Rorug06G0109100

YqaJ-like viral recombinase domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0002455
Physical Location & Seq
Reverse (-)
14761694 .. 14762407
714 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0109100.1

Sequence Viewer

Length: 714 bp
ATGGAAGGCTATAATCTTCTCATGACTATTTTCACCTACGAAATAAACACTTTTGACAAACCGGACCAGTATGTGGAGGACCCTTCTCAACCTGTGCTCGCCGTTAAGTTTGACTACGCCGAGCATCATAGATATGGCATATACTCCCCACAATATGATACCCCAATCCATCATTCTATCAAGAAAGAAGATCCCCATGTAAGTCGATTCACTCTGGCCGAGTTCAAAAGCGACGAAGATGACGAGTGGAAGGAGCGTCTTTATTATGTACTGGACTCATTCAACGTCGCTGAGGAAGAGCAAGACGAAATCGTGGATAAGATCATTGAAGTGTTTAACAGAGAAATTGGAACATTGGGTTCCGACAATGATCCAAAAATACTGGCATTGAGTGTAGATATGAAGCTAACGCATTTCCTGGTGTGTCAGCGAGAATTAGTGGCGAGGGAACTGAGAAAGAGGATGCTCAAGAGGGTCAGAGTGGTGAAAGATGACGAGGTTGAGGAGGATCAATATCGAGAGGGCAGAAAGAGGCGTAAGATCGTAGGTGAGAGTGACAGCTGCACCATCTGTTTGGAGGAATTTGGTGCTGAAAACGACGATGTTCTCTGTATGCCGTGCTCGCATGTGTTTCACGGCAAGGAATGCATAGAGAAATGGCTGAGAGAAAATGACAATTGCCCGGTTTGCCGCTTCCAGCTACATGTTTGTTAG
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
YqaJ

Protein Analysis

237

Amino Acids

28.05

Weight (kDa)

4.92

Isoelectric Point (pI)

44.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-C3HC4_3 PF13920 185 - 231 1.5e-07 Zinc finger, C3HC4 type (RING finger)
zf-RING_2 PF13639 186 - 231 1.7e-14 Ring finger domain
zf-RING_11 PF17123 188 - 214 2.2e-08 RING-like zinc finger
zf-C3HC4_2 PF13923 188 - 230 1.2e-07 Zinc finger, C3HC4 type (RING finger)
zf-C3HC4 PF00097 188 - 230 7.7e-06 Zinc finger, C3HC4 type (RING finger)
zf-rbx1 PF12678 200 - 231 9.4e-07 RING-H2 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 73
AciI CCGC 1 cut(s) 691
AclWI GGATC 3 cut(s) 185, 365, 516
AcoI YGGCCR 1 cut(s) 216
AcsI RAATTY 1 cut(s) 581
AfaI GTAC 1 cut(s) 270
AfiI CCNNNNNNNGG 1 cut(s) 73
AflIII ACRYGT 1 cut(s) 703
AgsI TTSAA 3 cut(s) 226, 283, 329
AjnI CCWGG 1 cut(s) 417
AjuI GAANNNNNNNTTGG 2 cut(s) 157, 189
AluBI AGCT 3 cut(s) 406, 561, 700
AluI AGCT 3 cut(s) 406, 561, 700
Alw21I GWGCWC 2 cut(s) 99, 623
AlwI GGATC 3 cut(s) 185, 365, 516
AoxI GGCC 1 cut(s) 216
ApeKI GCWGC 1 cut(s) 561
ApoI RAATTY 1 cut(s) 581
AspS9I GGNCC 2 cut(s) 64, 79
AsuC2I CCSGG 1 cut(s) 683
AsuHPI GGTGA 3 cut(s) 25, 496, 560
AvaII GGWCC 2 cut(s) 64, 79
Bbv12I GWGCWC 2 cut(s) 99, 623
BbvCI CCTCAGC 1 cut(s) 291
BbvI GCAGC 1 cut(s) 548
BccI CCATC 2 cut(s) 177, 575
BceAI ACGGC 3 cut(s) 86, 601, 652
BciT130I CCWGG 1 cut(s) 419
BcnI CCSGG 1 cut(s) 683
BisI GCNGC 2 cut(s) 562, 691
BlsI GCNGC 2 cut(s) 563, 692
Bme1390I CCNGG 2 cut(s) 419, 683
Bme18I GGWCC 2 cut(s) 64, 79
BmgT120I GGNCC 2 cut(s) 64, 79
BmiI GGNNCC 2 cut(s) 81, 361
BmrFI CCNGG 2 cut(s) 419, 683
BmsI GCATC 2 cut(s) 133, 453
Bpu10I CCTNAGC 1 cut(s) 291
BpuEI CTTGAG 1 cut(s) 452
BpuMI CCSGG 1 cut(s) 683
BsaBI GATNNNNATC 1 cut(s) 513
BsaWI WCCGGW 1 cut(s) 61
Bsc4I CCNNNNNNNGG 1 cut(s) 73
Bse1I ACTGG 3 cut(s) 67, 276, 387
Bse8I GATNNNNATC 1 cut(s) 513
BseBI CCWGG 1 cut(s) 419
BseGI GGATG 1 cut(s) 468
BseJI GATNNNNATC 1 cut(s) 513
BseLI CCNNNNNNNGG 1 cut(s) 73
BseMII CTCAG 3 cut(s) 282, 443, 653
BseNI ACTGG 3 cut(s) 67, 276, 387
BseRI GAGGAG 1 cut(s) 518
BseXI GCAGC 1 cut(s) 548
BsgI GTGCAG 1 cut(s) 547
BshFI GGCC 1 cut(s) 218
BsiHKAI GWGCWC 2 cut(s) 99, 623
BsiSI CCGG 2 cut(s) 62, 683
BslI CCNNNNNNNGG 1 cut(s) 73
BsmI GAATGC 1 cut(s) 650
BsnI GGCC 1 cut(s) 218
Bsp1286I GDGCHC 2 cut(s) 99, 623
Bsp143I GATC 5 cut(s) 190, 321, 370, 508, 540
BspACI CCGC 1 cut(s) 691
BspANI GGCC 1 cut(s) 218
BspCNI CTCAG 3 cut(s) 283, 444, 654
BspHI TCATGA 1 cut(s) 21
BspLI GGNNCC 2 cut(s) 81, 361
BspPI GGATC 3 cut(s) 185, 365, 516
BspQI GCTCTTC 1 cut(s) 291
BsrI ACTGG 3 cut(s) 67, 276, 387
BssMI GATC 5 cut(s) 190, 321, 370, 508, 540
Bst2UI CCWGG 1 cut(s) 419
Bst6I CTCTTC 1 cut(s) 291
BstAPI GCANNNNNTGC 1 cut(s) 645
BstC8I GCNNGC 2 cut(s) 99, 623
BstDEI CTNAG 3 cut(s) 291, 452, 662
BstF5I GGATG 1 cut(s) 468
BstKTI GATC 5 cut(s) 193, 324, 373, 511, 543
BstMBI GATC 5 cut(s) 190, 321, 370, 508, 540
BstMWI GCNNNNNNNGC 3 cut(s) 622, 645, 687
BstNI CCWGG 1 cut(s) 419
BstNSI RCATGY 2 cut(s) 629, 707
BstSCI CCNGG 2 cut(s) 417, 681
BstV1I GCAGC 1 cut(s) 548
BstX2I RGATCY 1 cut(s) 190
BstXI CCANNNNNNTGG 1 cut(s) 574
BstYI RGATCY 1 cut(s) 190
BsuRI GGCC 1 cut(s) 218
BtsCI GGATG 1 cut(s) 468
Cac8I GCNNGC 2 cut(s) 99, 623
CciI TCATGA 1 cut(s) 21
Cfr13I GGNCC 2 cut(s) 64, 79
CseI GACGC 1 cut(s) 245
Csp6I GTAC 1 cut(s) 269
CviAII CATG 4 cut(s) 22, 197, 626, 704
CviJI RGCY 6 cut(s) 9, 218, 406, 561, 661, 700
CviKI_1 RGCY 6 cut(s) 9, 218, 406, 561, 661, 700
CviQI GTAC 1 cut(s) 269
DdeI CTNAG 3 cut(s) 291, 452, 662
DpnI GATC 5 cut(s) 192, 323, 372, 510, 542
DpnII GATC 5 cut(s) 190, 321, 370, 508, 540
EaeI YGGCCR 1 cut(s) 216
Eam1104I CTCTTC 1 cut(s) 291
EarI CTCTTC 1 cut(s) 291
Eco47I GGWCC 2 cut(s) 64, 79
EcoO109I RGGNCCY 1 cut(s) 79
EcoRII CCWGG 1 cut(s) 417
EcoT22I ATGCAT 1 cut(s) 650
FaeI CATG 4 cut(s) 25, 200, 629, 707
FatI CATG 4 cut(s) 21, 196, 625, 703
Fnu4HI GCNGC 2 cut(s) 562, 691
FokI GGATG 1 cut(s) 475
Fsp4HI GCNGC 2 cut(s) 562, 691
GluI GCNGC 2 cut(s) 562, 691
HaeIII GGCC 1 cut(s) 218
HapII CCGG 2 cut(s) 62, 683
HgaI GACGC 1 cut(s) 245
Hin1II CATG 4 cut(s) 25, 200, 629, 707
HinfI GANTC 2 cut(s) 207, 275
HpaII CCGG 2 cut(s) 62, 683
HphI GGTGA 3 cut(s) 25, 496, 560
Hpy188I TCNGA 2 cut(s) 364, 479
Hpy188III TCNNGA 4 cut(s) 22, 181, 469, 518
Hpy99I CGWCG 3 cut(s) 236, 290, 602
HpyAV CCTTC 2 cut(s) 93, 244
HpyCH4IV ACGT 1 cut(s) 285
HpyCH4V TGCA 2 cut(s) 564, 648
HpyF10VI GCNNNNNNNGC 3 cut(s) 622, 645, 687
HpyF3I CTNAG 3 cut(s) 291, 452, 662
HpySE526I ACGT 1 cut(s) 285
Hsp92II CATG 4 cut(s) 25, 200, 629, 707
Kzo9I GATC 5 cut(s) 190, 321, 370, 508, 540
LguI GCTCTTC 1 cut(s) 291
LmnI GCTCC 1 cut(s) 253
Lsp1109I GCAGC 1 cut(s) 548
LweI GCATC 2 cut(s) 133, 453
MaeII ACGT 1 cut(s) 285
MaeIII GTNAC 1 cut(s) 554
MalI GATC 5 cut(s) 192, 323, 372, 510, 542
MboI GATC 5 cut(s) 190, 321, 370, 508, 540
MboII GAAGA 4 cut(s) 8, 200, 248, 308
MfeI CAATTG 1 cut(s) 676
MflI RGATCY 1 cut(s) 190
MhlI GDGCHC 2 cut(s) 99, 623
MluCI AATT 4 cut(s) 345, 434, 581, 676
MlyI GAGTC 1 cut(s) 269
MmeI TCCRAC 1 cut(s) 387
Mph1103I ATGCAT 1 cut(s) 650
MseI TTAA 2 cut(s) 105, 336
MslI CAYNNNNRTG 2 cut(s) 132, 329
MspA1I CMGCKG 1 cut(s) 561
MspI CCGG 2 cut(s) 62, 683
MspR9I CCNGG 2 cut(s) 419, 683
MunI CAATTG 1 cut(s) 676
Mva1269I GAATGC 1 cut(s) 650
MvaI CCWGG 1 cut(s) 419
MwoI GCNNNNNNNGC 3 cut(s) 622, 645, 687
NciI CCSGG 1 cut(s) 683
NdeII GATC 5 cut(s) 190, 321, 370, 508, 540
NlaIII CATG 4 cut(s) 25, 200, 629, 707
NlaIV GGNNCC 2 cut(s) 81, 361
NmeAIII GCCGAG 2 cut(s) 145, 244
NmuCI GTSAC 1 cut(s) 554
NsiI ATGCAT 1 cut(s) 650
NspI RCATGY 2 cut(s) 629, 707
PagI TCATGA 1 cut(s) 21
PciI ACATGT 1 cut(s) 703
PciSI GCTCTTC 1 cut(s) 291
PcsI WCGNNNNNNNCGW 1 cut(s) 240
PctI GAATGC 1 cut(s) 650
PfeI GAWTC 1 cut(s) 207
PflMI CCANNNNNTGG 1 cut(s) 73
PkrI GCNGC 2 cut(s) 563, 692
PleI GAGTC 1 cut(s) 269
PpsI GAGTC 1 cut(s) 269
PpuMI RGGWCCY 1 cut(s) 79
PscI ACATGT 1 cut(s) 703
Psp5II RGGWCCY 1 cut(s) 79
Psp6I CCWGG 1 cut(s) 417
PspGI CCWGG 1 cut(s) 417
PspN4I GGNNCC 2 cut(s) 81, 361
PspPI GGNCC 2 cut(s) 64, 79
PspPPI RGGWCCY 1 cut(s) 79
PsuI RGATCY 1 cut(s) 190
PvuII CAGCTG 1 cut(s) 561
RsaI GTAC 1 cut(s) 270
RsaNI GTAC 1 cut(s) 269
RseI CAYNNNNRTG 2 cut(s) 132, 329
SapI GCTCTTC 1 cut(s) 291
SaqAI TTAA 2 cut(s) 105, 336
SatI GCNGC 2 cut(s) 562, 691
Sau3AI GATC 5 cut(s) 190, 321, 370, 508, 540
Sau96I GGNCC 2 cut(s) 64, 79
SchI GAGTC 1 cut(s) 269
ScrFI CCNGG 2 cut(s) 419, 683
SduI GDGCHC 2 cut(s) 99, 623
SetI ASST 8 cut(s) 38, 94, 288, 408, 501, 550, 563, 702
SfaNI GCATC 2 cut(s) 133, 453
SinI GGWCC 2 cut(s) 64, 79
SmiMI CAYNNNNRTG 2 cut(s) 132, 329
SmlI CTYRAG 1 cut(s) 467
SmoI CTYRAG 1 cut(s) 467
Sse9I AATT 4 cut(s) 345, 434, 581, 676
SsiI CCGC 1 cut(s) 691
StyD4I CCNGG 2 cut(s) 417, 681
TaiI ACGT 1 cut(s) 288
TaqI TCGA 2 cut(s) 205, 517
TasI AATT 4 cut(s) 345, 434, 581, 676
TatI WGTACW 1 cut(s) 268
TauI GCSGC 1 cut(s) 693
TfiI GAWTC 1 cut(s) 207
Tru1I TTAA 2 cut(s) 105, 336
Tru9I TTAA 2 cut(s) 105, 336
TseFI GTSAC 1 cut(s) 554
TseI GCWGC 1 cut(s) 561
Tsp45I GTSAC 1 cut(s) 554
TspDTI ATGAA 1 cut(s) 416
Van91I CCANNNNNTGG 1 cut(s) 73
VpaK11BI GGWCC 2 cut(s) 64, 79
XapI RAATTY 1 cut(s) 581
XceI RCATGY 2 cut(s) 629, 707
Zsp2I ATGCAT 1 cut(s) 650
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.