Rh4BG315700

YqaJ-like viral recombinase domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4B
OG0014008
Physical Location & Seq
Reverse (-)
48287356 .. 48288867
1512 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4BG315700.1

Sequence Viewer

Length: 1134 bp
ATGAAGCTCGCTCAAGTCTCTTCGTCTCAGTCAAGAGCTTCTCTTTGCTCTCTACATGGAGTGCCCAAACTGCCCTCTTCCTCCTTCGCAGCTGGCAAAGGCAAAGTCGTTGCCTTTAATTCAAGACCATTCTCAGTGTGTGGCTTTTGTAGAACAGGTCATCGGAACAAAGTAGCTGCCGGTGGCATTGGCGTATCAGCAATGAGCAATGCCTACTGCACTGGATTCTTCTGCAGCTTTCATCATAAAGCAGTGGAAATGCTGTCTTTGAGAAAGATGTGTGGAAAAATATTTTTTAGGGCCTTTTCGACATGCGCCTCACCGATGGTCTCTACGAATTTTGCTCTGGTGATGCGTTCCCCATCATCACTTGCGTTGGCTACCCGGGGTGCACTATCTGATGCTCCCCAGCGTTCAGAGGAGTGGTTTGCCTTGCGGCGAAACAAACTGACTACAAGCACCTTCAGCACTGCCTTGGGATTTTGGAAAGGAAACCGTCGACCTGAGCTCTGGCATGAGAAGGTATTTGATTCACAGAAAGAATTCGCGCAAGCTTCTAAAAATGCCATGCAATGGGGTGTGCTCAATGAAGAGGTGGCCATAGAGCAGTATAAAAGCATCACAGGTCGTGAAGTGGGTACATATGGATTTGCATCCCACGGAGAGGAGCGGTTTGATTGGCTTGGTGCCTCCCCTGATGGTCTGCTTGATTGCTTTCAAGGTGGTGGTATCCTGGAAGTGAAGTGTCCTTTTAACAAGGGAAAACCGGAGCAGGGTCTGCCCTGGTCAACGATGCCTTTCTATTACATGCCTCAGGTGCAGGGTCAAATGGAGATAATGGATAGAGAGTGGGTTGATTTATATTGCTGGACACCAAATGGAAGCACAATATTCCGCGTGTGCCGAGACCGTAGTTATTGGGACTTGATGCATGGAATTTTAAGGGAATTTTGGTGGGAAAATGTGATTCCTGCTAAGGAGGCTCTTTTGCTGGGTAATGAAGAAAAGGCCAGGGAGTATATGCCAACTTCTACTCACAAAAAAACCGGCCTTGCAATCGTTAAGAGCTTGGAGTTAGCAAGAGGATCAAAGTTGCTGTGTAGGGAGATTGCTGGCCACATCGAGTTTTACTAG
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

377

Amino Acids

42.24

Weight (kDa)

9.15

Isoelectric Point (pI)

53.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YqaJ PF09588 141 - 280 2.5e-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) 686
AccB7I CCANNNNNTGG 1 cut(s) 573
AccBSI CCGCTC 1 cut(s) 670
AccI GTMKAC 1 cut(s) 499
AccII CGCG 2 cut(s) 548, 897
AciI CCGC 3 cut(s) 436, 670, 895
AclWI GGATC 1 cut(s) 1093
AcoI YGGCCR 2 cut(s) 597, 1114
AcsI RAATTY 4 cut(s) 337, 542, 936, 947
AcuI CTGAAG 1 cut(s) 448
AfaI GTAC 1 cut(s) 640
AfiI CCNNNNNNNGG 3 cut(s) 573, 664, 773
AgsI TTSAA 2 cut(s) 123, 719
AjnI CCWGG 3 cut(s) 732, 782, 1010
AluBI AGCT 8 cut(s) 7, 38, 92, 176, 237, 508, 554, 1068
AluI AGCT 8 cut(s) 7, 38, 92, 176, 237, 508, 554, 1068
Alw21I GWGCWC 3 cut(s) 394, 510, 585
Alw26I GTCTC 4 cut(s) 22, 30, 334, 900
Alw44I GTGCAC 1 cut(s) 390
AlwI GGATC 1 cut(s) 1093
AlwNI CAGNNNCTG 1 cut(s) 778
Ama87I CYCGRG 1 cut(s) 384
AoxI GGCC 5 cut(s) 300, 597, 1008, 1048, 1114
ApaLI GTGCAC 1 cut(s) 390
ApeKI GCWGC 3 cut(s) 89, 176, 234
ApoI RAATTY 4 cut(s) 337, 542, 936, 947
ArsI GACNNNNNNTTYG 2 cut(s) 90, 122
Asp700I GAANNNNTTC 1 cut(s) 542
AspLEI GCGC 2 cut(s) 317, 550
AspS9I GGNCC 1 cut(s) 300
AsuC2I CCSGG 2 cut(s) 385, 386
AsuHPI GGTGA 2 cut(s) 312, 361
AvaI CYCGRG 1 cut(s) 384
AxyI CCTNAGG 1 cut(s) 813
BaeGI GKGCMC 2 cut(s) 66, 394
BalI TGGCCA 2 cut(s) 599, 1116
BanI GGYRCC 1 cut(s) 686
BanII GRGCYC 1 cut(s) 510
Bbv12I GWGCWC 3 cut(s) 394, 510, 585
BbvI GCAGC 3 cut(s) 101, 163, 246
BccI CCATC 3 cut(s) 319, 370, 692
BciT130I CCWGG 3 cut(s) 734, 784, 1012
BciVI GTATCC 1 cut(s) 740
BcnI CCSGG 2 cut(s) 385, 386
BcoDI GTCTC 4 cut(s) 22, 30, 334, 900
BfaI CTAG 1 cut(s) 1132
BfmI CTRYAG 1 cut(s) 232
BfuI GTATCC 1 cut(s) 740
BisI GCNGC 4 cut(s) 90, 177, 235, 437
BlsI GCNGC 4 cut(s) 91, 178, 236, 438
Bme1390I CCNGG 5 cut(s) 385, 386, 734, 784, 1012
BmeT110I CYCGRG 1 cut(s) 384
BmgT120I GGNCC 1 cut(s) 300
BmiI GGNNCC 1 cut(s) 688
BmrFI CCNGG 5 cut(s) 385, 386, 734, 784, 1012
BmsI GCATC 6 cut(s) 342, 391, 627, 662, 783, 918
Bpu10I CCTNAGC 2 cut(s) 504, 975
BpuMI CCSGG 2 cut(s) 385, 386
BsaBI GATNNNNATC 1 cut(s) 652
BsaI GGTCTC 2 cut(s) 334, 900
BsaJI CCNNGG 6 cut(s) 384, 385, 474, 658, 782, 1011
BsaWI WCCGGW 1 cut(s) 766
Bsc4I CCNNNNNNNGG 3 cut(s) 573, 664, 773
Bse118I RCCGGY 2 cut(s) 179, 1046
Bse1I ACTGG 1 cut(s) 226
Bse21I CCTNAGG 1 cut(s) 813
Bse3DI GCAATG 3 cut(s) 207, 214, 578
Bse8I GATNNNNATC 1 cut(s) 652
BseBI CCWGG 3 cut(s) 734, 784, 1012
BseDI CCNNGG 6 cut(s) 384, 385, 474, 658, 782, 1011
BseGI GGATG 1 cut(s) 653
BseJI GATNNNNATC 1 cut(s) 652
BseLI CCNNNNNNNGG 3 cut(s) 573, 664, 773
BseMI GCAATG 3 cut(s) 207, 214, 578
BseMII CTCAG 4 cut(s) 41, 147, 495, 827
BseNI ACTGG 1 cut(s) 226
BseRI GAGGAG 2 cut(s) 434, 680
BseSI GKGCMC 2 cut(s) 66, 394
BseXI GCAGC 3 cut(s) 101, 163, 246
BseYI CCCAGC 2 cut(s) 408, 991
BsgI GTGCAG 2 cut(s) 202, 839
Bsh1236I CGCG 2 cut(s) 548, 897
BshFI GGCC 5 cut(s) 302, 599, 1010, 1050, 1116
BshNI GGYRCC 1 cut(s) 686
BsiHKAI GWGCWC 3 cut(s) 394, 510, 585
BsiHKCI CYCGRG 1 cut(s) 384
BsiSI CCGG 4 cut(s) 180, 385, 767, 1047
BslFI GGGAC 1 cut(s) 935
BslI CCNNNNNNNGG 3 cut(s) 573, 664, 773
BsmAI GTCTC 4 cut(s) 22, 30, 334, 900
BsmBI CGTCTC 1 cut(s) 30
BsmFI GGGAC 1 cut(s) 935
BsnI GGCC 5 cut(s) 302, 599, 1010, 1050, 1116
Bso31I GGTCTC 2 cut(s) 334, 900
BsoBI CYCGRG 1 cut(s) 384
Bsp1286I GDGCHC 4 cut(s) 66, 394, 510, 585
Bsp143I GATC 1 cut(s) 1085
BspACI CCGC 3 cut(s) 436, 670, 895
BspANI GGCC 5 cut(s) 302, 599, 1010, 1050, 1116
BspCNI CTCAG 4 cut(s) 40, 146, 496, 826
BspFNI CGCG 2 cut(s) 548, 897
BspLI GGNNCC 1 cut(s) 688
BspMAI CTGCAG 1 cut(s) 236
BspPI GGATC 1 cut(s) 1093
BspT107I GGYRCC 1 cut(s) 686
BspTNI GGTCTC 2 cut(s) 334, 900
BsrBI CCGCTC 1 cut(s) 670
BsrDI GCAATG 3 cut(s) 207, 214, 578
BsrFI RCCGGY 2 cut(s) 179, 1046
BsrI ACTGG 1 cut(s) 226
BssAI RCCGGY 2 cut(s) 179, 1046
BssECI CCNNGG 6 cut(s) 384, 385, 474, 658, 782, 1011
BssMI GATC 1 cut(s) 1085
BssT1I CCWWGG 1 cut(s) 474
Bst2UI CCWGG 3 cut(s) 734, 784, 1012
Bst4CI ACNGT 2 cut(s) 497, 911
Bst6I CTCTTC 3 cut(s) 25, 82, 585
BstAPI GCANNNNNTGC 1 cut(s) 778
BstC8I GCNNGC 4 cut(s) 9, 94, 552, 1114
BstDEI CTNAG 5 cut(s) 27, 133, 504, 813, 975
BstDSI CCRYGG 1 cut(s) 658
BstF5I GGATG 1 cut(s) 653
BstFNI CGCG 2 cut(s) 548, 897
BstHHI GCGC 2 cut(s) 317, 550
BstKTI GATC 1 cut(s) 1088
BstMAI GTCTC 4 cut(s) 22, 30, 334, 900
BstMBI GATC 1 cut(s) 1085
BstMWI GCNNNNNNNGC 5 cut(s) 70, 465, 778, 817, 980
BstNI CCWGG 3 cut(s) 734, 784, 1012
BstNSI RCATGY 2 cut(s) 315, 811
BstSCI CCNGG 5 cut(s) 383, 384, 732, 782, 1010
BstSFI CTRYAG 1 cut(s) 232
BstSLI GKGCMC 2 cut(s) 66, 394
BstUI CGCG 2 cut(s) 548, 897
BstV1I GCAGC 3 cut(s) 101, 163, 246
Bsu36I CCTNAGG 1 cut(s) 813
BsuI GTATCC 1 cut(s) 740
BsuRI GGCC 5 cut(s) 302, 599, 1010, 1050, 1116
BtgI CCRYGG 1 cut(s) 658
BtsCI GGATG 1 cut(s) 653
BtsI GCAGTG 2 cut(s) 258, 468
BtsIMutI CAGTG 4 cut(s) 141, 219, 258, 468
Cac8I GCNNGC 4 cut(s) 9, 94, 552, 1114
CaiI CAGNNNCTG 1 cut(s) 778
CfoI GCGC 2 cut(s) 317, 550
Cfr10I RCCGGY 2 cut(s) 179, 1046
Cfr13I GGNCC 1 cut(s) 300
Cfr9I CCCGGG 1 cut(s) 384
Csp6I GTAC 1 cut(s) 639
CviAII CATG 6 cut(s) 56, 312, 515, 568, 808, 932
CviQI GTAC 1 cut(s) 639
DdeI CTNAG 5 cut(s) 27, 133, 504, 813, 975
DpnI GATC 1 cut(s) 1087
DpnII GATC 1 cut(s) 1085
EaeI YGGCCR 2 cut(s) 597, 1114
Eam1104I CTCTTC 3 cut(s) 25, 82, 585
EarI CTCTTC 3 cut(s) 25, 82, 585
Ecl136II GAGCTC 1 cut(s) 508
Eco130I CCWWGG 1 cut(s) 474
Eco24I GRGCYC 1 cut(s) 510
Eco31I GGTCTC 2 cut(s) 334, 900
Eco53kI GAGCTC 1 cut(s) 508
Eco57I CTGAAG 1 cut(s) 448
Eco81I CCTNAGG 1 cut(s) 813
Eco88I CYCGRG 1 cut(s) 384
EcoICRI GAGCTC 1 cut(s) 508
EcoO109I RGGNCCY 1 cut(s) 300
EcoRI GAATTC 1 cut(s) 542
EcoRII CCWGG 3 cut(s) 732, 782, 1010
EcoT14I CCWWGG 1 cut(s) 474
EcoT22I ATGCAT 1 cut(s) 933
EcoT38I GRGCYC 1 cut(s) 510
ErhI CCWWGG 1 cut(s) 474
Esp3I CGTCTC 1 cut(s) 30
FaeI CATG 6 cut(s) 59, 315, 518, 571, 811, 935
FaqI GGGAC 1 cut(s) 935
FatI CATG 6 cut(s) 55, 311, 514, 567, 807, 931
FauNDI CATATG 1 cut(s) 643
FblI GTMKAC 1 cut(s) 499
Fnu4HI GCNGC 4 cut(s) 90, 177, 235, 437
FokI GGATG 1 cut(s) 640
FriOI GRGCYC 1 cut(s) 510
Fsp4HI GCNGC 4 cut(s) 90, 177, 235, 437
FspBI CTAG 1 cut(s) 1132
GlaI GCGC 2 cut(s) 316, 549
GluI GCNGC 4 cut(s) 90, 177, 235, 437
GsaI CCCAGC 2 cut(s) 412, 995
HaeIII GGCC 5 cut(s) 302, 599, 1010, 1050, 1116
HapII CCGG 4 cut(s) 180, 385, 767, 1047
HhaI GCGC 2 cut(s) 317, 550
Hin1II CATG 6 cut(s) 59, 315, 518, 571, 811, 935
Hin6I GCGC 2 cut(s) 315, 548
HinP1I GCGC 2 cut(s) 315, 548
HincII GTYRAC 2 cut(s) 500, 789
HindII GTYRAC 2 cut(s) 500, 789
HindIII AAGCTT 1 cut(s) 552
HinfI GANTC 3 cut(s) 225, 530, 967
HpaII CCGG 4 cut(s) 180, 385, 767, 1047
HphI GGTGA 2 cut(s) 312, 361
Hpy166II GTNNAC 3 cut(s) 392, 500, 789
Hpy188I TCNGA 3 cut(s) 165, 400, 418
Hpy188III TCNNGA 3 cut(s) 33, 123, 629
Hpy8I GTNNAC 3 cut(s) 392, 500, 789
Hpy99I CGWCG 1 cut(s) 501
HpyAV CCTTC 3 cut(s) 94, 472, 514
HpyCH4III ACNGT 2 cut(s) 497, 911
HpyCH4V TGCA 8 cut(s) 219, 234, 392, 571, 653, 820, 931, 1055
HpyF10VI GCNNNNNNNGC 5 cut(s) 70, 465, 778, 817, 980
HpyF3I CTNAG 5 cut(s) 27, 133, 504, 813, 975
Hsp92II CATG 6 cut(s) 59, 315, 518, 571, 811, 935
HspAI GCGC 2 cut(s) 315, 548
Kzo9I GATC 1 cut(s) 1085
LmnI GCTCC 3 cut(s) 409, 667, 769
Lsp1109I GCAGC 3 cut(s) 101, 163, 246
LweI GCATC 6 cut(s) 342, 391, 627, 662, 783, 918
MaeI CTAG 1 cut(s) 1132
MalI GATC 1 cut(s) 1087
MbiI CCGCTC 1 cut(s) 670
MboI GATC 1 cut(s) 1085
MboII GAAGA 5 cut(s) 12, 69, 220, 602, 1013
MhlI GDGCHC 4 cut(s) 66, 394, 510, 585
MlsI TGGCCA 2 cut(s) 599, 1116
MluCI AATT 5 cut(s) 118, 337, 542, 936, 947
MluNI TGGCCA 2 cut(s) 599, 1116
Mox20I TGGCCA 2 cut(s) 599, 1116
Mph1103I ATGCAT 1 cut(s) 933
MroXI GAANNNNTTC 1 cut(s) 542
MscI TGGCCA 2 cut(s) 599, 1116
MseI TTAA 4 cut(s) 117, 753, 941, 1062
Msp20I TGGCCA 2 cut(s) 599, 1116
MspA1I CMGCKG 1 cut(s) 92
MspI CCGG 4 cut(s) 180, 385, 767, 1047
MspR9I CCNGG 5 cut(s) 385, 386, 734, 784, 1012
MvaI CCWGG 3 cut(s) 734, 784, 1012
MvnI CGCG 2 cut(s) 548, 897
MwoI GCNNNNNNNGC 5 cut(s) 70, 465, 778, 817, 980
NciI CCSGG 2 cut(s) 385, 386
NdeI CATATG 1 cut(s) 643
NdeII GATC 1 cut(s) 1085
NlaIII CATG 6 cut(s) 59, 315, 518, 571, 811, 935
NlaIV GGNNCC 1 cut(s) 688
NmeAIII GCCGAG 1 cut(s) 929
NsiI ATGCAT 1 cut(s) 933
NspI RCATGY 2 cut(s) 315, 811
PdmI GAANNNNTTC 1 cut(s) 542
PfeI GAWTC 3 cut(s) 225, 530, 967
PflMI CCANNNNNTGG 1 cut(s) 573
PfoI TCCNGGA 1 cut(s) 732
PkrI GCNGC 4 cut(s) 91, 178, 236, 438
Psp124BI GAGCTC 1 cut(s) 510
Psp6I CCWGG 3 cut(s) 732, 782, 1010
PspFI CCCAGC 2 cut(s) 408, 991
PspGI CCWGG 3 cut(s) 732, 782, 1010
PspN4I GGNNCC 1 cut(s) 688
PspPI GGNCC 1 cut(s) 300
PstI CTGCAG 1 cut(s) 236
PstNI CAGNNNCTG 1 cut(s) 778
PvuII CAGCTG 1 cut(s) 92
RsaI GTAC 1 cut(s) 640
RsaNI GTAC 1 cut(s) 639
SacI GAGCTC 1 cut(s) 510
SalI GTCGAC 1 cut(s) 498
SaqAI TTAA 4 cut(s) 117, 753, 941, 1062
SatI GCNGC 4 cut(s) 90, 177, 235, 437
Sau3AI GATC 1 cut(s) 1085
Sau96I GGNCC 1 cut(s) 300
ScrFI CCNGG 5 cut(s) 385, 386, 734, 784, 1012
SduI GDGCHC 4 cut(s) 66, 394, 510, 585
SfaNI GCATC 6 cut(s) 342, 391, 627, 662, 783, 918
SfcI CTRYAG 1 cut(s) 232
SmaI CCCGGG 1 cut(s) 386
SmlI CTYRAG 1 cut(s) 12
SmoI CTYRAG 1 cut(s) 12
Sse9I AATT 5 cut(s) 118, 337, 542, 936, 947
SsiI CCGC 3 cut(s) 436, 670, 895
SspI AATATT 2 cut(s) 291, 891
SspMI CTAG 1 cut(s) 1132
SstI GAGCTC 1 cut(s) 510
StyD4I CCNGG 5 cut(s) 383, 384, 732, 782, 1010
StyI CCWWGG 1 cut(s) 474
TaaI ACNGT 2 cut(s) 497, 911
TaqI TCGA 3 cut(s) 308, 499, 1122
TasI AATT 5 cut(s) 118, 337, 542, 936, 947
TauI GCSGC 1 cut(s) 439
TfiI GAWTC 3 cut(s) 225, 530, 967
Tru1I TTAA 4 cut(s) 117, 753, 941, 1062
Tru9I TTAA 4 cut(s) 117, 753, 941, 1062
TscAI CASTG 4 cut(s) 141, 226, 258, 475
TseI GCWGC 3 cut(s) 89, 176, 234
TspDTI ATGAA 4 cut(s) 17, 230, 603, 1014
TspGWI ACGGA 1 cut(s) 675
TspMI CCCGGG 1 cut(s) 384
TspRI CASTG 4 cut(s) 141, 226, 258, 475
Van91I CCANNNNNTGG 1 cut(s) 573
VneI GTGCAC 1 cut(s) 390
XapI RAATTY 4 cut(s) 337, 542, 936, 947
XceI RCATGY 2 cut(s) 315, 811
XmaI CCCGGG 1 cut(s) 384
XmiI GTMKAC 1 cut(s) 499
XmnI GAANNNNTTC 1 cut(s) 542
XspI CTAG 1 cut(s) 1132
Zsp2I ATGCAT 1 cut(s) 933
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.