RLG00000013296

YqaJ-like viral recombinase domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0002455
Physical Location & Seq
Reverse (-)
29356838 .. 29361010
4173 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000013296

Sequence Viewer

Length: 951 bp
ATGCTAGGCACCCGAAGACAAATTCTCAGCCATTCTCATTACGCACAGAGGTTTTATTCGTCTGAAAGTTATTCAGTTCTTAATTCACCTGGTCTTCAGCACTGGTTCAAGAATTGGCAAGGACTCAGAAAACAGAAACTGACTGCAAGCACTTTTGCTGCGGCTATTGGTTTCTGGAATCGCCGAAGAGTCGGGCTTTGGTTAGAGAAAATTGGAGCAACTGAGCCCTTTTCTGGTAACCTGGCTACCTGTTGGAATAATATTAAAGAAGAGGAAGCACTTGAAAGATACAAGTTGATAACGGGAAATTCAGTCTCGTTTCCTGAATTTCAGGTCTATGGAAATGTAAATCCAGGAGATGACTGGCTAGCAGCTTCACCAGATGGGGTGGTTGATAACATGCTGTATGGATTGCCTCGACGAGGAGTGCTGGAGGTTAAATGCCCCTTTTTTGATGGAGATATGAGCAAGGCTTTCCCTTGGTCCCGAATTCCTCTTCACTGTATTCCACAGGCTCAGGGTTTAATGGAAATAGTTGACAGGGAATGGATGGATTTATATGTTTGGACACCTAACGGAAGTAGCCTATTCAGGTTATACCGAGATGCAGCATACTGGGATATGTTGAAATATGCTCTCTCAGATTTTTGGTGGAATCATGTTCAGCCAGCAAGGGAGTTGTACAGTAAATCTCATGCTATGCATCCTCTCATTGAATCGCTGAGGCCACAACCCAAGCATGAACATTGGCAATATATAGTTTATGAAAGTCATATATCAAGAATTCGAGATCTCCTTCCCATCTTTGAGAAATTTAGAGAAAAATGGGTGTTGTGCAATTGTAACTCTACTACAGTAGCCCTCATTTGTCCCAAACTCCGATTGTGGTCTACTTCAGAGCTCCTCTTCTCTAATATCAGTGGCTACAAGATCATTGCAGGTCTTGGATGA
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

317

Amino Acids

36.79

Weight (kDa)

8.8

Isoelectric Point (pI)

48.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YqaJ PF09588 38 - 178 9.9e-16 YqaJ-like viral recombinase domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 929
AccB1I GGYRCC 1 cut(s) 8
AccI GTMKAC 1 cut(s) 890
AciI CCGC 1 cut(s) 161
AcsI RAATTY 6 cut(s) 21, 307, 326, 489, 783, 812
AcuI CTGAAG 2 cut(s) 80, 879
AfaI GTAC 1 cut(s) 683
AfiI CCNNNNNNNGG 2 cut(s) 233, 422
AgsI TTSAA 4 cut(s) 109, 284, 628, 716
AjnI CCWGG 3 cut(s) 88, 240, 352
AluBI AGCT 2 cut(s) 374, 901
AluI AGCT 2 cut(s) 374, 901
Alw21I GWGCWC 1 cut(s) 903
Alw26I GTCTC 1 cut(s) 319
AlwNI CAGNNNCTG 1 cut(s) 139
AoxI GGCC 1 cut(s) 725
ApeKI GCWGC 3 cut(s) 158, 371, 608
ApoI RAATTY 6 cut(s) 21, 307, 326, 489, 783, 812
AspS9I GGNCC 1 cut(s) 483
AsuHPI GGTGA 2 cut(s) 78, 369
AsuNHI GCTAGC 1 cut(s) 367
AvaII GGWCC 1 cut(s) 483
BanI GGYRCC 1 cut(s) 8
BanII GRGCYC 2 cut(s) 228, 903
BbsI GAAGAC 2 cut(s) 22, 86
Bbv12I GWGCWC 1 cut(s) 903
BbvCI CCTCAGC 1 cut(s) 722
BbvI GCAGC 3 cut(s) 145, 383, 620
BccI CCATC 4 cut(s) 377, 449, 544, 809
BciT130I CCWGG 3 cut(s) 90, 242, 354
BcoDI GTCTC 1 cut(s) 319
BfaI CTAG 2 cut(s) 5, 368
BfmI CTRYAG 1 cut(s) 852
BfuAI ACCTGC 1 cut(s) 929
BglII AGATCT 1 cut(s) 790
BisI GCNGC 4 cut(s) 159, 162, 372, 609
BlsI GCNGC 4 cut(s) 160, 163, 373, 610
Bme1390I CCNGG 3 cut(s) 90, 242, 354
Bme18I GGWCC 1 cut(s) 483
BmgT120I GGNCC 1 cut(s) 483
BmiI GGNNCC 2 cut(s) 10, 485
BmrFI CCNGG 3 cut(s) 90, 242, 354
BmrI ACTGGG 1 cut(s) 625
BmsI GCATC 2 cut(s) 595, 712
BmtI GCTAGC 1 cut(s) 371
BmuI ACTGGG 1 cut(s) 625
BpiI GAAGAC 2 cut(s) 22, 86
BpmI CTGGAG 1 cut(s) 452
Bpu10I CCTNAGC 2 cut(s) 516, 722
BsaJI CCNNGG 1 cut(s) 479
Bsc4I CCNNNNNNNGG 2 cut(s) 233, 422
Bse1I ACTGG 3 cut(s) 107, 368, 620
Bse3DI GCAATG 1 cut(s) 933
BseBI CCWGG 3 cut(s) 90, 242, 354
BseDI CCNNGG 1 cut(s) 479
BseGI GGATG 2 cut(s) 555, 703
BseLI CCNNNNNNNGG 2 cut(s) 233, 422
BseMI GCAATG 1 cut(s) 933
BseMII CTCAG 6 cut(s) 40, 139, 213, 530, 654, 713
BseNI ACTGG 3 cut(s) 107, 368, 620
BseRI GAGGAG 2 cut(s) 438, 893
BseXI GCAGC 3 cut(s) 145, 383, 620
BshFI GGCC 1 cut(s) 727
BshNI GGYRCC 1 cut(s) 8
BsiHKAI GWGCWC 1 cut(s) 903
BslFI GGGAC 2 cut(s) 469, 855
BslI CCNNNNNNNGG 2 cut(s) 233, 422
BsmAI GTCTC 1 cut(s) 319
BsmFI GGGAC 2 cut(s) 469, 855
BsnI GGCC 1 cut(s) 727
Bsp1286I GDGCHC 2 cut(s) 228, 903
Bsp1407I TGTACA 1 cut(s) 681
Bsp143I GATC 2 cut(s) 790, 930
BspACI CCGC 1 cut(s) 161
BspANI GGCC 1 cut(s) 727
BspCNI CTCAG 6 cut(s) 39, 138, 214, 529, 653, 714
BspLI GGNNCC 2 cut(s) 10, 485
BspMI ACCTGC 1 cut(s) 929
BspOI GCTAGC 1 cut(s) 371
BspT107I GGYRCC 1 cut(s) 8
BsrDI GCAATG 1 cut(s) 933
BsrGI TGTACA 1 cut(s) 681
BsrI ACTGG 3 cut(s) 107, 368, 620
BssECI CCNNGG 1 cut(s) 479
BssMI GATC 2 cut(s) 790, 930
BssT1I CCWWGG 1 cut(s) 479
Bst2UI CCWGG 3 cut(s) 90, 242, 354
Bst4CI ACNGT 3 cut(s) 503, 686, 856
Bst6I CTCTTC 4 cut(s) 181, 264, 501, 911
BstAUI TGTACA 1 cut(s) 681
BstC8I GCNNGC 3 cut(s) 148, 369, 669
BstDEI CTNAG 6 cut(s) 26, 125, 222, 516, 640, 722
BstEII GGTNACC 1 cut(s) 236
BstENI CCTNNNNNAGG 1 cut(s) 420
BstF5I GGATG 2 cut(s) 555, 703
BstKTI GATC 2 cut(s) 793, 933
BstMAI GTCTC 1 cut(s) 319
BstMBI GATC 2 cut(s) 790, 930
BstNI CCWGG 3 cut(s) 90, 242, 354
BstNSI RCATGY 1 cut(s) 403
BstPI GGTNACC 1 cut(s) 236
BstSCI CCNGG 3 cut(s) 88, 240, 352
BstSFI CTRYAG 1 cut(s) 852
BstV1I GCAGC 3 cut(s) 145, 383, 620
BstV2I GAAGAC 2 cut(s) 22, 86
BstX2I RGATCY 1 cut(s) 790
BstYI RGATCY 1 cut(s) 790
BsuRI GGCC 1 cut(s) 727
BtsCI GGATG 2 cut(s) 555, 703
BtsIMutI CAGTG 3 cut(s) 100, 499, 925
BveI ACCTGC 1 cut(s) 929
Cac8I GCNNGC 3 cut(s) 148, 369, 669
CaiI CAGNNNCTG 1 cut(s) 139
Cfr13I GGNCC 1 cut(s) 483
CsiI ACCWGGT 1 cut(s) 88
Csp6I GTAC 1 cut(s) 682
CviAII CATG 4 cut(s) 400, 659, 695, 740
CviQI GTAC 1 cut(s) 682
DdeI CTNAG 6 cut(s) 26, 125, 222, 516, 640, 722
DpnI GATC 2 cut(s) 792, 932
DpnII GATC 2 cut(s) 790, 930
Eam1104I CTCTTC 4 cut(s) 181, 264, 501, 911
EarI CTCTTC 4 cut(s) 181, 264, 501, 911
Ecl136II GAGCTC 1 cut(s) 901
Eco130I CCWWGG 1 cut(s) 479
Eco24I GRGCYC 2 cut(s) 228, 903
Eco47I GGWCC 1 cut(s) 483
Eco53kI GAGCTC 1 cut(s) 901
Eco57I CTGAAG 2 cut(s) 80, 879
Eco91I GGTNACC 1 cut(s) 236
EcoICRI GAGCTC 1 cut(s) 901
EcoNI CCTNNNNNAGG 1 cut(s) 420
EcoO65I GGTNACC 1 cut(s) 236
EcoRI GAATTC 2 cut(s) 489, 783
EcoRII CCWGG 3 cut(s) 88, 240, 352
EcoT14I CCWWGG 1 cut(s) 479
EcoT22I ATGCAT 1 cut(s) 705
EcoT38I GRGCYC 2 cut(s) 228, 903
ErhI CCWWGG 1 cut(s) 479
FaeI CATG 4 cut(s) 403, 662, 698, 743
FaqI GGGAC 2 cut(s) 469, 855
FatI CATG 4 cut(s) 399, 658, 694, 739
FblI GTMKAC 1 cut(s) 890
Fnu4HI GCNGC 4 cut(s) 159, 162, 372, 609
FokI GGATG 2 cut(s) 562, 690
FriOI GRGCYC 2 cut(s) 228, 903
Fsp4HI GCNGC 4 cut(s) 159, 162, 372, 609
FspBI CTAG 2 cut(s) 5, 368
GluI GCNGC 4 cut(s) 159, 162, 372, 609
GsuI CTGGAG 1 cut(s) 452
HaeIII GGCC 1 cut(s) 727
Hin1II CATG 4 cut(s) 403, 662, 698, 743
HincII GTYRAC 1 cut(s) 538
HindII GTYRAC 1 cut(s) 538
HinfI GANTC 5 cut(s) 123, 178, 189, 655, 716
HphI GGTGA 2 cut(s) 78, 369
Hpy166II GTNNAC 2 cut(s) 538, 891
Hpy188I TCNGA 5 cut(s) 64, 128, 643, 881, 898
Hpy188III TCNNGA 6 cut(s) 109, 175, 323, 486, 780, 788
Hpy8I GTNNAC 2 cut(s) 538, 891
Hpy99I CGWCG 1 cut(s) 423
HpyAV CCTTC 1 cut(s) 806
HpyCH4III ACNGT 3 cut(s) 503, 686, 856
HpyCH4V TGCA 5 cut(s) 146, 608, 703, 837, 938
HpyF3I CTNAG 6 cut(s) 26, 125, 222, 516, 640, 722
Hsp92II CATG 4 cut(s) 403, 662, 698, 743
Kzo9I GATC 2 cut(s) 790, 930
LmnI GCTCC 2 cut(s) 215, 906
Lsp1109I GCAGC 3 cut(s) 145, 383, 620
LweI GCATC 2 cut(s) 595, 712
MabI ACCWGGT 1 cut(s) 88
MaeI CTAG 2 cut(s) 5, 368
MaeIII GTNAC 2 cut(s) 236, 842
MalI GATC 2 cut(s) 792, 932
MboI GATC 2 cut(s) 790, 930
MboII GAAGA 6 cut(s) 27, 86, 198, 281, 488, 898
MfeI CAATTG 1 cut(s) 838
MflI RGATCY 1 cut(s) 790
MhlI GDGCHC 2 cut(s) 228, 903
MlyI GAGTC 2 cut(s) 117, 198
MmeI TCCRAC 1 cut(s) 233
Mph1103I ATGCAT 1 cut(s) 705
MseI TTAA 4 cut(s) 81, 264, 438, 524
MspR9I CCNGG 3 cut(s) 90, 242, 354
MunI CAATTG 1 cut(s) 838
MvaI CCWGG 3 cut(s) 90, 242, 354
NdeII GATC 2 cut(s) 790, 930
NheI GCTAGC 1 cut(s) 367
NlaIII CATG 4 cut(s) 403, 662, 698, 743
NlaIV GGNNCC 2 cut(s) 10, 485
NsiI ATGCAT 1 cut(s) 705
NspI RCATGY 1 cut(s) 403
PfeI GAWTC 3 cut(s) 178, 655, 716
PfoI TCCNGGA 1 cut(s) 352
PkrI GCNGC 4 cut(s) 160, 163, 373, 610
PleI GAGTC 2 cut(s) 117, 197
PpsI GAGTC 2 cut(s) 117, 197
Psp124BI GAGCTC 1 cut(s) 903
Psp6I CCWGG 3 cut(s) 88, 240, 352
PspEI GGTNACC 1 cut(s) 236
PspGI CCWGG 3 cut(s) 88, 240, 352
PspN4I GGNNCC 2 cut(s) 10, 485
PspPI GGNCC 1 cut(s) 483
PstNI CAGNNNCTG 1 cut(s) 139
PsuI RGATCY 1 cut(s) 790
RsaI GTAC 1 cut(s) 683
RsaNI GTAC 1 cut(s) 682
SacI GAGCTC 1 cut(s) 903
SaqAI TTAA 4 cut(s) 81, 264, 438, 524
SatI GCNGC 4 cut(s) 159, 162, 372, 609
Sau3AI GATC 2 cut(s) 790, 930
Sau96I GGNCC 1 cut(s) 483
SchI GAGTC 2 cut(s) 117, 198
ScrFI CCNGG 3 cut(s) 90, 242, 354
SduI GDGCHC 2 cut(s) 228, 903
SexAI ACCWGGT 1 cut(s) 88
SfaNI GCATC 2 cut(s) 595, 712
SfcI CTRYAG 1 cut(s) 852
SinI GGWCC 1 cut(s) 483
SsiI CCGC 1 cut(s) 161
SspI AATATT 1 cut(s) 262
SspMI CTAG 2 cut(s) 5, 368
SstI GAGCTC 1 cut(s) 903
StyD4I CCNGG 3 cut(s) 88, 240, 352
StyI CCWWGG 1 cut(s) 479
TaaI ACNGT 3 cut(s) 503, 686, 856
TaqI TCGA 2 cut(s) 418, 787
TatI WGTACW 1 cut(s) 681
TauI GCSGC 1 cut(s) 164
TfiI GAWTC 3 cut(s) 178, 655, 716
Tru1I TTAA 4 cut(s) 81, 264, 438, 524
Tru9I TTAA 4 cut(s) 81, 264, 438, 524
TscAI CASTG 3 cut(s) 107, 506, 925
TseI GCWGC 3 cut(s) 158, 371, 608
TspDTI ATGAA 2 cut(s) 756, 780
TspGWI ACGGA 1 cut(s) 591
TspRI CASTG 3 cut(s) 107, 506, 925
VpaK11BI GGWCC 1 cut(s) 483
XagI CCTNNNNNAGG 1 cut(s) 420
XapI RAATTY 6 cut(s) 21, 307, 326, 489, 783, 812
XceI RCATGY 1 cut(s) 403
XcmI CCANNNNNNNNNTGG 1 cut(s) 360
XmiI GTMKAC 1 cut(s) 890
XspI CTAG 2 cut(s) 5, 368
Zsp2I ATGCAT 1 cut(s) 705
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.