Rorug06G0109200

YqaJ-like viral recombinase domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0002455
Physical Location & Seq
Reverse (-)
14775388 .. 14776155
768 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0109200.1

Sequence Viewer

Length: 768 bp
ATGGAAGTAACTCACTCACTCAATCGCTTCTACTTTCACGTCACTCCCCTTGATGCACAACTCAACGAATATCACAAAGAACCTTCACCGGTTCAACTTTTTATCAAGTTTGACTACTACGTCAAACACAAATACTTCAATGTCTCACAAGATCATAGAACCCGAACCCTCATTCACCGATCGGAAGAGAGAACTGAAGCGGTGCACCAATCTGATTTGTGCCAGTTAGATCAGAGCCACATGAACAACGACTCGTATAAGAACTGTCTTTTTTACATTCTTTCTGAACTTGGAATCGACGAAAATAATCACAGTGCAATAGTCAATGAGATTACAGACTGGGGTCGCATAATTGACAAGTTAGAGTACAACAAGGATCGAAAAATACTGAGCTTGTGGGTTTATATTGCGAGTGAGCATATAACCTTCCGCTGCGAAAGGTGTTTGATGGAAAGAGAGTCATTGATTAAAAAGAAGCTAAAGAGAGTTAGAGTGGTAAAAGATAATGAGATAGAATGTGATGATGATAATGCGGGCGACGATGAGGAGGACTGTGAAGAAAGAAACAGCCGATGTACAGTTCGCGAGAGTGAGATTTGCAGTATTTGTATGGAAGAGTTTGCAGTGTTAGATGATGTCTTTTGCACGCCTTGTTGGCATATGTTTCATGACAAATGCATAGTACGATGGCTGGGAGAGAAGCTCCATTGCCCTCTTTGCCGCTTCCAGATGCCTATTGAACATAGAGACTGCAGGGGGCAAAACTAG
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

255

Amino Acids

30.58

Weight (kDa)

5.53

Isoelectric Point (pI)

59.44

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RING_2 PF13639 200 - 241 3.2e-11 Ring finger domain
zf-RING_11 PF17123 200 - 227 6.4e-09 RING-like zinc finger
zf-C3HC4_2 PF13923 200 - 240 2.6e-09 Zinc finger, C3HC4 type (RING finger)
zf-C3HC4 PF00097 200 - 240 9.7e-06 Zinc finger, C3HC4 type (RING finger)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 119
AccII CGCG 1 cut(s) 585
AciI CCGC 4 cut(s) 200, 430, 533, 721
AclWI GGATC 1 cut(s) 384
AcuI CTGAAG 1 cut(s) 216
AfaI GTAC 3 cut(s) 368, 577, 684
AgeI ACCGGT 1 cut(s) 88
AgsI TTSAA 3 cut(s) 95, 139, 740
AjiI CACGTC 1 cut(s) 40
AluBI AGCT 3 cut(s) 393, 478, 703
AluI AGCT 3 cut(s) 393, 478, 703
Alw21I GWGCWC 1 cut(s) 207
Alw26I GTCTC 2 cut(s) 148, 741
Alw44I GTGCAC 1 cut(s) 203
AlwI GGATC 1 cut(s) 384
ApaLI GTGCAC 1 cut(s) 203
ApeKI GCWGC 1 cut(s) 432
AsiGI ACCGGT 1 cut(s) 88
AsuHPI GGTGA 2 cut(s) 78, 167
BaeGI GKGCMC 1 cut(s) 207
Bbv12I GWGCWC 1 cut(s) 207
BbvI GCAGC 1 cut(s) 419
BccI CCATC 2 cut(s) 442, 681
BcoDI GTCTC 2 cut(s) 148, 741
BfaI CTAG 1 cut(s) 766
BfmI CTRYAG 1 cut(s) 751
BglI GCCNNNNNGGC 1 cut(s) 655
BisI GCNGC 2 cut(s) 433, 721
BlsI GCNGC 2 cut(s) 434, 722
BmgBI CACGTC 1 cut(s) 40
BmrI ACTGGG 1 cut(s) 349
BmsI GCATC 2 cut(s) 43, 720
BmuI ACTGGG 1 cut(s) 349
BoxI GACNNNNGTC 1 cut(s) 342
BplI GAGNNNNNCTC 2 cut(s) 687, 719
BsaWI WCCGGW 1 cut(s) 88
Bse118I RCCGGY 1 cut(s) 88
Bse1I ACTGG 2 cut(s) 223, 344
Bse3DI GCAATG 1 cut(s) 706
BseMI GCAATG 1 cut(s) 706
BseMII CTCAG 1 cut(s) 380
BseNI ACTGG 2 cut(s) 223, 344
BseRI GAGGAG 1 cut(s) 560
BseSI GKGCMC 1 cut(s) 207
BseXI GCAGC 1 cut(s) 419
BseYI CCCAGC 1 cut(s) 691
Bsh1236I CGCG 1 cut(s) 585
Bsh1285I CGRYCG 1 cut(s) 182
BshTI ACCGGT 1 cut(s) 88
BsiEI CGRYCG 1 cut(s) 182
BsiHKAI GWGCWC 1 cut(s) 207
BsiSI CCGG 1 cut(s) 89
BsmAI GTCTC 2 cut(s) 148, 741
Bsp1286I GDGCHC 1 cut(s) 207
Bsp1407I TGTACA 1 cut(s) 575
Bsp143I GATC 4 cut(s) 151, 179, 229, 376
Bsp68I TCGCGA 1 cut(s) 585
BspACI CCGC 4 cut(s) 200, 430, 533, 721
BspCNI CTCAG 1 cut(s) 381
BspFNI CGCG 1 cut(s) 585
BspHI TCATGA 1 cut(s) 667
BspMAI CTGCAG 1 cut(s) 755
BspPI GGATC 1 cut(s) 384
BsrDI GCAATG 1 cut(s) 706
BsrFI RCCGGY 1 cut(s) 88
BsrGI TGTACA 1 cut(s) 575
BsrI ACTGG 2 cut(s) 223, 344
BssAI RCCGGY 1 cut(s) 88
BssMI GATC 4 cut(s) 151, 179, 229, 376
Bst4CI ACNGT 4 cut(s) 266, 314, 554, 580
Bst6I CTCTTC 2 cut(s) 180, 609
BstAUI TGTACA 1 cut(s) 575
BstC8I GCNNGC 2 cut(s) 535, 647
BstDEI CTNAG 1 cut(s) 389
BstFNI CGCG 1 cut(s) 585
BstKTI GATC 4 cut(s) 154, 182, 232, 379
BstMAI GTCTC 2 cut(s) 148, 741
BstMBI GATC 4 cut(s) 151, 179, 229, 376
BstMCI CGRYCG 1 cut(s) 182
BstMWI GCNNNNNNNGC 2 cut(s) 655, 717
BstPAI GACNNNNGTC 1 cut(s) 342
BstSFI CTRYAG 1 cut(s) 751
BstSLI GKGCMC 1 cut(s) 207
BstUI CGCG 1 cut(s) 585
BstV1I GCAGC 1 cut(s) 419
BtrI CACGTC 1 cut(s) 40
BtsI GCAGTG 1 cut(s) 630
BtsIMutI CAGTG 2 cut(s) 319, 630
BtuMI TCGCGA 1 cut(s) 585
Cac8I GCNNGC 2 cut(s) 535, 647
CciI TCATGA 1 cut(s) 667
Cfr10I RCCGGY 1 cut(s) 88
Csp6I GTAC 3 cut(s) 367, 576, 683
CspAI ACCGGT 1 cut(s) 88
CviAII CATG 2 cut(s) 241, 668
CviJI RGCY 6 cut(s) 237, 393, 478, 570, 691, 703
CviKI_1 RGCY 6 cut(s) 237, 393, 478, 570, 691, 703
CviQI GTAC 3 cut(s) 367, 576, 683
DdeI CTNAG 1 cut(s) 389
DpnI GATC 4 cut(s) 153, 181, 231, 378
DpnII GATC 4 cut(s) 151, 179, 229, 376
DrdI GACNNNNNNGTC 1 cut(s) 119
DseDI GACNNNNNNGTC 1 cut(s) 119
Eam1104I CTCTTC 2 cut(s) 180, 609
EarI CTCTTC 2 cut(s) 180, 609
Eco57I CTGAAG 1 cut(s) 216
EcoT22I ATGCAT 1 cut(s) 680
FaeI CATG 2 cut(s) 244, 671
FatI CATG 2 cut(s) 240, 667
FauI CCCGC 1 cut(s) 526
FauNDI CATATG 1 cut(s) 660
Fnu4HI GCNGC 2 cut(s) 433, 721
Fsp4HI GCNGC 2 cut(s) 433, 721
FspBI CTAG 1 cut(s) 766
GluI GCNGC 2 cut(s) 433, 721
GsaI CCCAGC 1 cut(s) 695
HapII CCGG 1 cut(s) 89
Hin1II CATG 2 cut(s) 244, 671
HinfI GANTC 3 cut(s) 251, 294, 458
HpaII CCGG 1 cut(s) 89
HphI GGTGA 2 cut(s) 78, 167
Hpy166II GTNNAC 1 cut(s) 205
Hpy188I TCNGA 4 cut(s) 184, 214, 234, 286
Hpy188III TCNNGA 3 cut(s) 584, 668, 727
Hpy8I GTNNAC 1 cut(s) 205
Hpy99I CGWCG 2 cut(s) 302, 542
HpyAV CCTTC 2 cut(s) 93, 436
HpyCH4III ACNGT 4 cut(s) 266, 314, 554, 580
HpyCH4IV ACGT 2 cut(s) 39, 120
HpyCH4V TGCA 8 cut(s) 56, 205, 317, 600, 623, 645, 678, 753
HpyF10VI GCNNNNNNNGC 2 cut(s) 655, 717
HpyF3I CTNAG 1 cut(s) 389
HpySE526I ACGT 2 cut(s) 39, 120
Hsp92II CATG 2 cut(s) 244, 671
Kzo9I GATC 4 cut(s) 151, 179, 229, 376
LmnI GCTCC 1 cut(s) 708
LpnPI CCDG 6 cut(s) 102, 236, 325, 677, 739, 740
Lsp1109I GCAGC 1 cut(s) 419
LweI GCATC 2 cut(s) 43, 720
MaeI CTAG 1 cut(s) 766
MaeII ACGT 2 cut(s) 39, 120
MaeIII GTNAC 2 cut(s) 7, 40
MalI GATC 4 cut(s) 153, 181, 231, 378
MboI GATC 4 cut(s) 151, 179, 229, 376
MboII GAAGA 3 cut(s) 197, 569, 626
MhlI GDGCHC 1 cut(s) 207
MluCI AATT 1 cut(s) 351
MlyI GAGTC 2 cut(s) 245, 467
MnlI CCTC 4 cut(s) 179, 538, 541, 723
Mph1103I ATGCAT 1 cut(s) 680
MseI TTAA 1 cut(s) 468
MspA1I CMGCKG 1 cut(s) 432
MspI CCGG 1 cut(s) 89
MvnI CGCG 1 cut(s) 585
MwoI GCNNNNNNNGC 2 cut(s) 655, 717
NdeI CATATG 1 cut(s) 660
NdeII GATC 4 cut(s) 151, 179, 229, 376
NlaIII CATG 2 cut(s) 244, 671
NmuCI GTSAC 1 cut(s) 40
NruI TCGCGA 1 cut(s) 585
NsiI ATGCAT 1 cut(s) 680
PagI TCATGA 1 cut(s) 667
PfeI GAWTC 1 cut(s) 294
PinAI ACCGGT 1 cut(s) 88
PkrI GCNGC 2 cut(s) 434, 722
Ple19I CGATCG 1 cut(s) 182
PleI GAGTC 2 cut(s) 245, 466
PpsI GAGTC 2 cut(s) 245, 466
PshAI GACNNNNGTC 1 cut(s) 342
PspFI CCCAGC 1 cut(s) 691
PstI CTGCAG 1 cut(s) 755
PvuI CGATCG 1 cut(s) 182
RruI TCGCGA 1 cut(s) 585
RsaI GTAC 3 cut(s) 368, 577, 684
RsaNI GTAC 3 cut(s) 367, 576, 683
SaqAI TTAA 1 cut(s) 468
SatI GCNGC 2 cut(s) 433, 721
Sau3AI GATC 4 cut(s) 151, 179, 229, 376
SchI GAGTC 2 cut(s) 245, 467
SduI GDGCHC 1 cut(s) 207
SetI ASST 8 cut(s) 42, 85, 123, 395, 428, 443, 480, 705
SfaNI GCATC 2 cut(s) 43, 720
SfcI CTRYAG 1 cut(s) 751
Sse9I AATT 1 cut(s) 351
SsiI CCGC 4 cut(s) 200, 430, 533, 721
SspMI CTAG 1 cut(s) 766
TaaI ACNGT 4 cut(s) 266, 314, 554, 580
TaiI ACGT 2 cut(s) 42, 123
TaqI TCGA 2 cut(s) 297, 379
TasI AATT 1 cut(s) 351
TatI WGTACW 2 cut(s) 366, 575
TauI GCSGC 1 cut(s) 723
TfiI GAWTC 1 cut(s) 294
Tru1I TTAA 1 cut(s) 468
Tru9I TTAA 1 cut(s) 468
TscAI CASTG 2 cut(s) 319, 630
TseFI GTSAC 1 cut(s) 40
TseI GCWGC 1 cut(s) 432
Tsp45I GTSAC 1 cut(s) 40
TspDTI ATGAA 2 cut(s) 257, 656
TspRI CASTG 2 cut(s) 319, 630
VneI GTGCAC 1 cut(s) 203
XspI CTAG 1 cut(s) 766
Zsp2I ATGCAT 1 cut(s) 680
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.