RLG00000006904

YqaJ-like viral recombinase domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr2
OG0014008
Physical Location & Seq
Forward (+)
11742183 .. 11743763
1581 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000006904

Sequence Viewer

Length: 1131 bp
ATGAAGCTCGCGCAAGTCTCTTCGTCTCAGTCAAGAGCTTCTCTTTGCTCTCTACATGGAGTGCCCAAATTGCCCTCTTCCTCCTTCGCAGCTGGCAACGGCAAAGTCGTTGCCTTTAATTCAAGACCATTCTCAGTGTGTGGCTTTTGTAGAACAGGTCATCGGAACAAAGTAGCTGCCGGTGGCATTGGCGTATCAGCAATGAGCAATGCCTACTGCACTGGATTCTGCAGCTTTCATCATAAAGCAGTGGAAATGCTGTCTTCGAGAAAGATGTGTGGAAAAATATTTTTTAGGGCCTTTTCGAAGTGCGCCTCACCGATGATCTCTACGAATTTTGCTCTGGTGATGCGTTCCCCATCATCAATTGCGTTGGCTACCCGGGGTGCACTATCTGATGCTCCCCAGCGTTCAGAGGAGTGGTTTGCCTTGCGGCGAAACAAACTGACTACAAGCACCTTCAGCACTGCCTTGGGATTTTGGAAAGGAAACCGTCGACCTGAGCTCTGGCATGAGAAGGTATTTGATTCACAGAAAGAATTCGCGCAAGCTTCTAAAAATGCCATGCAATGGGGTGTGCTCAATGAAGAGGTGGCCATAGAGCGGTATAAAAGCATCACAGGTCGTGAAGTGGGTACATATGGATTTGCATCCCACGGAGAGGAGCGGTTTGATTGGCTTGGTGCCTCCCCTGATGGTCTGCTTGATTGCTTTCAAGGTGGTGGTATCCTGGAAGTGAAGTGTCCTTTTAACAAGGGAAAACCGGAGCAGGGTCTGCCCTGGTCAACGATGCCTTTCTATTACATGCCTCAGGTGCAGGGTCAAATGGAGATAATGGATAGAGAGTGGGTTGATTTATATTGCTGGACACCAAATGGAAGCACAATATTCCGCGTGTGCCGTGACCGTAGTTACTGGGACTTGATGCATGGAATTTTAAGGGAATTTTGGTGGGAAAATGTGATTCCTGCTAAGGAGGCTCTTTTGCTGGGTAATGAAGAAAAGGCCAGGGAGTACATGCCAACTTCTACTCACAAAAAAACAGGCCTTGCAATCGTTAAGAGCTTGGAGTTAGCAAGAGGATCAAAGTTGCTGTGTAGGGAGATTGCTGGCCACATCGAGTTTTACTAG
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

42.12

Weight (kDa)

9.22

Isoelectric Point (pI)

53.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
YqaJ PF09588 140 - 279 3.9e-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) 683
AccB7I CCANNNNNTGG 1 cut(s) 570
AccBSI CCGCTC 2 cut(s) 604, 667
AccI GTMKAC 1 cut(s) 496
AccII CGCG 3 cut(s) 11, 545, 894
AciI CCGC 4 cut(s) 433, 604, 667, 892
AclWI GGATC 1 cut(s) 1090
AcoI YGGCCR 2 cut(s) 594, 1111
AcsI RAATTY 4 cut(s) 334, 539, 933, 944
AcuI CTGAAG 1 cut(s) 445
AfaI GTAC 2 cut(s) 637, 1016
AfiI CCNNNNNNNGG 4 cut(s) 570, 603, 661, 770
AgsI TTSAA 2 cut(s) 123, 716
AjnI CCWGG 3 cut(s) 729, 779, 1007
AluBI AGCT 8 cut(s) 7, 38, 92, 176, 234, 505, 551, 1065
AluI AGCT 8 cut(s) 7, 38, 92, 176, 234, 505, 551, 1065
Alw21I GWGCWC 3 cut(s) 391, 507, 582
Alw26I GTCTC 2 cut(s) 22, 30
Alw44I GTGCAC 1 cut(s) 387
AlwI GGATC 1 cut(s) 1090
AlwNI CAGNNNCTG 1 cut(s) 775
Ama87I CYCGRG 1 cut(s) 381
AoxI GGCC 5 cut(s) 297, 594, 1005, 1045, 1111
ApaLI GTGCAC 1 cut(s) 387
ApeKI GCWGC 3 cut(s) 89, 176, 231
ApoI RAATTY 4 cut(s) 334, 539, 933, 944
Asp700I GAANNNNTTC 1 cut(s) 539
AspLEI GCGC 3 cut(s) 13, 314, 547
AspS9I GGNCC 1 cut(s) 297
AsuC2I CCSGG 2 cut(s) 382, 383
AsuHPI GGTGA 2 cut(s) 309, 358
AsuII TTCGAA 1 cut(s) 305
AvaI CYCGRG 1 cut(s) 381
AxyI CCTNAGG 1 cut(s) 810
BaeGI GKGCMC 2 cut(s) 66, 391
BalI TGGCCA 2 cut(s) 596, 1113
BanI GGYRCC 1 cut(s) 683
BanII GRGCYC 1 cut(s) 507
BbsI GAAGAC 1 cut(s) 255
Bbv12I GWGCWC 3 cut(s) 391, 507, 582
BbvI GCAGC 3 cut(s) 101, 163, 243
BccI CCATC 2 cut(s) 367, 689
BceAI ACGGC 2 cut(s) 115, 885
BciT130I CCWGG 3 cut(s) 731, 781, 1009
BciVI GTATCC 1 cut(s) 737
BcnI CCSGG 2 cut(s) 382, 383
BcoDI GTCTC 2 cut(s) 22, 30
BfaI CTAG 1 cut(s) 1129
BfmI CTRYAG 1 cut(s) 229
BfuI GTATCC 1 cut(s) 737
BisI GCNGC 4 cut(s) 90, 177, 232, 434
BlsI GCNGC 4 cut(s) 91, 178, 233, 435
Bme1390I CCNGG 5 cut(s) 382, 383, 731, 781, 1009
BmeT110I CYCGRG 1 cut(s) 381
BmgT120I GGNCC 1 cut(s) 297
BmiI GGNNCC 1 cut(s) 685
BmrFI CCNGG 5 cut(s) 382, 383, 731, 781, 1009
BmrI ACTGGG 1 cut(s) 925
BmsI GCATC 6 cut(s) 339, 388, 624, 659, 780, 915
BmuI ACTGGG 1 cut(s) 925
BpiI GAAGAC 1 cut(s) 255
Bpu10I CCTNAGC 2 cut(s) 501, 972
Bpu14I TTCGAA 1 cut(s) 305
BpuMI CCSGG 2 cut(s) 382, 383
BsaBI GATNNNNATC 1 cut(s) 649
BsaJI CCNNGG 6 cut(s) 381, 382, 471, 655, 779, 1008
BsaWI WCCGGW 1 cut(s) 763
Bsc4I CCNNNNNNNGG 4 cut(s) 570, 603, 661, 770
Bse118I RCCGGY 1 cut(s) 179
Bse1I ACTGG 2 cut(s) 226, 920
Bse21I CCTNAGG 1 cut(s) 810
Bse3DI GCAATG 3 cut(s) 207, 214, 575
Bse8I GATNNNNATC 1 cut(s) 649
BseBI CCWGG 3 cut(s) 731, 781, 1009
BseDI CCNNGG 6 cut(s) 381, 382, 471, 655, 779, 1008
BseGI GGATG 1 cut(s) 650
BseJI GATNNNNATC 1 cut(s) 649
BseLI CCNNNNNNNGG 4 cut(s) 570, 603, 661, 770
BseMI GCAATG 3 cut(s) 207, 214, 575
BseMII CTCAG 4 cut(s) 41, 147, 492, 824
BseNI ACTGG 2 cut(s) 226, 920
BseRI GAGGAG 2 cut(s) 431, 677
BseSI GKGCMC 2 cut(s) 66, 391
BseXI GCAGC 3 cut(s) 101, 163, 243
BseYI CCCAGC 2 cut(s) 405, 988
BsgI GTGCAG 2 cut(s) 202, 836
Bsh1236I CGCG 3 cut(s) 11, 545, 894
BshFI GGCC 5 cut(s) 299, 596, 1007, 1047, 1113
BshNI GGYRCC 1 cut(s) 683
BsiHKAI GWGCWC 3 cut(s) 391, 507, 582
BsiHKCI CYCGRG 1 cut(s) 381
BsiSI CCGG 3 cut(s) 180, 382, 764
BslFI GGGAC 1 cut(s) 932
BslI CCNNNNNNNGG 4 cut(s) 570, 603, 661, 770
BsmAI GTCTC 2 cut(s) 22, 30
BsmBI CGTCTC 1 cut(s) 30
BsmFI GGGAC 1 cut(s) 932
BsnI GGCC 5 cut(s) 299, 596, 1007, 1047, 1113
BsoBI CYCGRG 1 cut(s) 381
Bsp119I TTCGAA 1 cut(s) 305
Bsp1286I GDGCHC 4 cut(s) 66, 391, 507, 582
Bsp143I GATC 2 cut(s) 324, 1082
BspACI CCGC 4 cut(s) 433, 604, 667, 892
BspANI GGCC 5 cut(s) 299, 596, 1007, 1047, 1113
BspCNI CTCAG 4 cut(s) 40, 146, 493, 823
BspFNI CGCG 3 cut(s) 11, 545, 894
BspLI GGNNCC 1 cut(s) 685
BspMAI CTGCAG 1 cut(s) 233
BspPI GGATC 1 cut(s) 1090
BspT104I TTCGAA 1 cut(s) 305
BspT107I GGYRCC 1 cut(s) 683
BsrBI CCGCTC 2 cut(s) 604, 667
BsrDI GCAATG 3 cut(s) 207, 214, 575
BsrFI RCCGGY 1 cut(s) 179
BsrI ACTGG 2 cut(s) 226, 920
BssAI RCCGGY 1 cut(s) 179
BssECI CCNNGG 6 cut(s) 381, 382, 471, 655, 779, 1008
BssMI GATC 2 cut(s) 324, 1082
BssT1I CCWWGG 1 cut(s) 471
Bst2UI CCWGG 3 cut(s) 731, 781, 1009
Bst4CI ACNGT 2 cut(s) 494, 908
Bst6I CTCTTC 3 cut(s) 25, 82, 582
BstAPI GCANNNNNTGC 1 cut(s) 775
BstBI TTCGAA 1 cut(s) 305
BstC8I GCNNGC 4 cut(s) 9, 94, 549, 1111
BstDEI CTNAG 5 cut(s) 27, 133, 501, 810, 972
BstDSI CCRYGG 1 cut(s) 655
BstF5I GGATG 1 cut(s) 650
BstFNI CGCG 3 cut(s) 11, 545, 894
BstHHI GCGC 3 cut(s) 13, 314, 547
BstKTI GATC 2 cut(s) 327, 1085
BstMAI GTCTC 2 cut(s) 22, 30
BstMBI GATC 2 cut(s) 324, 1082
BstMWI GCNNNNNNNGC 5 cut(s) 70, 462, 775, 814, 977
BstNI CCWGG 3 cut(s) 731, 781, 1009
BstNSI RCATGY 2 cut(s) 808, 1021
BstSCI CCNGG 5 cut(s) 380, 381, 729, 779, 1007
BstSFI CTRYAG 1 cut(s) 229
BstSLI GKGCMC 2 cut(s) 66, 391
BstUI CGCG 3 cut(s) 11, 545, 894
BstV1I GCAGC 3 cut(s) 101, 163, 243
BstV2I GAAGAC 1 cut(s) 255
Bsu36I CCTNAGG 1 cut(s) 810
BsuI GTATCC 1 cut(s) 737
BsuRI GGCC 5 cut(s) 299, 596, 1007, 1047, 1113
BtgI CCRYGG 1 cut(s) 655
BtsCI GGATG 1 cut(s) 650
BtsI GCAGTG 2 cut(s) 255, 465
BtsIMutI CAGTG 4 cut(s) 141, 219, 255, 465
Cac8I GCNNGC 4 cut(s) 9, 94, 549, 1111
CaiI CAGNNNCTG 1 cut(s) 775
CfoI GCGC 3 cut(s) 13, 314, 547
Cfr10I RCCGGY 1 cut(s) 179
Cfr13I GGNCC 1 cut(s) 297
Cfr9I CCCGGG 1 cut(s) 381
Csp6I GTAC 2 cut(s) 636, 1015
CviAII CATG 6 cut(s) 56, 512, 565, 805, 929, 1018
CviQI GTAC 2 cut(s) 636, 1015
DdeI CTNAG 5 cut(s) 27, 133, 501, 810, 972
DpnI GATC 2 cut(s) 326, 1084
DpnII GATC 2 cut(s) 324, 1082
EaeI YGGCCR 2 cut(s) 594, 1111
Eam1104I CTCTTC 3 cut(s) 25, 82, 582
EarI CTCTTC 3 cut(s) 25, 82, 582
Ecl136II GAGCTC 1 cut(s) 505
Eco130I CCWWGG 1 cut(s) 471
Eco147I AGGCCT 1 cut(s) 1047
Eco24I GRGCYC 1 cut(s) 507
Eco53kI GAGCTC 1 cut(s) 505
Eco57I CTGAAG 1 cut(s) 445
Eco81I CCTNAGG 1 cut(s) 810
Eco88I CYCGRG 1 cut(s) 381
EcoICRI GAGCTC 1 cut(s) 505
EcoO109I RGGNCCY 1 cut(s) 297
EcoRI GAATTC 1 cut(s) 539
EcoRII CCWGG 3 cut(s) 729, 779, 1007
EcoT14I CCWWGG 1 cut(s) 471
EcoT22I ATGCAT 1 cut(s) 930
EcoT38I GRGCYC 1 cut(s) 507
ErhI CCWWGG 1 cut(s) 471
Esp3I CGTCTC 1 cut(s) 30
FaeI CATG 6 cut(s) 59, 515, 568, 808, 932, 1021
FaqI GGGAC 1 cut(s) 932
FatI CATG 6 cut(s) 55, 511, 564, 804, 928, 1017
FauNDI CATATG 1 cut(s) 640
FblI GTMKAC 1 cut(s) 496
Fnu4HI GCNGC 4 cut(s) 90, 177, 232, 434
FokI GGATG 1 cut(s) 637
FriOI GRGCYC 1 cut(s) 507
Fsp4HI GCNGC 4 cut(s) 90, 177, 232, 434
FspBI CTAG 1 cut(s) 1129
GlaI GCGC 3 cut(s) 12, 313, 546
GluI GCNGC 4 cut(s) 90, 177, 232, 434
GsaI CCCAGC 2 cut(s) 409, 992
HaeIII GGCC 5 cut(s) 299, 596, 1007, 1047, 1113
HapII CCGG 3 cut(s) 180, 382, 764
HhaI GCGC 3 cut(s) 13, 314, 547
Hin1II CATG 6 cut(s) 59, 515, 568, 808, 932, 1021
Hin6I GCGC 3 cut(s) 11, 312, 545
HinP1I GCGC 3 cut(s) 11, 312, 545
HincII GTYRAC 2 cut(s) 497, 786
HindII GTYRAC 2 cut(s) 497, 786
HindIII AAGCTT 1 cut(s) 549
HinfI GANTC 3 cut(s) 225, 527, 964
HpaII CCGG 3 cut(s) 180, 382, 764
HphI GGTGA 2 cut(s) 309, 358
Hpy166II GTNNAC 3 cut(s) 389, 497, 786
Hpy188I TCNGA 3 cut(s) 165, 397, 415
Hpy188III TCNNGA 4 cut(s) 33, 123, 267, 626
Hpy8I GTNNAC 3 cut(s) 389, 497, 786
Hpy99I CGWCG 1 cut(s) 498
HpyAV CCTTC 3 cut(s) 94, 469, 511
HpyCH4III ACNGT 2 cut(s) 494, 908
HpyCH4V TGCA 8 cut(s) 219, 231, 389, 568, 650, 817, 928, 1052
HpyF10VI GCNNNNNNNGC 5 cut(s) 70, 462, 775, 814, 977
HpyF3I CTNAG 5 cut(s) 27, 133, 501, 810, 972
Hsp92II CATG 6 cut(s) 59, 515, 568, 808, 932, 1021
HspAI GCGC 3 cut(s) 11, 312, 545
Kzo9I GATC 2 cut(s) 324, 1082
LmnI GCTCC 3 cut(s) 406, 664, 766
Lsp1109I GCAGC 3 cut(s) 101, 163, 243
LweI GCATC 6 cut(s) 339, 388, 624, 659, 780, 915
MaeI CTAG 1 cut(s) 1129
MaeIII GTNAC 2 cut(s) 902, 911
MalI GATC 2 cut(s) 326, 1084
MbiI CCGCTC 2 cut(s) 604, 667
MboI GATC 2 cut(s) 324, 1082
MboII GAAGA 5 cut(s) 12, 69, 255, 599, 1010
MfeI CAATTG 1 cut(s) 366
MhlI GDGCHC 4 cut(s) 66, 391, 507, 582
MlsI TGGCCA 2 cut(s) 596, 1113
MluCI AATT 7 cut(s) 68, 118, 334, 366, 539, 933, 944
MluNI TGGCCA 2 cut(s) 596, 1113
Mox20I TGGCCA 2 cut(s) 596, 1113
Mph1103I ATGCAT 1 cut(s) 930
MroXI GAANNNNTTC 1 cut(s) 539
MscI TGGCCA 2 cut(s) 596, 1113
MseI TTAA 4 cut(s) 117, 750, 938, 1059
Msp20I TGGCCA 2 cut(s) 596, 1113
MspA1I CMGCKG 1 cut(s) 92
MspI CCGG 3 cut(s) 180, 382, 764
MspR9I CCNGG 5 cut(s) 382, 383, 731, 781, 1009
MunI CAATTG 1 cut(s) 366
MvaI CCWGG 3 cut(s) 731, 781, 1009
MvnI CGCG 3 cut(s) 11, 545, 894
MwoI GCNNNNNNNGC 5 cut(s) 70, 462, 775, 814, 977
NciI CCSGG 2 cut(s) 382, 383
NdeI CATATG 1 cut(s) 640
NdeII GATC 2 cut(s) 324, 1082
NlaIII CATG 6 cut(s) 59, 515, 568, 808, 932, 1021
NlaIV GGNNCC 1 cut(s) 685
NmuCI GTSAC 1 cut(s) 902
NsiI ATGCAT 1 cut(s) 930
NspI RCATGY 2 cut(s) 808, 1021
NspV TTCGAA 1 cut(s) 305
PceI AGGCCT 1 cut(s) 1047
PcsI WCGNNNNNNNCGW 1 cut(s) 105
PdmI GAANNNNTTC 1 cut(s) 539
PfeI GAWTC 3 cut(s) 225, 527, 964
PflMI CCANNNNNTGG 1 cut(s) 570
PfoI TCCNGGA 1 cut(s) 729
PkrI GCNGC 4 cut(s) 91, 178, 233, 435
Psp124BI GAGCTC 1 cut(s) 507
Psp6I CCWGG 3 cut(s) 729, 779, 1007
PspFI CCCAGC 2 cut(s) 405, 988
PspGI CCWGG 3 cut(s) 729, 779, 1007
PspN4I GGNNCC 1 cut(s) 685
PspPI GGNCC 1 cut(s) 297
PstI CTGCAG 1 cut(s) 233
PstNI CAGNNNCTG 1 cut(s) 775
PvuII CAGCTG 1 cut(s) 92
RsaI GTAC 2 cut(s) 637, 1016
RsaNI GTAC 2 cut(s) 636, 1015
SacI GAGCTC 1 cut(s) 507
SalI GTCGAC 1 cut(s) 495
SaqAI TTAA 4 cut(s) 117, 750, 938, 1059
SatI GCNGC 4 cut(s) 90, 177, 232, 434
Sau3AI GATC 2 cut(s) 324, 1082
Sau96I GGNCC 1 cut(s) 297
ScrFI CCNGG 5 cut(s) 382, 383, 731, 781, 1009
SduI GDGCHC 4 cut(s) 66, 391, 507, 582
SfaNI GCATC 6 cut(s) 339, 388, 624, 659, 780, 915
SfcI CTRYAG 1 cut(s) 229
SfuI TTCGAA 1 cut(s) 305
SmaI CCCGGG 1 cut(s) 383
Sse9I AATT 7 cut(s) 68, 118, 334, 366, 539, 933, 944
SseBI AGGCCT 1 cut(s) 1047
SsiI CCGC 4 cut(s) 433, 604, 667, 892
SspI AATATT 2 cut(s) 288, 888
SspMI CTAG 1 cut(s) 1129
SstI GAGCTC 1 cut(s) 507
StuI AGGCCT 1 cut(s) 1047
StyD4I CCNGG 5 cut(s) 380, 381, 729, 779, 1007
StyI CCWWGG 1 cut(s) 471
TaaI ACNGT 2 cut(s) 494, 908
TaqI TCGA 4 cut(s) 266, 305, 496, 1119
TasI AATT 7 cut(s) 68, 118, 334, 366, 539, 933, 944
TatI WGTACW 1 cut(s) 1014
TauI GCSGC 1 cut(s) 436
TfiI GAWTC 3 cut(s) 225, 527, 964
Tru1I TTAA 4 cut(s) 117, 750, 938, 1059
Tru9I TTAA 4 cut(s) 117, 750, 938, 1059
TscAI CASTG 4 cut(s) 141, 226, 255, 472
TseFI GTSAC 1 cut(s) 902
TseI GCWGC 3 cut(s) 89, 176, 231
Tsp45I GTSAC 1 cut(s) 902
TspDTI ATGAA 4 cut(s) 17, 227, 600, 1011
TspGWI ACGGA 1 cut(s) 672
TspMI CCCGGG 1 cut(s) 381
TspRI CASTG 4 cut(s) 141, 226, 255, 472
Van91I CCANNNNNTGG 1 cut(s) 570
VneI GTGCAC 1 cut(s) 387
XapI RAATTY 4 cut(s) 334, 539, 933, 944
XceI RCATGY 2 cut(s) 808, 1021
XmaI CCCGGG 1 cut(s) 381
XmiI GTMKAC 1 cut(s) 496
XmnI GAANNNNTTC 1 cut(s) 539
XspI CTAG 1 cut(s) 1129
Zsp2I ATGCAT 1 cut(s) 930
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.