Rorug02G0016500

zinc finger CCCH domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000002
OG0018342
Physical Location & Seq
Forward (+)
1393910 .. 1395503
1594 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug02G0016500.1

Sequence Viewer

Length: 882 bp
ATGGGTGAACTTTTGAAGACTACTAACAAGAGAAATAAGAAGCAGGAGTCAAAAAAAGCTTCTTCTAGTCCAAATAATCATCCTTCTAAAAAGCAATCCAGAAAGGGGGAAAATCCCATCCGACTCTCACCAGCTTCTGAGCAGTCTCCAGATTTTGGATATTCAAACTCATGGATCTGTAAAAACTCTGCTTGTAGAGCTAGAAGGTGGGAGTTGTTGATCTTGGGCAATTGTAGTTATTGTTGTGCTTCATGCGGTAGAGTTTCTGGGATACTTGGAATTTGGAAGAAGCAGCTACTCATAGCAAAGGATGCTCGACGTGTTGATGTACAATGGGACAAGATAAAGATATGCTTGAGTTATAGCCTTATAGGCTTCTGGATGGAACTTCAAGGTTTGAAAGAACTTCATGATATTGTGAAGGAAGCCAAGACTAAACTCGAGACAGAACTAGGTCCAATTAATGTACGTGGGATAGTCAGCAGACTATCTATTGCTGGTGATGTGCTGAAACTCTGCTCTCTTGCAATTGAGAAACCAGATGAATGTTGGCCAATGTTTCTAGTGCAGATCCAAGAAGAGGGTTCACTTCCAGCTGCCTGCATGTTTCTCTTGGAGGAAGTAACACCTTCATATGTTGTGATTATAATGATCGGACTGTCTAATGCATCATCTGATGACATCAAGGGCTACAAGCTCTGGTATTACAAGAGCAGAGAAGAATCACACACAAAAGAGCCTAATTGTACCTTTTCAAGATCTCAGAGAAGAATTTTGATCTCCAATTTGCAGCCTTGCACAGAGTATACATTTAGGATAATATCTGATACTGAGGCTGGTGATTTGGGTCACTCTGAGGCAGTGTTTCACCAAGAGTGTTGA
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
Plus-3 SWIB

Protein Analysis

293

Amino Acids

33.13

Weight (kDa)

8.71

Isoelectric Point (pI)

61.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Fn3_VIN3 PF23376 204 - 289 1.4e-27 VIN3-like, fibronectin type-III 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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Orthologous Genes (Group: OG0018342)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g05690 FvH4_4g12500
rosa_chinensis RchiOBHm_Chr2g0091341
rosa_laevigata RLG00000016213
rosa_rugosa Rorug02G0016500
rosa_samantha Rh2AG061400 Rh2BG060800 Rh2CG062800 Rh2DG061400
rosa_wichuraiana Rw2G004830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 647
AccB7I CCANNNNNTGG 1 cut(s) 155
AccI GTMKAC 1 cut(s) 806
AciI CCGC 1 cut(s) 255
AclWI GGATC 2 cut(s) 182, 565
AcoI YGGCCR 1 cut(s) 551
AcsI RAATTY 2 cut(s) 279, 771
AfaI GTAC 3 cut(s) 330, 468, 748
AfiI CCNNNNNNNGG 3 cut(s) 105, 155, 580
AflIII ACRYGT 1 cut(s) 319
AgsI TTSAA 5 cut(s) 16, 165, 392, 400, 756
AjiI CACGTC 1 cut(s) 320
AluBI AGCT 6 cut(s) 59, 134, 200, 295, 596, 697
AluI AGCT 6 cut(s) 59, 134, 200, 295, 596, 697
Alw26I GTCTC 2 cut(s) 150, 437
AlwI GGATC 2 cut(s) 182, 565
AlwNI CAGNNNCTG 1 cut(s) 137
Ama87I CYCGRG 1 cut(s) 440
AoxI GGCC 1 cut(s) 551
ApeKI GCWGC 3 cut(s) 292, 596, 790
ApoI RAATTY 2 cut(s) 279, 771
AseI ATTAAT 1 cut(s) 462
AspS9I GGNCC 1 cut(s) 455
AsuHPI GGTGA 5 cut(s) 17, 120, 512, 851, 860
AvaI CYCGRG 1 cut(s) 440
AvaII GGWCC 1 cut(s) 455
BalI TGGCCA 1 cut(s) 553
BbsI GAAGAC 1 cut(s) 23
BbvI GCAGC 3 cut(s) 304, 583, 802
BccI CCATC 2 cut(s) 125, 376
BciVI GTATCC 1 cut(s) 264
BcoDI GTCTC 2 cut(s) 150, 437
BfaI CTAG 4 cut(s) 66, 201, 452, 563
BfuI GTATCC 1 cut(s) 264
BglI GCCNNNNNGGC 1 cut(s) 372
BglII AGATCT 1 cut(s) 758
BisI GCNGC 3 cut(s) 293, 597, 791
BlsI GCNGC 3 cut(s) 294, 598, 792
Bme18I GGWCC 1 cut(s) 455
BmeT110I CYCGRG 1 cut(s) 440
BmgBI CACGTC 1 cut(s) 320
BmgT120I GGNCC 1 cut(s) 455
BmsI GCATC 2 cut(s) 301, 677
BpiI GAAGAC 1 cut(s) 23
BpmI CTGGAG 1 cut(s) 132
BpuEI CTTGAG 1 cut(s) 376
BsaAI YACGTR 1 cut(s) 470
Bsc4I CCNNNNNNNGG 3 cut(s) 105, 155, 580
BseGI GGATG 4 cut(s) 79, 117, 316, 387
BseLI CCNNNNNNNGG 3 cut(s) 105, 155, 580
BseMII CTCAG 4 cut(s) 129, 776, 822, 846
BseXI GCAGC 3 cut(s) 304, 583, 802
BsgI GTGCAG 1 cut(s) 587
BshFI GGCC 1 cut(s) 553
BsiHKCI CYCGRG 1 cut(s) 440
BslFI GGGAC 1 cut(s) 350
BslI CCNNNNNNNGG 3 cut(s) 105, 155, 580
BsmAI GTCTC 2 cut(s) 150, 437
BsmFI GGGAC 1 cut(s) 350
BsnI GGCC 1 cut(s) 553
BsoBI CYCGRG 1 cut(s) 440
Bsp1407I TGTACA 1 cut(s) 328
Bsp143I GATC 6 cut(s) 174, 219, 570, 651, 758, 777
BspACI CCGC 1 cut(s) 255
BspANI GGCC 1 cut(s) 553
BspCNI CTCAG 4 cut(s) 130, 775, 823, 847
BspHI TCATGA 1 cut(s) 409
BspPI GGATC 2 cut(s) 182, 565
BsrGI TGTACA 1 cut(s) 328
BssMI GATC 6 cut(s) 174, 219, 570, 651, 758, 777
BssNAI GTATAC 1 cut(s) 807
Bst1107I GTATAC 1 cut(s) 807
Bst4CI ACNGT 1 cut(s) 660
Bst6I CTCTTC 1 cut(s) 573
BstAPI GCANNNNNTGC 1 cut(s) 311
BstAUI TGTACA 1 cut(s) 328
BstBAI YACGTR 1 cut(s) 470
BstC8I GCNNGC 1 cut(s) 601
BstDEI CTNAG 4 cut(s) 138, 762, 831, 855
BstF5I GGATG 4 cut(s) 79, 117, 316, 387
BstKTI GATC 6 cut(s) 177, 222, 573, 654, 761, 780
BstMAI GTCTC 2 cut(s) 150, 437
BstMBI GATC 6 cut(s) 174, 219, 570, 651, 758, 777
BstMWI GCNNNNNNNGC 3 cut(s) 197, 311, 372
BstNSI RCATGY 1 cut(s) 607
BstV1I GCAGC 3 cut(s) 304, 583, 802
BstV2I GAAGAC 1 cut(s) 23
BstX2I RGATCY 3 cut(s) 174, 570, 758
BstYI RGATCY 3 cut(s) 174, 570, 758
BstZ17I GTATAC 1 cut(s) 807
BsuI GTATCC 1 cut(s) 264
BsuRI GGCC 1 cut(s) 553
BtrI CACGTC 1 cut(s) 320
BtsCI GGATG 4 cut(s) 79, 117, 316, 387
BtsI GCAGTG 1 cut(s) 867
BtsIMutI CAGTG 1 cut(s) 867
Cac8I GCNNGC 1 cut(s) 601
CaiI CAGNNNCTG 1 cut(s) 137
CciI TCATGA 1 cut(s) 409
Cfr13I GGNCC 1 cut(s) 455
Csp6I GTAC 3 cut(s) 329, 467, 747
CviAII CATG 4 cut(s) 171, 252, 410, 604
CviQI GTAC 3 cut(s) 329, 467, 747
DdeI CTNAG 4 cut(s) 138, 762, 831, 855
DpnI GATC 6 cut(s) 176, 221, 572, 653, 760, 779
DpnII GATC 6 cut(s) 174, 219, 570, 651, 758, 777
EaeI YGGCCR 1 cut(s) 551
Eam1104I CTCTTC 1 cut(s) 573
EarI CTCTTC 1 cut(s) 573
Eco47I GGWCC 1 cut(s) 455
Eco88I CYCGRG 1 cut(s) 440
EcoT22I ATGCAT 1 cut(s) 670
FaeI CATG 4 cut(s) 174, 255, 413, 607
FalI AAGNNNNNCTT 2 cut(s) 338, 370
FaqI GGGAC 1 cut(s) 350
FatI CATG 4 cut(s) 170, 251, 409, 603
FauNDI CATATG 1 cut(s) 634
FblI GTMKAC 1 cut(s) 806
Fnu4HI GCNGC 3 cut(s) 293, 597, 791
FokI GGATG 4 cut(s) 66, 104, 323, 394
Fsp4HI GCNGC 3 cut(s) 293, 597, 791
FspBI CTAG 4 cut(s) 66, 201, 452, 563
GluI GCNGC 3 cut(s) 293, 597, 791
GsuI CTGGAG 1 cut(s) 132
HaeIII GGCC 1 cut(s) 553
Hin1II CATG 4 cut(s) 174, 255, 413, 607
HindIII AAGCTT 1 cut(s) 57
HinfI GANTC 3 cut(s) 47, 123, 722
HphI GGTGA 5 cut(s) 17, 120, 512, 851, 860
Hpy166II GTNNAC 3 cut(s) 8, 587, 807
Hpy188I TCNGA 7 cut(s) 122, 139, 656, 676, 765, 826, 856
Hpy188III TCNNGA 6 cut(s) 99, 149, 379, 410, 442, 756
Hpy8I GTNNAC 3 cut(s) 8, 587, 807
Hpy99I CGWCG 1 cut(s) 321
HpyAV CCTTC 4 cut(s) 93, 198, 415, 639
HpyCH4III ACNGT 1 cut(s) 660
HpyCH4IV ACGT 2 cut(s) 319, 469
HpyCH4V TGCA 6 cut(s) 527, 568, 603, 668, 790, 798
HpyF10VI GCNNNNNNNGC 3 cut(s) 197, 311, 372
HpyF3I CTNAG 4 cut(s) 138, 762, 831, 855
HpySE526I ACGT 2 cut(s) 319, 469
Hsp92II CATG 4 cut(s) 174, 255, 413, 607
Kzo9I GATC 6 cut(s) 174, 219, 570, 651, 758, 777
Lsp1109I GCAGC 3 cut(s) 304, 583, 802
LweI GCATC 2 cut(s) 301, 677
MaeI CTAG 4 cut(s) 66, 201, 452, 563
MaeII ACGT 2 cut(s) 319, 469
MaeIII GTNAC 2 cut(s) 622, 848
MalI GATC 6 cut(s) 176, 221, 572, 653, 760, 779
MboI GATC 6 cut(s) 174, 219, 570, 651, 758, 777
MboII GAAGA 6 cut(s) 28, 54, 298, 590, 731, 780
MfeI CAATTG 2 cut(s) 229, 528
MflI RGATCY 3 cut(s) 174, 570, 758
MlsI TGGCCA 1 cut(s) 553
MluCI AATT 7 cut(s) 229, 279, 459, 528, 742, 771, 784
MluNI TGGCCA 1 cut(s) 553
MlyI GAGTC 2 cut(s) 56, 117
MmeI TCCRAC 1 cut(s) 145
MnlI CCTC 4 cut(s) 574, 610, 826, 850
Mox20I TGGCCA 1 cut(s) 553
Mph1103I ATGCAT 1 cut(s) 670
MscI TGGCCA 1 cut(s) 553
MseI TTAA 1 cut(s) 462
Msp20I TGGCCA 1 cut(s) 553
MspA1I CMGCKG 1 cut(s) 596
MunI CAATTG 2 cut(s) 229, 528
MwoI GCNNNNNNNGC 3 cut(s) 197, 311, 372
NdeI CATATG 1 cut(s) 634
NdeII GATC 6 cut(s) 174, 219, 570, 651, 758, 777
NlaIII CATG 4 cut(s) 174, 255, 413, 607
NmuCI GTSAC 1 cut(s) 848
NsiI ATGCAT 1 cut(s) 670
NspI RCATGY 1 cut(s) 607
PaeR7I CTCGAG 1 cut(s) 440
PagI TCATGA 1 cut(s) 409
PfeI GAWTC 1 cut(s) 722
PflMI CCANNNNNTGG 1 cut(s) 155
PkrI GCNGC 3 cut(s) 294, 598, 792
PleI GAGTC 2 cut(s) 55, 117
PpsI GAGTC 2 cut(s) 55, 117
Ppu21I YACGTR 1 cut(s) 470
PshBI ATTAAT 1 cut(s) 462
PsiI TTATAA 1 cut(s) 647
PspPI GGNCC 1 cut(s) 455
PstNI CAGNNNCTG 1 cut(s) 137
PsuI RGATCY 3 cut(s) 174, 570, 758
PvuII CAGCTG 1 cut(s) 596
RsaI GTAC 3 cut(s) 330, 468, 748
RsaNI GTAC 3 cut(s) 329, 467, 747
SaqAI TTAA 1 cut(s) 462
SatI GCNGC 3 cut(s) 293, 597, 791
Sau3AI GATC 6 cut(s) 174, 219, 570, 651, 758, 777
Sau96I GGNCC 1 cut(s) 455
SchI GAGTC 2 cut(s) 56, 117
SfaNI GCATC 2 cut(s) 301, 677
Sfr274I CTCGAG 1 cut(s) 440
SinI GGWCC 1 cut(s) 455
SlaI CTCGAG 1 cut(s) 440
SmlI CTYRAG 2 cut(s) 355, 440
SmoI CTYRAG 2 cut(s) 355, 440
Sse9I AATT 7 cut(s) 229, 279, 459, 528, 742, 771, 784
SsiI CCGC 1 cut(s) 255
SspMI CTAG 4 cut(s) 66, 201, 452, 563
TaaI ACNGT 1 cut(s) 660
TaiI ACGT 2 cut(s) 322, 472
TaqI TCGA 2 cut(s) 316, 441
TasI AATT 7 cut(s) 229, 279, 459, 528, 742, 771, 784
TatI WGTACW 1 cut(s) 328
TfiI GAWTC 1 cut(s) 722
Tru1I TTAA 1 cut(s) 462
Tru9I TTAA 1 cut(s) 462
TscAI CASTG 1 cut(s) 867
TseFI GTSAC 1 cut(s) 848
TseI GCWGC 3 cut(s) 292, 596, 790
Tsp45I GTSAC 1 cut(s) 848
TspDTI ATGAA 4 cut(s) 240, 398, 558, 621
TspRI CASTG 1 cut(s) 867
Van91I CCANNNNNTGG 1 cut(s) 155
VpaK11BI GGWCC 1 cut(s) 455
VspI ATTAAT 1 cut(s) 462
XapI RAATTY 2 cut(s) 279, 771
XceI RCATGY 1 cut(s) 607
XcmI CCANNNNNNNNNTGG 1 cut(s) 546
XhoI CTCGAG 1 cut(s) 440
XmiI GTMKAC 1 cut(s) 806
XspI CTAG 4 cut(s) 66, 201, 452, 563
Zsp2I ATGCAT 1 cut(s) 670
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.