RchiOBHm_Chr4g0431611

YqaJ-like viral recombinase domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0014008
Physical Location & Seq
Reverse (-)
55828022 .. 55829788
1767 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1083 bp
ATGAAGCTCGCTCAAGTTTGCTCTCTACATGGAGTGCCCAAACTGCCCGCTTCCTCCTTCGCAGCTGGCAACGGCAAAGTCGTCGCCTTTAATTCAAGACCATTCTCAGGTCATCGGAACAAAGTAGCTGCCGGTGGCATTGGCGTATCAGCAATGAGCAATGCCTACTGCACTGGATTCTGCAGCTTTCATCATAAAGCAGTGGAAATGCTGTCTTCGAGAAACATGTGTGGAAAAATACTTTTTAGGCCCTTTTCGACGTGCGCCTCACCGATGATCTCTACGAATTTTGCTCTGGTGATGCGTTCCCCATCATCACTTGCGCTGGCTACCCGGGGTGCACTATCTGATGCTCCCCAGCGTTCAGAGGAGTGGTTTGCCTTGCGGCGAAACAAACTGACTACAAGCACCTTCAGCACTGCCTTGGGATTTTGGAAGGGAAACCGTCGACCTGAGCTCTGGCATGAGAAGGTATTTGATTCACAGAAAGAATTCGCGCAAGCTTCTAAAAATGCCATGCAATGGGGTGTGCTCAATGAAGAGGTGGCCATAGAGCGGTATAAAAGCATCACAGGTCGTGAAGTGGGTACATATGGATTTGCATCCCACGGAGAGGAGCGGTTTGATTGGCTTGGTGCCTCCCCTGATGGTCTGCTTGATTGCTTTCAAGGTGGTGGCATCCTGGAAGTGAAGTGTCCTTTTAACAAGGGAAAACCGGAGCAGGGTCTGCCCTGGTCAACGATGCCTTTCTATTACATGCCTCAGGTGCAGGGTCAAATGGAGATAATGGATAGAGAGTGGGTTGATTTATATTGCTGGACACCAAATGGAAGCACAATATTCCGCGTGTGCCGAGACCGTAGTTACTGGGACTTGATGCATGGAATTTTAAGGGAATTTTGGTGGGAAAATGTGATTCCTGCTAAGGAGGCTCTTTTGCTGGGTAATGAAGAAAAGGCTAGGGAGTATATGCCAACTTCTACTCACAAAAAAACCGGCCTTGCAATCGTTAAGAGCTTGGAGTTAGCAAGAGGATCAAAGTTGCTGTGTAGGGAGATTGCTGGCCACATCGAGTTTTACTAG
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

360

Amino Acids

40.39

Weight (kDa)

9.02

Isoelectric Point (pI)

52.33

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YqaJ PF09588 124 - 263 3.5e-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) 635
AccB7I CCANNNNNTGG 1 cut(s) 522
AccBSI CCGCTC 2 cut(s) 556, 619
AccI GTMKAC 1 cut(s) 448
AccII CGCG 2 cut(s) 497, 846
AciI CCGC 5 cut(s) 48, 385, 556, 619, 844
AclWI GGATC 1 cut(s) 1042
AcoI YGGCCR 2 cut(s) 546, 1063
AcsI RAATTY 4 cut(s) 286, 491, 885, 896
AcuI CTGAAG 1 cut(s) 397
AfaI GTAC 1 cut(s) 589
AfiI CCNNNNNNNGG 5 cut(s) 107, 522, 555, 613, 722
AflIII ACRYGT 1 cut(s) 225
AgsI TTSAA 2 cut(s) 96, 668
AjiI CACGTC 1 cut(s) 261
AjnI CCWGG 2 cut(s) 681, 731
AluBI AGCT 7 cut(s) 7, 65, 128, 186, 457, 503, 1017
AluI AGCT 7 cut(s) 7, 65, 128, 186, 457, 503, 1017
Alw21I GWGCWC 3 cut(s) 343, 459, 534
Alw26I GTCTC 1 cut(s) 849
Alw44I GTGCAC 1 cut(s) 339
AlwI GGATC 1 cut(s) 1042
AlwNI CAGNNNCTG 1 cut(s) 727
Ama87I CYCGRG 1 cut(s) 333
AoxI GGCC 4 cut(s) 248, 546, 997, 1063
ApaLI GTGCAC 1 cut(s) 339
ApeKI GCWGC 3 cut(s) 62, 128, 183
ApoI RAATTY 4 cut(s) 286, 491, 885, 896
Asp700I GAANNNNTTC 1 cut(s) 491
AspLEI GCGC 3 cut(s) 266, 325, 499
AspS9I GGNCC 1 cut(s) 249
AsuC2I CCSGG 2 cut(s) 334, 335
AsuHPI GGTGA 2 cut(s) 261, 310
AvaI CYCGRG 1 cut(s) 333
AxyI CCTNAGG 1 cut(s) 762
BaeGI GKGCMC 2 cut(s) 39, 343
BalI TGGCCA 2 cut(s) 548, 1065
BanI GGYRCC 1 cut(s) 635
BanII GRGCYC 1 cut(s) 459
BbsI GAAGAC 1 cut(s) 207
Bbv12I GWGCWC 3 cut(s) 343, 459, 534
BbvI GCAGC 3 cut(s) 74, 115, 195
BccI CCATC 2 cut(s) 319, 641
BceAI ACGGC 1 cut(s) 88
BcgI CGANNNNNNTGC 2 cut(s) 64, 98
BciT130I CCWGG 2 cut(s) 683, 733
BcnI CCSGG 2 cut(s) 334, 335
BcoDI GTCTC 1 cut(s) 849
BfaI CTAG 2 cut(s) 960, 1081
BfmI CTRYAG 1 cut(s) 181
BisI GCNGC 4 cut(s) 63, 129, 184, 386
BlsI GCNGC 4 cut(s) 64, 130, 185, 387
Bme1390I CCNGG 4 cut(s) 334, 335, 683, 733
BmeT110I CYCGRG 1 cut(s) 333
BmgBI CACGTC 1 cut(s) 261
BmgT120I GGNCC 1 cut(s) 249
BmiI GGNNCC 1 cut(s) 637
BmrFI CCNGG 4 cut(s) 334, 335, 683, 733
BmrI ACTGGG 1 cut(s) 877
BmsI GCATC 7 cut(s) 291, 340, 576, 611, 687, 732, 867
BmuI ACTGGG 1 cut(s) 877
BpiI GAAGAC 1 cut(s) 207
Bpu10I CCTNAGC 2 cut(s) 453, 924
BpuMI CCSGG 2 cut(s) 334, 335
BsaBI GATNNNNATC 1 cut(s) 601
BsaI GGTCTC 1 cut(s) 849
BsaJI CCNNGG 5 cut(s) 333, 334, 423, 607, 731
BsaWI WCCGGW 1 cut(s) 715
Bsc4I CCNNNNNNNGG 5 cut(s) 107, 522, 555, 613, 722
Bse118I RCCGGY 2 cut(s) 131, 995
Bse1I ACTGG 2 cut(s) 178, 872
Bse21I CCTNAGG 1 cut(s) 762
Bse3DI GCAATG 3 cut(s) 159, 166, 527
Bse8I GATNNNNATC 1 cut(s) 601
BseBI CCWGG 2 cut(s) 683, 733
BseDI CCNNGG 5 cut(s) 333, 334, 423, 607, 731
BseGI GGATG 2 cut(s) 602, 678
BseJI GATNNNNATC 1 cut(s) 601
BseLI CCNNNNNNNGG 5 cut(s) 107, 522, 555, 613, 722
BseMI GCAATG 3 cut(s) 159, 166, 527
BseMII CTCAG 3 cut(s) 120, 444, 776
BseNI ACTGG 2 cut(s) 178, 872
BseRI GAGGAG 2 cut(s) 383, 629
BseSI GKGCMC 2 cut(s) 39, 343
BseXI GCAGC 3 cut(s) 74, 115, 195
BseYI CCCAGC 2 cut(s) 357, 940
BsgI GTGCAG 2 cut(s) 154, 788
Bsh1236I CGCG 2 cut(s) 497, 846
BshFI GGCC 4 cut(s) 250, 548, 999, 1065
BshNI GGYRCC 1 cut(s) 635
BsiHKAI GWGCWC 3 cut(s) 343, 459, 534
BsiHKCI CYCGRG 1 cut(s) 333
BsiSI CCGG 4 cut(s) 132, 334, 716, 996
BslFI GGGAC 1 cut(s) 884
BslI CCNNNNNNNGG 5 cut(s) 107, 522, 555, 613, 722
BsmAI GTCTC 1 cut(s) 849
BsmFI GGGAC 1 cut(s) 884
BsnI GGCC 4 cut(s) 250, 548, 999, 1065
Bso31I GGTCTC 1 cut(s) 849
BsoBI CYCGRG 1 cut(s) 333
Bsp1286I GDGCHC 4 cut(s) 39, 343, 459, 534
Bsp143I GATC 2 cut(s) 276, 1034
BspACI CCGC 5 cut(s) 48, 385, 556, 619, 844
BspANI GGCC 4 cut(s) 250, 548, 999, 1065
BspCNI CTCAG 3 cut(s) 119, 445, 775
BspFNI CGCG 2 cut(s) 497, 846
BspLI GGNNCC 1 cut(s) 637
BspMAI CTGCAG 1 cut(s) 185
BspPI GGATC 1 cut(s) 1042
BspT107I GGYRCC 1 cut(s) 635
BspTNI GGTCTC 1 cut(s) 849
BsrBI CCGCTC 2 cut(s) 556, 619
BsrDI GCAATG 3 cut(s) 159, 166, 527
BsrFI RCCGGY 2 cut(s) 131, 995
BsrI ACTGG 2 cut(s) 178, 872
BssAI RCCGGY 2 cut(s) 131, 995
BssECI CCNNGG 5 cut(s) 333, 334, 423, 607, 731
BssMI GATC 2 cut(s) 276, 1034
BssT1I CCWWGG 1 cut(s) 423
Bst2UI CCWGG 2 cut(s) 683, 733
Bst4CI ACNGT 2 cut(s) 446, 860
Bst6I CTCTTC 1 cut(s) 534
BstAPI GCANNNNNTGC 1 cut(s) 727
BstC8I GCNNGC 6 cut(s) 9, 48, 67, 327, 501, 1063
BstDEI CTNAG 4 cut(s) 106, 453, 762, 924
BstDSI CCRYGG 1 cut(s) 607
BstF5I GGATG 2 cut(s) 602, 678
BstFNI CGCG 2 cut(s) 497, 846
BstHHI GCGC 3 cut(s) 266, 325, 499
BstKTI GATC 2 cut(s) 279, 1037
BstMAI GTCTC 1 cut(s) 849
BstMBI GATC 2 cut(s) 276, 1034
BstMWI GCNNNNNNNGC 5 cut(s) 43, 414, 727, 766, 929
BstNI CCWGG 2 cut(s) 683, 733
BstNSI RCATGY 2 cut(s) 229, 760
BstSCI CCNGG 4 cut(s) 332, 333, 681, 731
BstSFI CTRYAG 1 cut(s) 181
BstSLI GKGCMC 2 cut(s) 39, 343
BstUI CGCG 2 cut(s) 497, 846
BstV1I GCAGC 3 cut(s) 74, 115, 195
BstV2I GAAGAC 1 cut(s) 207
Bsu36I CCTNAGG 1 cut(s) 762
BsuRI GGCC 4 cut(s) 250, 548, 999, 1065
BtgI CCRYGG 1 cut(s) 607
BtrI CACGTC 1 cut(s) 261
BtsCI GGATG 2 cut(s) 602, 678
BtsI GCAGTG 2 cut(s) 207, 417
BtsIMutI CAGTG 3 cut(s) 171, 207, 417
Cac8I GCNNGC 6 cut(s) 9, 48, 67, 327, 501, 1063
CaiI CAGNNNCTG 1 cut(s) 727
CfoI GCGC 3 cut(s) 266, 325, 499
Cfr10I RCCGGY 2 cut(s) 131, 995
Cfr13I GGNCC 1 cut(s) 249
Cfr9I CCCGGG 1 cut(s) 333
Csp6I GTAC 1 cut(s) 588
CviAII CATG 6 cut(s) 29, 226, 464, 517, 757, 881
CviQI GTAC 1 cut(s) 588
DdeI CTNAG 4 cut(s) 106, 453, 762, 924
DpnI GATC 2 cut(s) 278, 1036
DpnII GATC 2 cut(s) 276, 1034
EaeI YGGCCR 2 cut(s) 546, 1063
Eam1104I CTCTTC 1 cut(s) 534
EarI CTCTTC 1 cut(s) 534
Ecl136II GAGCTC 1 cut(s) 457
Eco130I CCWWGG 1 cut(s) 423
Eco24I GRGCYC 1 cut(s) 459
Eco31I GGTCTC 1 cut(s) 849
Eco53kI GAGCTC 1 cut(s) 457
Eco57I CTGAAG 1 cut(s) 397
Eco81I CCTNAGG 1 cut(s) 762
Eco88I CYCGRG 1 cut(s) 333
EcoICRI GAGCTC 1 cut(s) 457
EcoO109I RGGNCCY 1 cut(s) 249
EcoRI GAATTC 1 cut(s) 491
EcoRII CCWGG 2 cut(s) 681, 731
EcoT14I CCWWGG 1 cut(s) 423
EcoT22I ATGCAT 1 cut(s) 882
EcoT38I GRGCYC 1 cut(s) 459
ErhI CCWWGG 1 cut(s) 423
FaeI CATG 6 cut(s) 32, 229, 467, 520, 760, 884
FaqI GGGAC 1 cut(s) 884
FatI CATG 6 cut(s) 28, 225, 463, 516, 756, 880
FauI CCCGC 1 cut(s) 55
FauNDI CATATG 1 cut(s) 592
FblI GTMKAC 1 cut(s) 448
Fnu4HI GCNGC 4 cut(s) 63, 129, 184, 386
FokI GGATG 2 cut(s) 589, 665
FriOI GRGCYC 1 cut(s) 459
Fsp4HI GCNGC 4 cut(s) 63, 129, 184, 386
FspBI CTAG 2 cut(s) 960, 1081
GlaI GCGC 3 cut(s) 265, 324, 498
GluI GCNGC 4 cut(s) 63, 129, 184, 386
GsaI CCCAGC 2 cut(s) 361, 944
HaeIII GGCC 4 cut(s) 250, 548, 999, 1065
HapII CCGG 4 cut(s) 132, 334, 716, 996
HhaI GCGC 3 cut(s) 266, 325, 499
Hin1II CATG 6 cut(s) 32, 229, 467, 520, 760, 884
Hin6I GCGC 3 cut(s) 264, 323, 497
HinP1I GCGC 3 cut(s) 264, 323, 497
HincII GTYRAC 2 cut(s) 449, 738
HindII GTYRAC 2 cut(s) 449, 738
HindIII AAGCTT 1 cut(s) 501
HinfI GANTC 3 cut(s) 177, 479, 916
HpaII CCGG 4 cut(s) 132, 334, 716, 996
HphI GGTGA 2 cut(s) 261, 310
Hpy166II GTNNAC 3 cut(s) 341, 449, 738
Hpy188I TCNGA 3 cut(s) 117, 349, 367
Hpy188III TCNNGA 3 cut(s) 96, 219, 578
Hpy8I GTNNAC 3 cut(s) 341, 449, 738
Hpy99I CGWCG 3 cut(s) 86, 262, 450
HpyAV CCTTC 4 cut(s) 67, 421, 430, 463
HpyCH4III ACNGT 2 cut(s) 446, 860
HpyCH4IV ACGT 1 cut(s) 260
HpyCH4V TGCA 8 cut(s) 171, 183, 341, 520, 602, 769, 880, 1004
HpyF10VI GCNNNNNNNGC 5 cut(s) 43, 414, 727, 766, 929
HpyF3I CTNAG 4 cut(s) 106, 453, 762, 924
HpySE526I ACGT 1 cut(s) 260
Hsp92II CATG 6 cut(s) 32, 229, 467, 520, 760, 884
HspAI GCGC 3 cut(s) 264, 323, 497
Kzo9I GATC 2 cut(s) 276, 1034
LmnI GCTCC 3 cut(s) 358, 616, 718
Lsp1109I GCAGC 3 cut(s) 74, 115, 195
LweI GCATC 7 cut(s) 291, 340, 576, 611, 687, 732, 867
MaeI CTAG 2 cut(s) 960, 1081
MaeII ACGT 1 cut(s) 260
MaeIII GTNAC 1 cut(s) 863
MalI GATC 2 cut(s) 278, 1036
MbiI CCGCTC 2 cut(s) 556, 619
MboI GATC 2 cut(s) 276, 1034
MboII GAAGA 3 cut(s) 207, 551, 962
MhlI GDGCHC 4 cut(s) 39, 343, 459, 534
MlsI TGGCCA 2 cut(s) 548, 1065
MluCI AATT 5 cut(s) 91, 286, 491, 885, 896
MluNI TGGCCA 2 cut(s) 548, 1065
MnlI CCTC 9 cut(s) 64, 277, 361, 535, 607, 649, 771, 922, 1025
Mox20I TGGCCA 2 cut(s) 548, 1065
Mph1103I ATGCAT 1 cut(s) 882
MroXI GAANNNNTTC 1 cut(s) 491
MscI TGGCCA 2 cut(s) 548, 1065
MseI TTAA 4 cut(s) 90, 702, 890, 1011
Msp20I TGGCCA 2 cut(s) 548, 1065
MspA1I CMGCKG 1 cut(s) 65
MspI CCGG 4 cut(s) 132, 334, 716, 996
MspR9I CCNGG 4 cut(s) 334, 335, 683, 733
MvaI CCWGG 2 cut(s) 683, 733
MvnI CGCG 2 cut(s) 497, 846
MwoI GCNNNNNNNGC 5 cut(s) 43, 414, 727, 766, 929
NciI CCSGG 2 cut(s) 334, 335
NdeI CATATG 1 cut(s) 592
NdeII GATC 2 cut(s) 276, 1034
NlaIII CATG 6 cut(s) 32, 229, 467, 520, 760, 884
NlaIV GGNNCC 1 cut(s) 637
NmeAIII GCCGAG 1 cut(s) 878
NsiI ATGCAT 1 cut(s) 882
NspI RCATGY 2 cut(s) 229, 760
PciI ACATGT 1 cut(s) 225
PcsI WCGNNNNNNNCGW 1 cut(s) 78
PdmI GAANNNNTTC 1 cut(s) 491
PfeI GAWTC 3 cut(s) 177, 479, 916
PflMI CCANNNNNTGG 1 cut(s) 522
PfoI TCCNGGA 1 cut(s) 681
PkrI GCNGC 4 cut(s) 64, 130, 185, 387
PscI ACATGT 1 cut(s) 225
Psp124BI GAGCTC 1 cut(s) 459
Psp6I CCWGG 2 cut(s) 681, 731
PspFI CCCAGC 2 cut(s) 357, 940
PspGI CCWGG 2 cut(s) 681, 731
PspN4I GGNNCC 1 cut(s) 637
PspPI GGNCC 1 cut(s) 249
PstI CTGCAG 1 cut(s) 185
PstNI CAGNNNCTG 1 cut(s) 727
PvuII CAGCTG 1 cut(s) 65
RsaI GTAC 1 cut(s) 589
RsaNI GTAC 1 cut(s) 588
SacI GAGCTC 1 cut(s) 459
SalI GTCGAC 1 cut(s) 447
SaqAI TTAA 4 cut(s) 90, 702, 890, 1011
SatI GCNGC 4 cut(s) 63, 129, 184, 386
Sau3AI GATC 2 cut(s) 276, 1034
Sau96I GGNCC 1 cut(s) 249
ScrFI CCNGG 4 cut(s) 334, 335, 683, 733
SduI GDGCHC 4 cut(s) 39, 343, 459, 534
SfaNI GCATC 7 cut(s) 291, 340, 576, 611, 687, 732, 867
SfcI CTRYAG 1 cut(s) 181
SmaI CCCGGG 1 cut(s) 335
SmlI CTYRAG 1 cut(s) 12
SmoI CTYRAG 1 cut(s) 12
Sse9I AATT 5 cut(s) 91, 286, 491, 885, 896
SsiI CCGC 5 cut(s) 48, 385, 556, 619, 844
SspI AATATT 1 cut(s) 840
SspMI CTAG 2 cut(s) 960, 1081
SstI GAGCTC 1 cut(s) 459
StyD4I CCNGG 4 cut(s) 332, 333, 681, 731
StyI CCWWGG 1 cut(s) 423
TaaI ACNGT 2 cut(s) 446, 860
TaiI ACGT 1 cut(s) 263
TaqI TCGA 4 cut(s) 218, 257, 448, 1071
TasI AATT 5 cut(s) 91, 286, 491, 885, 896
TauI GCSGC 1 cut(s) 388
TfiI GAWTC 3 cut(s) 177, 479, 916
Tru1I TTAA 4 cut(s) 90, 702, 890, 1011
Tru9I TTAA 4 cut(s) 90, 702, 890, 1011
TscAI CASTG 3 cut(s) 178, 207, 424
TseI GCWGC 3 cut(s) 62, 128, 183
TspDTI ATGAA 4 cut(s) 17, 179, 552, 963
TspGWI ACGGA 1 cut(s) 624
TspMI CCCGGG 1 cut(s) 333
TspRI CASTG 3 cut(s) 178, 207, 424
Van91I CCANNNNNTGG 1 cut(s) 522
VneI GTGCAC 1 cut(s) 339
XapI RAATTY 4 cut(s) 286, 491, 885, 896
XceI RCATGY 2 cut(s) 229, 760
XmaI CCCGGG 1 cut(s) 333
XmiI GTMKAC 1 cut(s) 448
XmnI GAANNNNTTC 1 cut(s) 491
XspI CTAG 2 cut(s) 960, 1081
Zsp2I ATGCAT 1 cut(s) 882
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.