 1057
BoxI GACNNNNGTC 1 cut(s) 57
BpiI GAAGAC 4 cut(s) 137, 753, 791, 1086
BpuEI CTTGAG 1 cut(s) 828
BpuMI CCSGG 1 cut(s) 709
BsaBI GATNNNNATC 1 cut(s) 1047
BsaI GGTCTC 1 cut(s) 820
BsaJI CCNNGG 2 cut(s) 85, 547
Bsc4I CCNNNNNNNGG 5 cut(s) 293, 296, 548, 708, 740
Bse118I RCCGGY 1 cut(s) 197
Bse1I ACTGG 4 cut(s) 651, 792, 931, 1000
Bse3DI GCAATG 2 cut(s) 208, 688
Bse8I GATNNNNATC 1 cut(s) 1047
BseBI CCWGG 3 cut(s) 549, 831, 872
BseDI CCNNGG 2 cut(s) 85, 547
BseGI GGATG 3 cut(s) 223, 382, 613
BseJI GATNNNNATC 1 cut(s) 1047
BseLI CCNNNNNNNGG 5 cut(s) 293, 296, 548, 708, 740
BseMI GCAATG 2 cut(s) 208, 688
BseMII CTCAG 3 cut(s) 70, 630, 1103
BseNI ACTGG 4 cut(s) 651, 792, 931, 1000
BseRI GAGGAG 1 cut(s) 55
BseSI GKGCMC 1 cut(s) 714
BseXI GCAGC 2 cut(s) 481, 633
BsgI GTGCAG 1 cut(s) 541
Bsh1236I CGCG 2 cut(s) 273, 321
BshFI GGCC 1 cut(s) 712
BsiSI CCGG 2 cut(s) 198, 708
BslI CCNNNNNNNGG 5 cut(s) 293, 296, 548, 708, 740
BsmAI GTCTC 4 cut(s) 65, 596, 703, 820
BsmBI CGTCTC 1 cut(s) 596
BsmI GAATGC 1 cut(s) 815
BsnI GGCC 1 cut(s) 712
Bso31I GGTCTC 1 cut(s) 820
Bsp120I GGGCCC 1 cut(s) 710
Bsp1286I GDGCHC 1 cut(s) 714
Bsp143I GATC 5 cut(s) 274, 475, 670, 916, 1033
BspACI CCGC 7 cut(s) 209, 230, 237, 284, 287, 297, 374
BspANI GGCC 1 cut(s) 712
BspCNI CTCAG 3 cut(s) 69, 631, 1104
BspFNI CGCG 2 cut(s) 273, 321
BspLI GGNNCC 2 cut(s) 672, 712
BspMAI CTGCAG 1 cut(s) 623
BspMI ACCTGC 1 cut(s) 245
BspPI GGATC 5 cut(s) 269, 470, 665, 678, 924
BspQI GCTCTTC 1 cut(s) 309
BspTNI GGTCTC 1 cut(s) 820
BsrDI GCAATG 2 cut(s) 208, 688
BsrFI RCCGGY 1 cut(s) 197
BsrI ACTGG 4 cut(s) 651, 792, 931, 1000
BssAI RCCGGY 1 cut(s) 197
BssECI CCNNGG 2 cut(s) 85, 547
BssMI GATC 5 cut(s) 274, 475, 670, 916, 1033
BssNAI GTATAC 1 cut(s) 975
BssT1I CCWWGG 1 cut(s) 85
Bst1107I GTATAC 1 cut(s) 975
Bst2UI CCWGG 3 cut(s) 549, 831, 872
Bst4CI ACNGT 6 cut(s) 136, 426, 434, 938, 1061, 1085
Bst6I CTCTTC 3 cut(s) 122, 309, 456
BstAPI GCANNNNNTGC 1 cut(s) 630
BstC8I GCNNGC 4 cut(s) 234, 269, 354, 928
BstDEI CTNAG 4 cut(s) 56, 639, 1112, 1133
BstENI CCTNNNNNAGG 1 cut(s) 546
BstF5I GGATG 3 cut(s) 223, 382, 613
BstFNI CGCG 2 cut(s) 273, 321
BstHHI GCGC 2 cut(s) 273, 321
BstKTI GATC 5 cut(s) 277, 478, 673, 919, 1036
BstMAI GTCTC 4 cut(s) 65, 596, 703, 820
BstMBI GATC 5 cut(s) 274, 475, 670, 916, 1033
BstMWI GCNNNNNNNGC 6 cut(s) 242, 251, 353, 630, 819, 1129
BstNI CCWGG 3 cut(s) 549, 831, 872
BstNSI RCATGY 3 cut(s) 897, 930, 973
BstPAI GACNNNNGTC 1 cut(s) 57
BstSCI CCNGG 4 cut(s) 547, 707, 829, 870
BstSFI CTRYAG 1 cut(s) 619
BstSLI GKGCMC 1 cut(s) 714
BstUI CGCG 2 cut(s) 273, 321
BstV1I GCAGC 2 cut(s) 481, 633
BstV2I GAAGAC 4 cut(s) 137, 753, 791, 1086
BstX2I RGATCY 2 cut(s) 670, 916
BstYI RGATCY 2 cut(s) 670, 916
BstZ17I GTATAC 1 cut(s) 975
BsuRI GGCC 1 cut(s) 712
BtgZI GCGATG 3 cut(s) 175, 336, 755
BtsCI GGATG 3 cut(s) 223, 382, 613
BtsIMutI CAGTG 2 cut(s) 439, 1090
BveI ACCTGC 1 cut(s) 245
Cac8I GCNNGC 4 cut(s) 234, 269, 354, 928
CfoI GCGC 2 cut(s) 273, 321
Cfr10I RCCGGY 1 cut(s) 197
Cfr13I GGNCC 4 cut(s) 52, 326, 710, 711
CsiI ACCWGGT 1 cut(s) 870
Csp6I GTAC 3 cut(s) 422, 801, 934
CviAII CATG 7 cut(s) 408, 473, 625, 730, 894, 927, 970
CviJI RGCY 8 cut(s) 182, 236, 341, 638, 653, 712, 950, 1132
CviKI_1 RGCY 8 cut(s) 182, 236, 341, 638, 653, 712, 950, 1132
CviQI GTAC 3 cut(s) 422, 801, 934
DdeI CTNAG 4 cut(s) 56, 639, 1112, 1133
DpnI GATC 5 cut(s) 276, 477, 672, 918, 1035
DpnII GATC 5 cut(s) 274, 475, 670, 916, 1033
DraI TTTAAA 1 cut(s) 414
DriI GACNNNNNGTC 2 cut(s) 695, 792
Eam1104I CTCTTC 3 cut(s) 122, 309, 456
Eam1105I GACNNNNNGTC 2 cut(s) 695, 792
EarI CTCTTC 3 cut(s) 122, 309, 456
EciI GGCGGA 3 cut(s) 198, 219, 312
Eco130I CCWWGG 1 cut(s) 85
Eco24I GRGCYC 1 cut(s) 714
Eco31I GGTCTC 1 cut(s) 820
Eco47I GGWCC 2 cut(s) 52, 326
Eco57I CTGAAG 2 cut(s) 237, 435
EcoNI CCTNNNNNAGG 1 cut(s) 546
EcoO109I RGGNCCY 1 cut(s) 52
EcoRI GAATTC 1 cut(s) 164
EcoRII CCWGG 3 cut(s) 547, 829, 870
EcoT14I CCWWGG 1 cut(s) 85
EcoT38I GRGCYC 1 cut(s) 714
ErhI CCWWGG 1 cut(s) 85
Esp3I CGTCTC 1 cut(s) 596
FaeI CATG 7 cut(s) 411, 476, 628, 733, 897, 930, 973
FatI CATG 7 cut(s) 407, 472, 624, 729, 893, 926, 969
FblI GTMKAC 1 cut(s) 974
Fnu4HI GCNGC 4 cut(s) 237, 287, 470, 622
FokI GGATG 3 cut(s) 210, 389, 620
FriOI GRGCYC 1 cut(s) 714
Fsp4HI GCNGC 4 cut(s) 237, 287, 470, 622
GlaI GCGC 2 cut(s) 272, 320
GluI GCNGC 4 cut(s) 237, 287, 470, 622
HaeIII GGCC 1 cut(s) 712
HapII CCGG 2 cut(s) 198, 708
HhaI GCGC 2 cut(s) 273, 321
Hin1II CATG 7 cut(s) 411, 476, 628, 733, 897, 930, 973
Hin6I GCGC 2 cut(s) 271, 319
HinP1I GCGC 2 cut(s) 271, 319
HindIII AAGCTT 2 cut(s) 339, 948
HinfI GANTC 1 cut(s) 503
HpaII CCGG 2 cut(s) 198, 708
HphI GGTGA 5 cut(s) 536, 755, 868, 886, 913
Hpy166II GTNNAC 4 cut(s) 263, 493, 530, 975
Hpy188I TCNGA 3 cut(s) 454, 508, 1151
Hpy188III TCNNGA 2 cut(s) 215, 845
Hpy8I GTNNAC 4 cut(s) 263, 493, 530, 975
Hpy99I CGWCG 1 cut(s) 10
HpyAV CCTTC 4 cut(s) 42, 43, 105, 109
HpyCH4III ACNGT 6 cut(s) 136, 426, 434, 938, 1061, 1085
HpyCH4IV ACGT 1 cut(s) 766
HpyCH4V TGCA 9 cut(s) 347, 522, 597, 621, 633, 822, 897, 980, 1088
HpyF10VI GCNNNNNNNGC 6 cut(s) 242, 251, 353, 630, 819, 1129
HpyF3I CTNAG 4 cut(s) 56, 639, 1112, 1133
HpySE526I ACGT 1 cut(s) 766
Hsp92II CATG 7 cut(s) 411, 476, 628, 733, 897, 930, 973
HspAI GCGC 2 cut(s) 271, 319
Kzo9I GATC 5 cut(s) 274, 475, 670, 916, 1033
LguI GCTCTTC 1 cut(s) 309
LmnI GCTCC 1 cut(s) 211
Lsp1109I GCAGC 2 cut(s) 481, 633
LweI GCATC 3 cut(s) 232, 989, 1057
MabI ACCWGGT 1 cut(s) 870
MaeII ACGT 1 cut(s) 766
MaeIII GTNAC 3 cut(s) 642, 901, 1136
MalI GATC 5 cut(s) 276, 477, 672, 918, 1035
MboI GATC 5 cut(s) 274, 475, 670, 916, 1033
MflI RGATCY 2 cut(s) 670, 916
MhlI GDGCHC 1 cut(s) 714
MluCI AATT 6 cut(s) 164, 309, 365, 403, 415, 484
MnlI CCTC 9 cut(s) 3, 65, 76, 92, 180, 222, 237, 489, 552
MroXI GAANNNNTTC 1 cut(s) 1061
MseI TTAA 4 cut(s) 368, 413, 657, 677
MslI CAYNNNNRTG 1 cut(s) 498
MspI CCGG 2 cut(s) 198, 708
MspR9I CCNGG 4 cut(s) 549, 709, 831, 872
Mva1269I GAATGC 1 cut(s) 815
MvaI CCWGG 3 cut(s) 549, 831, 872
MvnI CGCG 2 cut(s) 273, 321
MwoI GCNNNNNNNGC 6 cut(s) 242, 251, 353, 630, 819, 1129
NciI CCSGG 1 cut(s) 709
NdeII GATC 5 cut(s) 274, 475, 670, 916, 1033
NlaIII CATG 7 cut(s) 411, 476, 628, 733, 897, 930, 973
NlaIV GGNNCC 2 cut(s) 672, 712
NmuCI GTSAC 2 cut(s) 901, 1136
NspI RCATGY 3 cut(s) 897, 930, 973
PaeI GCATGC 1 cut(s) 930
PciI ACATGT 1 cut(s) 969
PciSI GCTCTTC 1 cut(s) 309
PcsI WCGNNNNNNNCGW 1 cut(s) 11
PctI GAATGC 1 cut(s) 815
PdmI GAANNNNTTC 1 cut(s) 1061
PfeI GAWTC 1 cut(s) 503
PkrI GCNGC 4 cut(s) 238, 288, 471, 623
PpuMI RGGWCCY 1 cut(s) 52
PscI ACATGT 1 cut(s) 969
PshAI GACNNNNGTC 1 cut(s) 57
Psp5II RGGWCCY 1 cut(s) 52
Psp6I CCWGG 3 cut(s) 547, 829, 870
PspGI CCWGG 3 cut(s) 547, 829, 870
PspN4I GGNNCC 2 cut(s) 672, 712
PspOMI GGGCCC 1 cut(s) 710
PspPI GGNCC 4 cut(s) 52, 326, 710, 711
PspPPI RGGWCCY 1 cut(s) 52
PstI CTGCAG 1 cut(s) 623
PsuI RGATCY 2 cut(s) 670, 916
RsaI GTAC 3 cut(s) 423, 802, 935
RsaNI GTAC 3 cut(s) 422, 801, 934
RseI CAYNNNNRTG 1 cut(s) 498
SapI GCTCTTC 1 cut(s) 309
SaqAI TTAA 4 cut(s) 368, 413, 657, 677
SatI GCNGC 4 cut(s) 237, 287, 470, 622
Sau3AI GATC 5 cut(s) 274, 475, 670, 916, 1033
Sau96I GGNCC 4 cut(s) 52, 326, 710, 711
ScaI AGTACT 1 cut(s) 935
ScrFI CCNGG 4 cut(s) 549, 709, 831, 872
SduI GDGCHC 1 cut(s) 714
SexAI ACCWGGT 1 cut(s) 870
SfaNI GCATC 3 cut(s) 232, 989, 1057
SfcI CTRYAG 1 cut(s) 619
SinI GGWCC 2 cut(s) 52, 326
SmiMI CAYNNNNRTG 1 cut(s) 498
SmlI CTYRAG 1 cut(s) 843
SmoI CTYRAG 1 cut(s) 843
SphI GCATGC 1 cut(s) 930
Sse9I AATT 6 cut(s) 164, 309, 365, 403, 415, 484
SsiI CCGC 7 cut(s) 209, 230, 237, 284, 287, 297, 374
StyD4I CCNGG 4 cut(s) 547, 707, 829, 870
StyI CCWWGG 1 cut(s) 85
TaaI ACNGT 6 cut(s) 136, 426, 434, 938, 1061, 1085
TaiI ACGT 1 cut(s) 769
TaqI TCGA 3 cut(s) 162, 779, 942
TasI AATT 6 cut(s) 164, 309, 365, 403, 415, 484
TatI WGTACW 2 cut(s) 800, 933
TauI GCSGC 2 cut(s) 239, 289
TfiI GAWTC 1 cut(s) 503
Tru1I TTAA 4 cut(s) 368, 413, 657, 677
Tru9I TTAA 4 cut(s) 368, 413, 657, 677
TscAI CASTG 2 cut(s) 439, 1090
TseFI GTSAC 2 cut(s) 901, 1136
TseI GCWGC 2 cut(s) 469, 621
Tsp45I GTSAC 2 cut(s) 901, 1136
TspDTI ATGAA 7 cut(s) 396, 516, 699, 777, 822, 1070, 1132
TspGWI ACGGA 3 cut(s) 58, 597, 620
TspRI CASTG 2 cut(s) 439, 1090
VpaK11BI GGWCC 2 cut(s) 52, 326
XagI CCTNNNNNAGG 1 cut(s) 546
XapI RAATTY 3 cut(s) 164, 415, 484
XceI RCATGY 3 cut(s) 897, 930, 973
XmiI GTMKAC 1 cut(s) 974
XmnI GAANNNNTTC 1 cut(s) 1061
ZrmI AGTACT 1 cut(s) 935
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.