Rh4AG275000

Region found in RelA / SpoT proteins

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4A
OG0012431
Physical Location & Seq
Forward (+)
59107693 .. 59111058
3366 bp
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UTR
Exon/CDS
Intron
Rh4AG275000.1

Sequence Viewer

Length: 1323 bp
ATGGAGCTCTACTCTGCTCACCACCACTATCTCCTTCGTCATCAGGACCCAATACCCAGATTACTCCTCCGCACTGTACGGGTATTCCACAGCACTCTGTCTCCACATAGATGTCACCGGCGGATTCGACGGCGACGGTGTCTCTCAACAACGACGGCGGCCCTGATGGAACAGACGGGTGGGAAAATGGTGGTGGAGCTGGTTGGAGCTTTCAACGAGCTCACAGAAAGGATGGGTATGCTCTCCAGCAGCGGGTCCCACTTACTCTTCAAAGCTCTCAAGCTCTCGATTCCCTTACTCCACGCCTTGCCTATAACCCCGGACGGTCGTTCTTCACTCTCCAAGGCCTTGTCTTTTGCCTTAATTCTCGCAGACCTTCAGATGGATGCGGAGGTGATTTCAGCTGGGATGCTCAGACCAGTTCTGGAGGCCGGAGCGATTTCGATACTCGAGGTTCGAAACCAGATTGGTACCGGCACTGCTCATTTGTTACACGAGAGCTTGCGTGTGATGAAAATCCCAACTAAAGTTGATGTCTTGGATGATGATAGTGCTGCTGCATTGAGAAAATTCTGCTTGACATATTATGATATGAGGGCTGTGATTTTGGACTTGGTTCTCAGGCTTGATAGAATGAGGCACCTCGATTATCTTCCGAGGTATCAGCAGCAGTTGGTAGCTCTGGAGGTGATGAAGATTCATGCACCTTTAGCTCATGCTGTTGGGGCTAATTGGTTGTCATTGGAGCTTGAGGATTTGTCATTTCAGTACTTGTTTCCGAATTCGTATTTGTATGTGGATACATGGTTGAGGAGTCATGAGACTGGAAGTAGGCCTTTGGTGGATGTGTACAAGGAGCAGCTTTTACATTCGTTGAAAGAGGATCCCTTGTTGGCGGGGCTGGTTGTGGATGTGTCAGTGAATGGGAGATATAAGAGTCGGTATAGCACCATGAAGAAGCTGTTGAAGGATGGTAGGAAGCCGGAACAGGTAAATGACGTGCTGGGGTTGCGAGTCATATTGGAGCCGAGGTCTGGAGAAGATGAGGCAGAAATGGGGGAAAGAGCATGTTATAGGACTCGTGAAGTTGTTCAGTCATTGTGGAAAGAGATGCCTCACAGGACAAAGGATTACATTGCTAGGCCTAAGGCGAATGGGTATAGGAGTTTGCATATGGCAGTTGATGTGAGTGACGGTGGCAAGAGTAGACCTTTAATGGAAATACAAATAAGGACTCAGGAGATGGATATGTTGGCAGATGCTGGGACAGCATCCCACTCTTTGTACAAGAGTGGTCTTACAGACCCTGAAGAGGTTTGTTGA

Protein Analysis

440

Amino Acids

49.87

Weight (kDa)

8.64

Isoelectric Point (pI)

38.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HD_4 PF13328 103 - 242 1.3e-23 HD domain
RelA_SpoT PF04607 309 - 432 3.2e-31 Region found in RelA / SpoT proteins
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: OG0012431)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G17470 AT3G17470 AT3G17470
fragaria_vesca FvH4_4g21520 FvH4_4g21520 FvH4_4g21520
malus_domestica MD13G1139600.v1.1
prunus_persica Prupe.1G105100_v2.0.a1
pyrus_communis pycom13g12150
rosa_chinensis RchiOBHm_Chr4g0427541
rosa_laevigata RLG00000007228
rosa_multiflora Rmu_sc0009627.1_g000004
rosa_roxburghii Rroxscaffold_5G00369190
rosa_rugosa Rorug04G0218400
rosa_samantha Rh4AG275000 Rh4BG280800 Rh4CG296100 Rh4DG278200
rosa_wichuraiana Rw4G023840

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 470
AccB1I GGYRCC 2 cut(s) 470, 639
AccI GTMKAC 1 cut(s) 1207
AciI CCGC 6 cut(s) 70, 121, 158, 252, 389, 896
AclWI GGATC 2 cut(s) 878, 891
AcsI RAATTY 2 cut(s) 569, 781
AcuI CTGAAG 1 cut(s) 362
AfaI GTAC 5 cut(s) 78, 472, 770, 851, 1286
AfiI CCNNNNNNNGG 4 cut(s) 252, 382, 1034, 1312
AgsI TTSAA 4 cut(s) 214, 271, 877, 967
AjiI CACGTC 1 cut(s) 1000
Alw21I GWGCWC 2 cut(s) 9, 222
Alw26I GTCTC 3 cut(s) 105, 146, 815
AlwI GGATC 2 cut(s) 878, 891
AlwNI CAGNNNCTG 2 cut(s) 1262, 1307
Ama87I CYCGRG 1 cut(s) 449
AoxI GGCC 5 cut(s) 159, 345, 429, 833, 1142
ApeKI GCWGC 5 cut(s) 249, 554, 557, 667, 859
ApoI RAATTY 2 cut(s) 569, 781
Asp700I GAANNNNTTC 1 cut(s) 1089
Asp718I GGTACC 1 cut(s) 470
AspS9I GGNCC 3 cut(s) 46, 160, 255
AsuC2I CCSGG 1 cut(s) 320
AsuHPI GGTGA 4 cut(s) 11, 107, 406, 700
AsuII TTCGAA 1 cut(s) 457
AvaI CYCGRG 1 cut(s) 449
AvaII GGWCC 2 cut(s) 46, 255
AxyI CCTNAGG 1 cut(s) 1146
BamHI GGATCC 1 cut(s) 883
BanI GGYRCC 2 cut(s) 470, 639
BanII GRGCYC 2 cut(s) 9, 222
BauI CACGAG 2 cut(s) 494, 1080
Bbv12I GWGCWC 2 cut(s) 9, 222
BbvI GCAGC 5 cut(s) 261, 541, 544, 679, 871
BccI CCATC 5 cut(s) 160, 226, 376, 965, 1237
BceAI ACGGC 2 cut(s) 146, 171
BciVI GTATCC 1 cut(s) 793
BcnI CCSGG 1 cut(s) 320
BcoDI GTCTC 3 cut(s) 105, 146, 815
BfaI CTAG 1 cut(s) 1140
BfuI GTATCC 1 cut(s) 793
BisI GCNGC 6 cut(s) 159, 250, 555, 558, 668, 860
BlsI GCNGC 6 cut(s) 160, 251, 556, 559, 669, 861
BmcAI AGTACT 1 cut(s) 770
Bme1390I CCNGG 1 cut(s) 320
Bme18I GGWCC 2 cut(s) 46, 255
BmeT110I CYCGRG 1 cut(s) 449
BmgBI CACGTC 1 cut(s) 1000
BmgT120I GGNCC 3 cut(s) 46, 160, 255
BmiI GGNNCC 7 cut(s) 48, 256, 257, 472, 641, 885, 1026
BmrFI CCNGG 1 cut(s) 320
BmsI GCATC 5 cut(s) 376, 399, 1101, 1249, 1280
BplI GAGNNNNNCTC 1 cut(s) 28
BpmI CTGGAG 4 cut(s) 229, 446, 704, 1056
Bpu14I TTCGAA 1 cut(s) 457
BpuEI CTTGAG 2 cut(s) 263, 770
BpuMI CCSGG 1 cut(s) 320
BsaBI GATNNNNATC 1 cut(s) 515
BsaJI CCNNGG 4 cut(s) 318, 342, 656, 1028
BsaXI ACNNNNNCTCC 4 cut(s) 85, 115, 1016, 1046
Bsc4I CCNNNNNNNGG 4 cut(s) 252, 382, 1034, 1312
Bse118I RCCGGY 2 cut(s) 117, 473
Bse1I ACTGG 2 cut(s) 419, 829
Bse21I CCTNAGG 1 cut(s) 1146
Bse3DI GCAATG 1 cut(s) 1134
Bse8I GATNNNNATC 1 cut(s) 515
BseDI CCNNGG 4 cut(s) 318, 342, 656, 1028
BseGI GGATG 8 cut(s) 237, 391, 414, 547, 850, 916, 976, 1271
BseJI GATNNNNATC 1 cut(s) 515
BseLI CCNNNNNNNGG 4 cut(s) 252, 382, 1034, 1312
BseMI GCAATG 1 cut(s) 1134
BseMII CTCAG 3 cut(s) 427, 634, 1250
BseNI ACTGG 2 cut(s) 419, 829
BseRI GAGGAG 2 cut(s) 56, 826
BseXI GCAGC 5 cut(s) 261, 541, 544, 679, 871
BseYI CCCAGC 3 cut(s) 404, 1003, 1262
Bsh1285I CGRYCG 1 cut(s) 328
BshFI GGCC 5 cut(s) 161, 347, 431, 835, 1144
BshNI GGYRCC 2 cut(s) 470, 639
BsiEI CGRYCG 1 cut(s) 328
BsiHKAI GWGCWC 2 cut(s) 9, 222
BsiHKCI CYCGRG 1 cut(s) 449
BsiSI CCGG 5 cut(s) 118, 320, 432, 474, 983
BslFI GGGAC 2 cut(s) 241, 1279
BslI CCNNNNNNNGG 4 cut(s) 252, 382, 1034, 1312
BsmAI GTCTC 3 cut(s) 105, 146, 815
BsmFI GGGAC 2 cut(s) 241, 1279
BsnI GGCC 5 cut(s) 161, 347, 431, 835, 1144
BsoBI CYCGRG 1 cut(s) 449
Bsp119I TTCGAA 1 cut(s) 457
Bsp1286I GDGCHC 2 cut(s) 9, 222
Bsp1407I TGTACA 2 cut(s) 849, 1284
Bsp143I GATC 1 cut(s) 883
BspACI CCGC 6 cut(s) 70, 121, 158, 252, 389, 896
BspANI GGCC 5 cut(s) 161, 347, 431, 835, 1144
BspCNI CTCAG 3 cut(s) 426, 633, 1249
BspHI TCATGA 1 cut(s) 817
BspLI GGNNCC 7 cut(s) 48, 256, 257, 472, 641, 885, 1026
BspPI GGATC 2 cut(s) 878, 891
BspT104I TTCGAA 1 cut(s) 457
BspT107I GGYRCC 2 cut(s) 470, 639
BsrDI GCAATG 1 cut(s) 1134
BsrFI RCCGGY 2 cut(s) 117, 473
BsrGI TGTACA 2 cut(s) 849, 1284
BsrI ACTGG 2 cut(s) 419, 829
BssAI RCCGGY 2 cut(s) 117, 473
BssECI CCNNGG 4 cut(s) 318, 342, 656, 1028
BssMI GATC 1 cut(s) 883
BssSI CACGAG 2 cut(s) 494, 1080
BssT1I CCWWGG 1 cut(s) 342
Bst2BI CACGAG 2 cut(s) 494, 1080
Bst4CI ACNGT 4 cut(s) 76, 138, 326, 1196
Bst6I CTCTTC 2 cut(s) 272, 1305
BstAUI TGTACA 2 cut(s) 849, 1284
BstBI TTCGAA 1 cut(s) 457
BstC8I GCNNGC 1 cut(s) 503
BstDEI CTNAG 4 cut(s) 413, 620, 1146, 1236
BstF5I GGATG 8 cut(s) 237, 391, 414, 547, 850, 916, 976, 1271
BstKTI GATC 1 cut(s) 886
BstMAI GTCTC 3 cut(s) 105, 146, 815
BstMBI GATC 1 cut(s) 883
BstMCI CGRYCG 1 cut(s) 328
BstMWI GCNNNNNNNGC 4 cut(s) 710, 725, 1009, 1268
BstNSI RCATGY 1 cut(s) 1071
BstSCI CCNGG 1 cut(s) 318
BstV1I GCAGC 5 cut(s) 261, 541, 544, 679, 871
BstX2I RGATCY 1 cut(s) 883
BstYI RGATCY 1 cut(s) 883
Bsu36I CCTNAGG 1 cut(s) 1146
BsuI GTATCC 1 cut(s) 793
BsuRI GGCC 5 cut(s) 161, 347, 431, 835, 1144
BtrI CACGTC 1 cut(s) 1000
BtsCI GGATG 8 cut(s) 237, 391, 414, 547, 850, 916, 976, 1271
BtsI GCAGTG 1 cut(s) 477
BtsIMutI CAGTG 3 cut(s) 72, 477, 924
Cac8I GCNNGC 1 cut(s) 503
CaiI CAGNNNCTG 2 cut(s) 1262, 1307
CciI TCATGA 1 cut(s) 817
Cfr10I RCCGGY 2 cut(s) 117, 473
Cfr13I GGNCC 3 cut(s) 46, 160, 255
Csp6I GTAC 5 cut(s) 77, 471, 769, 850, 1285
CviAII CATG 6 cut(s) 701, 716, 804, 818, 952, 1068
CviQI GTAC 5 cut(s) 77, 471, 769, 850, 1285
DdeI CTNAG 4 cut(s) 413, 620, 1146, 1236
DpnI GATC 1 cut(s) 885
DpnII GATC 1 cut(s) 883
Eam1104I CTCTTC 2 cut(s) 272, 1305
EarI CTCTTC 2 cut(s) 272, 1305
EciI GGCGGA 1 cut(s) 136
Ecl136II GAGCTC 2 cut(s) 7, 220
Eco130I CCWWGG 1 cut(s) 342
Eco147I AGGCCT 3 cut(s) 347, 835, 1144
Eco24I GRGCYC 2 cut(s) 9, 222
Eco47I GGWCC 2 cut(s) 46, 255
Eco53kI GAGCTC 2 cut(s) 7, 220
Eco57I CTGAAG 1 cut(s) 362
Eco81I CCTNAGG 1 cut(s) 1146
Eco88I CYCGRG 1 cut(s) 449
EcoICRI GAGCTC 2 cut(s) 7, 220
EcoO109I RGGNCCY 2 cut(s) 46, 255
EcoRI GAATTC 1 cut(s) 781
EcoT14I CCWWGG 1 cut(s) 342
EcoT38I GRGCYC 2 cut(s) 9, 222
ErhI CCWWGG 1 cut(s) 342
FaeI CATG 6 cut(s) 704, 719, 807, 821, 955, 1071
FalI AAGNNNNNCTT 2 cut(s) 820, 852
FaqI GGGAC 2 cut(s) 241, 1279
FatI CATG 6 cut(s) 700, 715, 803, 817, 951, 1067
FauI CCCGC 2 cut(s) 245, 889
FauNDI CATATG 1 cut(s) 1173
FblI GTMKAC 1 cut(s) 1207
Fnu4HI GCNGC 6 cut(s) 159, 250, 555, 558, 668, 860
FokI GGATG 8 cut(s) 244, 398, 421, 554, 857, 923, 983, 1258
FriOI GRGCYC 2 cut(s) 9, 222
Fsp4HI GCNGC 6 cut(s) 159, 250, 555, 558, 668, 860
FspBI CTAG 1 cut(s) 1140
GluI GCNGC 6 cut(s) 159, 250, 555, 558, 668, 860
GsaI CCCAGC 3 cut(s) 408, 1007, 1266
GsuI CTGGAG 4 cut(s) 229, 446, 704, 1056
HaeIII GGCC 5 cut(s) 161, 347, 431, 835, 1144
HapII CCGG 5 cut(s) 118, 320, 432, 474, 983
Hin1II CATG 6 cut(s) 704, 719, 807, 821, 955, 1071
HinfI GANTC 8 cut(s) 124, 289, 697, 814, 937, 1014, 1078, 1234
HpaII CCGG 5 cut(s) 118, 320, 432, 474, 983
HphI GGTGA 4 cut(s) 11, 107, 406, 700
Hpy166II GTNNAC 2 cut(s) 850, 1208
Hpy188I TCNGA 4 cut(s) 381, 416, 657, 780
Hpy188III TCNNGA 8 cut(s) 44, 286, 425, 683, 818, 1035, 1082, 1238
Hpy8I GTNNAC 2 cut(s) 850, 1208
Hpy99I CGWCG 3 cut(s) 132, 138, 157
HpyAV CCTTC 3 cut(s) 44, 386, 961
HpyCH4III ACNGT 4 cut(s) 76, 138, 326, 1196
HpyCH4IV ACGT 1 cut(s) 999
HpyCH4V TGCA 3 cut(s) 560, 704, 1171
HpyF10VI GCNNNNNNNGC 4 cut(s) 710, 725, 1009, 1268
HpyF3I CTNAG 4 cut(s) 413, 620, 1146, 1236
HpySE526I ACGT 1 cut(s) 999
Hsp92II CATG 6 cut(s) 704, 719, 807, 821, 955, 1071
KflI GGGWCCC 1 cut(s) 255
KpnI GGTACC 1 cut(s) 474
Kzo9I GATC 1 cut(s) 883
LmnI GCTCC 7 cut(s) 4, 196, 206, 434, 745, 856, 1024
Lsp1109I GCAGC 5 cut(s) 261, 541, 544, 679, 871
LweI GCATC 5 cut(s) 376, 399, 1101, 1249, 1280
MaeI CTAG 1 cut(s) 1140
MaeII ACGT 1 cut(s) 999
MaeIII GTNAC 3 cut(s) 113, 489, 1190
MalI GATC 1 cut(s) 885
MboI GATC 1 cut(s) 883
MboII GAAGA 7 cut(s) 259, 324, 644, 706, 967, 1052, 1322
MflI RGATCY 1 cut(s) 883
MhlI GDGCHC 2 cut(s) 9, 222
MluCI AATT 4 cut(s) 363, 569, 730, 781
MlyI GAGTC 5 cut(s) 823, 946, 1023, 1072, 1228
MmeI TCCRAC 1 cut(s) 184
MroXI GAANNNNTTC 1 cut(s) 1089
MseI TTAA 2 cut(s) 362, 1214
MslI CAYNNNNRTG 1 cut(s) 109
MspA1I CMGCKG 2 cut(s) 252, 404
MspI CCGG 5 cut(s) 118, 320, 432, 474, 983
MspR9I CCNGG 1 cut(s) 320
MwoI GCNNNNNNNGC 4 cut(s) 710, 725, 1009, 1268
NciI CCSGG 1 cut(s) 320
NdeI CATATG 1 cut(s) 1173
NdeII GATC 1 cut(s) 883
NlaIII CATG 6 cut(s) 704, 719, 807, 821, 955, 1071
NlaIV GGNNCC 7 cut(s) 48, 256, 257, 472, 641, 885, 1026
NmeAIII GCCGAG 1 cut(s) 1053
NmuCI GTSAC 2 cut(s) 113, 1190
NspI RCATGY 1 cut(s) 1071
NspV TTCGAA 1 cut(s) 457
PaeR7I CTCGAG 1 cut(s) 449
PagI TCATGA 1 cut(s) 817
PceI AGGCCT 3 cut(s) 347, 835, 1144
PdmI GAANNNNTTC 1 cut(s) 1089
PfeI GAWTC 3 cut(s) 124, 289, 697
PflFI GACNNNGTC 1 cut(s) 138
PkrI GCNGC 6 cut(s) 160, 251, 556, 559, 669, 861
PleI GAGTC 5 cut(s) 822, 945, 1022, 1072, 1228
PpsI GAGTC 5 cut(s) 822, 945, 1022, 1072, 1228
PpuMI RGGWCCY 2 cut(s) 46, 255
Psp124BI GAGCTC 2 cut(s) 9, 222
Psp5II RGGWCCY 2 cut(s) 46, 255
PspFI CCCAGC 3 cut(s) 404, 1003, 1262
PspN4I GGNNCC 7 cut(s) 48, 256, 257, 472, 641, 885, 1026
PspPI GGNCC 3 cut(s) 46, 160, 255
PspPPI RGGWCCY 2 cut(s) 46, 255
PspXI VCTCGAGB 1 cut(s) 449
PstNI CAGNNNCTG 2 cut(s) 1262, 1307
PsuI RGATCY 1 cut(s) 883
PsyI GACNNNGTC 1 cut(s) 138
PvuII CAGCTG 1 cut(s) 404
RsaI GTAC 5 cut(s) 78, 472, 770, 851, 1286
RsaNI GTAC 5 cut(s) 77, 471, 769, 850, 1285
RseI CAYNNNNRTG 1 cut(s) 109
SacI GAGCTC 2 cut(s) 9, 222
SaqAI TTAA 2 cut(s) 362, 1214
SatI GCNGC 6 cut(s) 159, 250, 555, 558, 668, 860
Sau3AI GATC 1 cut(s) 883
Sau96I GGNCC 3 cut(s) 46, 160, 255
ScaI AGTACT 1 cut(s) 770
SchI GAGTC 5 cut(s) 823, 946, 1023, 1072, 1228
ScrFI CCNGG 1 cut(s) 320
SduI GDGCHC 2 cut(s) 9, 222
SfaNI GCATC 5 cut(s) 376, 399, 1101, 1249, 1280
Sfr274I CTCGAG 1 cut(s) 449
SfuI TTCGAA 1 cut(s) 457
SgrAI CRCCGGYG 1 cut(s) 117
SinI GGWCC 2 cut(s) 46, 255
SlaI CTCGAG 1 cut(s) 449
SmiMI CAYNNNNRTG 1 cut(s) 109
SmlI CTYRAG 3 cut(s) 278, 449, 749
SmoI CTYRAG 3 cut(s) 278, 449, 749
Sse9I AATT 4 cut(s) 363, 569, 730, 781
SseBI AGGCCT 3 cut(s) 347, 835, 1144
SsiI CCGC 6 cut(s) 70, 121, 158, 252, 389, 896
SspMI CTAG 1 cut(s) 1140
SstI GAGCTC 2 cut(s) 9, 222
StuI AGGCCT 3 cut(s) 347, 835, 1144
StyD4I CCNGG 1 cut(s) 318
StyI CCWWGG 1 cut(s) 342
TaaI ACNGT 4 cut(s) 76, 138, 326, 1196
TaiI ACGT 1 cut(s) 1002
TaqI TCGA 6 cut(s) 127, 287, 443, 450, 457, 645
TasI AATT 4 cut(s) 363, 569, 730, 781
TatI WGTACW 3 cut(s) 768, 849, 1284
TauI GCSGC 1 cut(s) 161
TfiI GAWTC 3 cut(s) 124, 289, 697
Tru1I TTAA 2 cut(s) 362, 1214
Tru9I TTAA 2 cut(s) 362, 1214
TscAI CASTG 3 cut(s) 79, 484, 924
TseFI GTSAC 2 cut(s) 113, 1190
TseI GCWGC 5 cut(s) 249, 554, 557, 667, 859
Tsp45I GTSAC 2 cut(s) 113, 1190
TspDTI ATGAA 4 cut(s) 527, 689, 707, 968
TspRI CASTG 3 cut(s) 79, 484, 924
Tth111I GACNNNGTC 1 cut(s) 138
VpaK11BI GGWCC 2 cut(s) 46, 255
XapI RAATTY 2 cut(s) 569, 781
XceI RCATGY 1 cut(s) 1071
XhoI CTCGAG 1 cut(s) 449
XmiI GTMKAC 1 cut(s) 1207
XmnI GAANNNNTTC 1 cut(s) 1089
XspI CTAG 1 cut(s) 1140
ZrmI AGTACT 1 cut(s) 770
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.