Rroxscaffold_5G00373070

YqaJ-like viral recombinase domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0014008
Physical Location & Seq
Reverse (-)
54340453 .. 54342049
1597 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00373070.1

Sequence Viewer

Length: 1110 bp
ATGAAGCTCGCTCAAGTCTCTTCGTCTCAGTCAAGAGCTTCTCTTTGCTCTCTACATGGAGTGCCCAAATTGCCCTCTTCCTCCTTCGCAGCTGGCAAAGGCAAAGGCGTTGCCTTTACTTCAAGACCATTCTCAGATCATCGGAACAGAGTAGCTGCCGGTGGCATTGGTGTATCAGCAATGAGCAATGCCTACTGCACTGGATTCTGCAGCTTTCATCATAAAGTAGTGGAAATGCTGTCTTCGAGAAAGATGTGTGGAAAAATATTTTTTAGGGCCTTTTCGACGTGCGCCTCACCGATGATCTCTACGAATTTTGCTCTGGTGATGCGTTCCCCATCATCACTTGCGTTGGCTACCCGGGGTGCACTATCTGATGCTCCCCAGCGTTCAGAGGAGTGGTTTGCCTTGCGGCGAAACAAACTGACTACAAGCACCTTCAGCACTGCCTTGGGATTTTGGAAAGGAAACCGTCGACCTGAGCTCTGGCATGAGAAGGTATTTGATTCACAGAAAGAATTCGCACAAGCTTCTAAAAATGCCATGCAATGGGGTGTGCTCAATGAAGAGGTGGCCATAGAGCGGTATAAAAGCATCACAGGTCGTGAAGTGGGTACATATGGATTTGCATCCCACGGAGAGGAGCGGTTTGATTGGCTTGGTGCCTCCCCTGATGGTCTGCTTGATTGCTTTCAAGGTGGTGGTATCCTGGAAGTGAAGTGTCCTTTTAACAAGGGAAAACCAGAGCAGGGTCTGCCCTGGTCAACGATGCCTTTCTATTACATGCCTCAGGTGCAGGGTCAAATGGAGATAATGGATAGAGAGTGGGTTGATTTATATTGCTGGACACCAAATGGAAGCACAATATTCCGCGTGTGCCGAGACCGTAGTTACTGGGACTTGATGCATGGAATTTTAAGGGAATTTTGGTGGGAAAATGTGATTCCTGCTAAGGAGGCTCTTTTGCTGGGTAATGAAGAAAAGGCCAGGGAGTATATGCCAACTTCTACTCACAAAAAAACCGGCCTTGCAATCGTTAAGAGCTTGGAGTTAGCAAGAGGATCAAAGTTGCTGTGTAGGGAGATAGCTGGCCACATCGAGTTTTACTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04714 map04714
Pfam Domains
Protein Families
YqaJ

Protein Analysis

369

Amino Acids

41.4

Weight (kDa)

9.17

Isoelectric Point (pI)

53.62

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YqaJ PF09588 133 - 272 3.7e-23 YqaJ-like viral recombinase 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: OG0014008)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G67660 AT1G67660
fragaria_vesca FvH4_4g24601
malus_domestica MD13G1109900.v1.1
prunus_persica Prupe.1G235100_v2.0.a1 Prupe.1G235100_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0431611
rosa_laevigata RLG00000006904
rosa_multiflora Rmu_sc0031555.1_g000001
rosa_roxburghii Rroxscaffold_5G00373070
rosa_rugosa Rorug04G0251200 Rorug04G0251300
rosa_samantha Rh4AG308100 Rh4BG315700 Rh4CG331200 Rh4DG310500
rosa_wichuraiana Rw4G026700

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 662
AccB7I CCANNNNNTGG 1 cut(s) 549
AccBSI CCGCTC 2 cut(s) 583, 646
AccI GTMKAC 1 cut(s) 475
AccII CGCG 1 cut(s) 873
AciI CCGC 4 cut(s) 412, 583, 646, 871
AclWI GGATC 1 cut(s) 1069
AcoI YGGCCR 2 cut(s) 573, 1090
AcsI RAATTY 4 cut(s) 313, 518, 912, 923
AcuI CTGAAG 1 cut(s) 424
AfaI GTAC 1 cut(s) 616
AfiI CCNNNNNNNGG 4 cut(s) 549, 582, 640, 749
AgsI TTSAA 2 cut(s) 123, 695
AjiI CACGTC 1 cut(s) 288
AjnI CCWGG 3 cut(s) 708, 758, 986
AluBI AGCT 9 cut(s) 7, 38, 92, 155, 213, 484, 530, 1044, 1088
AluI AGCT 9 cut(s) 7, 38, 92, 155, 213, 484, 530, 1044, 1088
Alw21I GWGCWC 3 cut(s) 370, 486, 561
Alw26I GTCTC 3 cut(s) 22, 30, 876
Alw44I GTGCAC 1 cut(s) 366
AlwI GGATC 1 cut(s) 1069
AlwNI CAGNNNCTG 1 cut(s) 754
Ama87I CYCGRG 1 cut(s) 360
AoxI GGCC 5 cut(s) 276, 573, 984, 1024, 1090
ApaLI GTGCAC 1 cut(s) 366
ApeKI GCWGC 3 cut(s) 89, 155, 210
ApoI RAATTY 4 cut(s) 313, 518, 912, 923
Asp700I GAANNNNTTC 1 cut(s) 518
AspLEI GCGC 1 cut(s) 293
AspS9I GGNCC 1 cut(s) 276
AsuC2I CCSGG 2 cut(s) 361, 362
AsuHPI GGTGA 2 cut(s) 288, 337
AvaI CYCGRG 1 cut(s) 360
AxyI CCTNAGG 1 cut(s) 789
BaeGI GKGCMC 2 cut(s) 66, 370
BalI TGGCCA 2 cut(s) 575, 1092
BanI GGYRCC 1 cut(s) 662
BanII GRGCYC 1 cut(s) 486
BbsI GAAGAC 1 cut(s) 234
Bbv12I GWGCWC 3 cut(s) 370, 486, 561
BbvI GCAGC 3 cut(s) 101, 142, 222
BccI CCATC 2 cut(s) 346, 668
BciT130I CCWGG 3 cut(s) 710, 760, 988
BciVI GTATCC 1 cut(s) 716
BcnI CCSGG 2 cut(s) 361, 362
BcoDI GTCTC 3 cut(s) 22, 30, 876
BfaI CTAG 1 cut(s) 1108
BfmI CTRYAG 1 cut(s) 208
BfuI GTATCC 1 cut(s) 716
BisI GCNGC 4 cut(s) 90, 156, 211, 413
BlsI GCNGC 4 cut(s) 91, 157, 212, 414
Bme1390I CCNGG 5 cut(s) 361, 362, 710, 760, 988
BmeT110I CYCGRG 1 cut(s) 360
BmgBI CACGTC 1 cut(s) 288
BmgT120I GGNCC 1 cut(s) 276
BmiI GGNNCC 1 cut(s) 664
BmrFI CCNGG 5 cut(s) 361, 362, 710, 760, 988
BmrI ACTGGG 1 cut(s) 904
BmsI GCATC 6 cut(s) 318, 367, 603, 638, 759, 894
BmuI ACTGGG 1 cut(s) 904
BpiI GAAGAC 1 cut(s) 234
Bpu10I CCTNAGC 2 cut(s) 480, 951
BpuMI CCSGG 2 cut(s) 361, 362
BsaBI GATNNNNATC 1 cut(s) 628
BsaI GGTCTC 1 cut(s) 876
BsaJI CCNNGG 6 cut(s) 360, 361, 450, 634, 758, 987
Bsc4I CCNNNNNNNGG 4 cut(s) 549, 582, 640, 749
Bse118I RCCGGY 2 cut(s) 158, 1022
Bse1I ACTGG 2 cut(s) 205, 899
Bse21I CCTNAGG 1 cut(s) 789
Bse3DI GCAATG 3 cut(s) 186, 193, 554
Bse8I GATNNNNATC 1 cut(s) 628
BseBI CCWGG 3 cut(s) 710, 760, 988
BseDI CCNNGG 6 cut(s) 360, 361, 450, 634, 758, 987
BseGI GGATG 1 cut(s) 629
BseJI GATNNNNATC 1 cut(s) 628
BseLI CCNNNNNNNGG 4 cut(s) 549, 582, 640, 749
BseMI GCAATG 3 cut(s) 186, 193, 554
BseMII CTCAG 4 cut(s) 41, 147, 471, 803
BseNI ACTGG 2 cut(s) 205, 899
BseRI GAGGAG 2 cut(s) 410, 656
BseSI GKGCMC 2 cut(s) 66, 370
BseXI GCAGC 3 cut(s) 101, 142, 222
BseYI CCCAGC 2 cut(s) 384, 967
BsgI GTGCAG 2 cut(s) 181, 815
Bsh1236I CGCG 1 cut(s) 873
BshFI GGCC 5 cut(s) 278, 575, 986, 1026, 1092
BshNI GGYRCC 1 cut(s) 662
BsiHKAI GWGCWC 3 cut(s) 370, 486, 561
BsiHKCI CYCGRG 1 cut(s) 360
BsiSI CCGG 3 cut(s) 159, 361, 1023
BslFI GGGAC 1 cut(s) 911
BslI CCNNNNNNNGG 4 cut(s) 549, 582, 640, 749
BsmAI GTCTC 3 cut(s) 22, 30, 876
BsmBI CGTCTC 1 cut(s) 30
BsmFI GGGAC 1 cut(s) 911
BsnI GGCC 5 cut(s) 278, 575, 986, 1026, 1092
Bso31I GGTCTC 1 cut(s) 876
BsoBI CYCGRG 1 cut(s) 360
Bsp1286I GDGCHC 4 cut(s) 66, 370, 486, 561
Bsp143I GATC 3 cut(s) 136, 303, 1061
BspACI CCGC 4 cut(s) 412, 583, 646, 871
BspANI GGCC 5 cut(s) 278, 575, 986, 1026, 1092
BspCNI CTCAG 4 cut(s) 40, 146, 472, 802
BspFNI CGCG 1 cut(s) 873
BspLI GGNNCC 1 cut(s) 664
BspMAI CTGCAG 1 cut(s) 212
BspPI GGATC 1 cut(s) 1069
BspT107I GGYRCC 1 cut(s) 662
BspTNI GGTCTC 1 cut(s) 876
BsrBI CCGCTC 2 cut(s) 583, 646
BsrDI GCAATG 3 cut(s) 186, 193, 554
BsrFI RCCGGY 2 cut(s) 158, 1022
BsrI ACTGG 2 cut(s) 205, 899
BssAI RCCGGY 2 cut(s) 158, 1022
BssECI CCNNGG 6 cut(s) 360, 361, 450, 634, 758, 987
BssMI GATC 3 cut(s) 136, 303, 1061
BssT1I CCWWGG 1 cut(s) 450
Bst2UI CCWGG 3 cut(s) 710, 760, 988
Bst4CI ACNGT 2 cut(s) 473, 887
Bst6I CTCTTC 3 cut(s) 25, 82, 561
BstAPI GCANNNNNTGC 1 cut(s) 754
BstC8I GCNNGC 3 cut(s) 9, 94, 1090
BstDEI CTNAG 5 cut(s) 27, 133, 480, 789, 951
BstDSI CCRYGG 1 cut(s) 634
BstF5I GGATG 1 cut(s) 629
BstFNI CGCG 1 cut(s) 873
BstHHI GCGC 1 cut(s) 293
BstKTI GATC 3 cut(s) 139, 306, 1064
BstMAI GTCTC 3 cut(s) 22, 30, 876
BstMBI GATC 3 cut(s) 136, 303, 1061
BstMWI GCNNNNNNNGC 5 cut(s) 70, 441, 754, 793, 956
BstNI CCWGG 3 cut(s) 710, 760, 988
BstNSI RCATGY 1 cut(s) 787
BstSCI CCNGG 5 cut(s) 359, 360, 708, 758, 986
BstSFI CTRYAG 1 cut(s) 208
BstSLI GKGCMC 2 cut(s) 66, 370
BstUI CGCG 1 cut(s) 873
BstV1I GCAGC 3 cut(s) 101, 142, 222
BstV2I GAAGAC 1 cut(s) 234
Bsu36I CCTNAGG 1 cut(s) 789
BsuI GTATCC 1 cut(s) 716
BsuRI GGCC 5 cut(s) 278, 575, 986, 1026, 1092
BtgI CCRYGG 1 cut(s) 634
BtrI CACGTC 1 cut(s) 288
BtsCI GGATG 1 cut(s) 629
BtsI GCAGTG 1 cut(s) 444
BtsIMutI CAGTG 2 cut(s) 198, 444
Cac8I GCNNGC 3 cut(s) 9, 94, 1090
CaiI CAGNNNCTG 1 cut(s) 754
CfoI GCGC 1 cut(s) 293
Cfr10I RCCGGY 2 cut(s) 158, 1022
Cfr13I GGNCC 1 cut(s) 276
Cfr9I CCCGGG 1 cut(s) 360
Csp6I GTAC 1 cut(s) 615
CviAII CATG 5 cut(s) 56, 491, 544, 784, 908
CviQI GTAC 1 cut(s) 615
DdeI CTNAG 5 cut(s) 27, 133, 480, 789, 951
DpnI GATC 3 cut(s) 138, 305, 1063
DpnII GATC 3 cut(s) 136, 303, 1061
EaeI YGGCCR 2 cut(s) 573, 1090
Eam1104I CTCTTC 3 cut(s) 25, 82, 561
EarI CTCTTC 3 cut(s) 25, 82, 561
Ecl136II GAGCTC 1 cut(s) 484
Eco130I CCWWGG 1 cut(s) 450
Eco24I GRGCYC 1 cut(s) 486
Eco31I GGTCTC 1 cut(s) 876
Eco53kI GAGCTC 1 cut(s) 484
Eco57I CTGAAG 1 cut(s) 424
Eco81I CCTNAGG 1 cut(s) 789
Eco88I CYCGRG 1 cut(s) 360
EcoICRI GAGCTC 1 cut(s) 484
EcoO109I RGGNCCY 1 cut(s) 276
EcoRI GAATTC 1 cut(s) 518
EcoRII CCWGG 3 cut(s) 708, 758, 986
EcoT14I CCWWGG 1 cut(s) 450
EcoT22I ATGCAT 1 cut(s) 909
EcoT38I GRGCYC 1 cut(s) 486
ErhI CCWWGG 1 cut(s) 450
Esp3I CGTCTC 1 cut(s) 30
FaeI CATG 5 cut(s) 59, 494, 547, 787, 911
FaqI GGGAC 1 cut(s) 911
FatI CATG 5 cut(s) 55, 490, 543, 783, 907
FauNDI CATATG 1 cut(s) 619
FblI GTMKAC 1 cut(s) 475
Fnu4HI GCNGC 4 cut(s) 90, 156, 211, 413
FokI GGATG 1 cut(s) 616
FriOI GRGCYC 1 cut(s) 486
Fsp4HI GCNGC 4 cut(s) 90, 156, 211, 413
FspBI CTAG 1 cut(s) 1108
GlaI GCGC 1 cut(s) 292
GluI GCNGC 4 cut(s) 90, 156, 211, 413
GsaI CCCAGC 2 cut(s) 388, 971
HaeIII GGCC 5 cut(s) 278, 575, 986, 1026, 1092
HapII CCGG 3 cut(s) 159, 361, 1023
HhaI GCGC 1 cut(s) 293
Hin1II CATG 5 cut(s) 59, 494, 547, 787, 911
Hin6I GCGC 1 cut(s) 291
HinP1I GCGC 1 cut(s) 291
HincII GTYRAC 2 cut(s) 476, 765
HindII GTYRAC 2 cut(s) 476, 765
HindIII AAGCTT 1 cut(s) 528
HinfI GANTC 3 cut(s) 204, 506, 943
HpaII CCGG 3 cut(s) 159, 361, 1023
HphI GGTGA 2 cut(s) 288, 337
Hpy166II GTNNAC 3 cut(s) 368, 476, 765
Hpy188I TCNGA 4 cut(s) 136, 144, 376, 394
Hpy188III TCNNGA 4 cut(s) 33, 123, 246, 605
Hpy8I GTNNAC 3 cut(s) 368, 476, 765
Hpy99I CGWCG 2 cut(s) 289, 477
HpyAV CCTTC 3 cut(s) 94, 448, 490
HpyCH4III ACNGT 2 cut(s) 473, 887
HpyCH4IV ACGT 1 cut(s) 287
HpyCH4V TGCA 8 cut(s) 198, 210, 368, 547, 629, 796, 907, 1031
HpyF10VI GCNNNNNNNGC 5 cut(s) 70, 441, 754, 793, 956
HpyF3I CTNAG 5 cut(s) 27, 133, 480, 789, 951
HpySE526I ACGT 1 cut(s) 287
Hsp92II CATG 5 cut(s) 59, 494, 547, 787, 911
HspAI GCGC 1 cut(s) 291
Kzo9I GATC 3 cut(s) 136, 303, 1061
LmnI GCTCC 2 cut(s) 385, 643
Lsp1109I GCAGC 3 cut(s) 101, 142, 222
LweI GCATC 6 cut(s) 318, 367, 603, 638, 759, 894
MaeI CTAG 1 cut(s) 1108
MaeII ACGT 1 cut(s) 287
MaeIII GTNAC 1 cut(s) 890
MalI GATC 3 cut(s) 138, 305, 1063
MbiI CCGCTC 2 cut(s) 583, 646
MboI GATC 3 cut(s) 136, 303, 1061
MboII GAAGA 5 cut(s) 12, 69, 234, 578, 989
MhlI GDGCHC 4 cut(s) 66, 370, 486, 561
MlsI TGGCCA 2 cut(s) 575, 1092
MluCI AATT 5 cut(s) 68, 313, 518, 912, 923
MluNI TGGCCA 2 cut(s) 575, 1092
Mox20I TGGCCA 2 cut(s) 575, 1092
Mph1103I ATGCAT 1 cut(s) 909
MroXI GAANNNNTTC 1 cut(s) 518
MscI TGGCCA 2 cut(s) 575, 1092
MseI TTAA 3 cut(s) 729, 917, 1038
Msp20I TGGCCA 2 cut(s) 575, 1092
MspA1I CMGCKG 1 cut(s) 92
MspI CCGG 3 cut(s) 159, 361, 1023
MspR9I CCNGG 5 cut(s) 361, 362, 710, 760, 988
MvaI CCWGG 3 cut(s) 710, 760, 988
MvnI CGCG 1 cut(s) 873
MwoI GCNNNNNNNGC 5 cut(s) 70, 441, 754, 793, 956
NciI CCSGG 2 cut(s) 361, 362
NdeI CATATG 1 cut(s) 619
NdeII GATC 3 cut(s) 136, 303, 1061
NlaIII CATG 5 cut(s) 59, 494, 547, 787, 911
NlaIV GGNNCC 1 cut(s) 664
NmeAIII GCCGAG 1 cut(s) 905
NsiI ATGCAT 1 cut(s) 909
NspI RCATGY 1 cut(s) 787
PdmI GAANNNNTTC 1 cut(s) 518
PfeI GAWTC 3 cut(s) 204, 506, 943
PflMI CCANNNNNTGG 1 cut(s) 549
PfoI TCCNGGA 1 cut(s) 708
PkrI GCNGC 4 cut(s) 91, 157, 212, 414
Psp124BI GAGCTC 1 cut(s) 486
Psp6I CCWGG 3 cut(s) 708, 758, 986
PspFI CCCAGC 2 cut(s) 384, 967
PspGI CCWGG 3 cut(s) 708, 758, 986
PspN4I GGNNCC 1 cut(s) 664
PspPI GGNCC 1 cut(s) 276
PstI CTGCAG 1 cut(s) 212
PstNI CAGNNNCTG 1 cut(s) 754
PvuII CAGCTG 1 cut(s) 92
RsaI GTAC 1 cut(s) 616
RsaNI GTAC 1 cut(s) 615
SacI GAGCTC 1 cut(s) 486
SalI GTCGAC 1 cut(s) 474
SaqAI TTAA 3 cut(s) 729, 917, 1038
SatI GCNGC 4 cut(s) 90, 156, 211, 413
Sau3AI GATC 3 cut(s) 136, 303, 1061
Sau96I GGNCC 1 cut(s) 276
ScrFI CCNGG 5 cut(s) 361, 362, 710, 760, 988
SduI GDGCHC 4 cut(s) 66, 370, 486, 561
SfaNI GCATC 6 cut(s) 318, 367, 603, 638, 759, 894
SfcI CTRYAG 1 cut(s) 208
SmaI CCCGGG 1 cut(s) 362
SmlI CTYRAG 1 cut(s) 12
SmoI CTYRAG 1 cut(s) 12
Sse9I AATT 5 cut(s) 68, 313, 518, 912, 923
SsiI CCGC 4 cut(s) 412, 583, 646, 871
SspI AATATT 2 cut(s) 267, 867
SspMI CTAG 1 cut(s) 1108
SstI GAGCTC 1 cut(s) 486
StyD4I CCNGG 5 cut(s) 359, 360, 708, 758, 986
StyI CCWWGG 1 cut(s) 450
TaaI ACNGT 2 cut(s) 473, 887
TaiI ACGT 1 cut(s) 290
TaqI TCGA 4 cut(s) 245, 284, 475, 1098
TasI AATT 5 cut(s) 68, 313, 518, 912, 923
TauI GCSGC 1 cut(s) 415
TfiI GAWTC 3 cut(s) 204, 506, 943
Tru1I TTAA 3 cut(s) 729, 917, 1038
Tru9I TTAA 3 cut(s) 729, 917, 1038
TscAI CASTG 2 cut(s) 205, 451
TseI GCWGC 3 cut(s) 89, 155, 210
TspDTI ATGAA 4 cut(s) 17, 206, 579, 990
TspGWI ACGGA 1 cut(s) 651
TspMI CCCGGG 1 cut(s) 360
TspRI CASTG 2 cut(s) 205, 451
Van91I CCANNNNNTGG 1 cut(s) 549
VneI GTGCAC 1 cut(s) 366
XapI RAATTY 4 cut(s) 313, 518, 912, 923
XceI RCATGY 1 cut(s) 787
XmaI CCCGGG 1 cut(s) 360
XmiI GTMKAC 1 cut(s) 475
XmnI GAANNNNTTC 1 cut(s) 518
XspI CTAG 1 cut(s) 1108
Zsp2I ATGCAT 1 cut(s) 909
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.