Rh6AG102800

Upstream activation factor subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0030999
Physical Location & Seq
Reverse (-)
15230408 .. 15232548
2141 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG102800.1

Sequence Viewer

Length: 552 bp
ATGGTATCGGAATCGGACCTCCTGACCCGGCTCCGGGAAATCCTCGGCTCTTCGGACCTCGACACCGCCACCGCCGGCAGCGTCCGCCGCGAGCTCGAGAAACATTTCGGGGCCGATCTATCCGACCGGAAAGCCTTTATCAGGGACCAAATCGACATTTACCTCGAGAGCCAGGTCGCCGATCCCCAGGACGACGAAGACGATGCGGCGGCGGCGCCGGAGGAGGAGGTCGGTGAAGGCTCCGAGAATGCCGAGCAAAACGACGACGTTAAAGTAGAAGATGATGTTGAAGAAGAAGAAGAAGAAGATGATGAGGAACCAGTAGGCAAAGCTAAACGGAAAAAAGCACCCAAGAAGGTGGACAAAGGAGGTGCAAAACGAGGTGGGTTTAAAACAGTATACAGCCTGTCTCCACAACTTCAAGTAATTGTTGGAGAGCCTGAAATGGCCAGACCAGAGGTACAGTATATTAAGTACTTGAAATTTTCTGTTGTTGTACATTTTTGCATTTTGTTTGTGGCAGAGTTTCTGGAATCACAATGTGATACTTAG

Protein Analysis

183

Amino Acids

20.43

Weight (kDa)

4.36

Isoelectric Point (pI)

52.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DEK_C PF08766 2 - 54 2.6e-18 DEK C terminal 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: OG0030999)

Species Orthologous Gene IDs
rosa_multiflora Rmu_ssc0000050.1_g000091
rosa_samantha Rh6AG102800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 214
AccI GTMKAC 1 cut(s) 399
AccII CGCG 1 cut(s) 90
AciI CCGC 7 cut(s) 66, 72, 85, 88, 206, 209, 212
AclWI GGATC 1 cut(s) 176
AcoI YGGCCR 1 cut(s) 447
AcsI RAATTY 1 cut(s) 482
AcyI GRCGYC 1 cut(s) 215
AdeI CACNNNGTG 1 cut(s) 542
AfaI GTAC 3 cut(s) 462, 476, 498
AfiI CCNNNNNNNGG 3 cut(s) 33, 34, 141
AgsI TTSAA 3 cut(s) 290, 422, 481
AjnI CCWGG 2 cut(s) 171, 186
AluBI AGCT 2 cut(s) 94, 332
AluI AGCT 2 cut(s) 94, 332
Alw21I GWGCWC 1 cut(s) 96
Alw26I GTCTC 1 cut(s) 414
AlwI GGATC 1 cut(s) 176
Ama87I CYCGRG 2 cut(s) 95, 164
AoxI GGCC 2 cut(s) 111, 447
ApeKI GCWGC 1 cut(s) 78
ApoI RAATTY 1 cut(s) 482
Asp700I GAANNNNTTC 1 cut(s) 104
AspLEI GCGC 1 cut(s) 217
AspS9I GGNCC 4 cut(s) 16, 55, 111, 145
AsuC2I CCSGG 2 cut(s) 28, 35
AsuHPI GGTGA 1 cut(s) 245
AvaI CYCGRG 2 cut(s) 95, 164
AvaII GGWCC 3 cut(s) 16, 55, 145
BalI TGGCCA 1 cut(s) 449
BanI GGYRCC 1 cut(s) 214
BanII GRGCYC 1 cut(s) 96
BbsI GAAGAC 1 cut(s) 204
Bbv12I GWGCWC 1 cut(s) 96
BbvI GCAGC 1 cut(s) 90
BcgI CGANNNNNNTGC 2 cut(s) 185, 219
BciT130I CCWGG 2 cut(s) 173, 188
BcnI CCSGG 2 cut(s) 28, 35
BcoDI GTCTC 1 cut(s) 414
BfoI RGCGCY 1 cut(s) 218
BisI GCNGC 5 cut(s) 79, 88, 207, 210, 213
BlsI GCNGC 5 cut(s) 80, 89, 208, 211, 214
BmcAI AGTACT 1 cut(s) 476
Bme1390I CCNGG 4 cut(s) 28, 35, 173, 188
Bme18I GGWCC 3 cut(s) 16, 55, 145
BmeT110I CYCGRG 2 cut(s) 95, 164
BmgT120I GGNCC 4 cut(s) 16, 55, 111, 145
BmiI GGNNCC 6 cut(s) 32, 112, 146, 216, 241, 318
BmrFI CCNGG 4 cut(s) 28, 35, 173, 188
BmsI GCATC 1 cut(s) 193
BpiI GAAGAC 1 cut(s) 204
BpuMI CCSGG 2 cut(s) 28, 35
BsaHI GRCGYC 1 cut(s) 215
BsaJI CCNNGG 2 cut(s) 43, 186
BsaWI WCCGGW 1 cut(s) 126
Bsc4I CCNNNNNNNGG 3 cut(s) 33, 34, 141
Bse118I RCCGGY 1 cut(s) 74
Bse1I ACTGG 1 cut(s) 320
BseBI CCWGG 2 cut(s) 173, 188
BseDI CCNNGG 2 cut(s) 43, 186
BseLI CCNNNNNNNGG 3 cut(s) 33, 34, 141
BseNI ACTGG 1 cut(s) 320
BseRI GAGGAG 2 cut(s) 236, 239
BseXI GCAGC 1 cut(s) 90
Bsh1236I CGCG 1 cut(s) 90
Bsh1285I CGRYCG 1 cut(s) 127
BshFI GGCC 2 cut(s) 113, 449
BshNI GGYRCC 1 cut(s) 214
BsiEI CGRYCG 1 cut(s) 127
BsiHKAI GWGCWC 1 cut(s) 96
BsiHKCI CYCGRG 2 cut(s) 95, 164
BsiSI CCGG 5 cut(s) 28, 34, 75, 127, 218
BslFI GGGAC 1 cut(s) 158
BslI CCNNNNNNNGG 3 cut(s) 33, 34, 141
BsmAI GTCTC 1 cut(s) 414
BsmFI GGGAC 1 cut(s) 158
BsmI GAATGC 1 cut(s) 253
BsnI GGCC 2 cut(s) 113, 449
BsoBI CYCGRG 2 cut(s) 95, 164
Bsp1286I GDGCHC 1 cut(s) 96
Bsp1407I TGTACA 1 cut(s) 496
Bsp143I GATC 2 cut(s) 115, 181
BspACI CCGC 7 cut(s) 66, 72, 85, 88, 206, 209, 212
BspANI GGCC 2 cut(s) 113, 449
BspFNI CGCG 1 cut(s) 90
BspLI GGNNCC 6 cut(s) 32, 112, 146, 216, 241, 318
BspPI GGATC 1 cut(s) 176
BspQI GCTCTTC 1 cut(s) 55
BspT107I GGYRCC 1 cut(s) 214
BsrFI RCCGGY 1 cut(s) 74
BsrGI TGTACA 1 cut(s) 496
BsrI ACTGG 1 cut(s) 320
BssAI RCCGGY 1 cut(s) 74
BssECI CCNNGG 2 cut(s) 43, 186
BssMI GATC 2 cut(s) 115, 181
BssNAI GTATAC 1 cut(s) 400
BssNI GRCGYC 1 cut(s) 215
Bst1107I GTATAC 1 cut(s) 400
Bst2UI CCWGG 2 cut(s) 173, 188
Bst4CI ACNGT 2 cut(s) 397, 465
Bst6I CTCTTC 1 cut(s) 55
BstACI GRCGYC 1 cut(s) 215
BstAUI TGTACA 1 cut(s) 496
BstC8I GCNNGC 2 cut(s) 76, 92
BstDEI CTNAG 1 cut(s) 549
BstENI CCTNNNNNAGG 1 cut(s) 139
BstFNI CGCG 1 cut(s) 90
BstH2I RGCGCY 1 cut(s) 218
BstHHI GCGC 1 cut(s) 217
BstKTI GATC 2 cut(s) 118, 184
BstMAI GTCTC 1 cut(s) 414
BstMBI GATC 2 cut(s) 115, 181
BstMCI CGRYCG 1 cut(s) 127
BstMWI GCNNNNNNNGC 3 cut(s) 84, 87, 212
BstNI CCWGG 2 cut(s) 173, 188
BstSCI CCNGG 4 cut(s) 26, 33, 171, 186
BstUI CGCG 1 cut(s) 90
BstV1I GCAGC 1 cut(s) 90
BstV2I GAAGAC 1 cut(s) 204
BstXI CCANNNNNNTGG 1 cut(s) 358
BstZ17I GTATAC 1 cut(s) 400
BsuRI GGCC 2 cut(s) 113, 449
Cac8I GCNNGC 2 cut(s) 76, 92
CfoI GCGC 1 cut(s) 217
Cfr10I RCCGGY 1 cut(s) 74
Cfr13I GGNCC 4 cut(s) 16, 55, 111, 145
CseI GACGC 1 cut(s) 70
Csp6I GTAC 3 cut(s) 461, 475, 497
CviQI GTAC 3 cut(s) 461, 475, 497
DdeI CTNAG 1 cut(s) 549
DinI GGCGCC 1 cut(s) 216
DpnI GATC 2 cut(s) 117, 183
DpnII GATC 2 cut(s) 115, 181
DraI TTTAAA 1 cut(s) 391
DraIII CACNNNGTG 1 cut(s) 542
EaeI YGGCCR 1 cut(s) 447
Eam1104I CTCTTC 1 cut(s) 55
EarI CTCTTC 1 cut(s) 55
EciI GGCGGA 1 cut(s) 74
Ecl136II GAGCTC 1 cut(s) 94
Eco24I GRGCYC 1 cut(s) 96
Eco47I GGWCC 3 cut(s) 16, 55, 145
Eco53kI GAGCTC 1 cut(s) 94
Eco88I CYCGRG 2 cut(s) 95, 164
EcoICRI GAGCTC 1 cut(s) 94
EcoNI CCTNNNNNAGG 1 cut(s) 139
EcoRII CCWGG 2 cut(s) 171, 186
EcoT38I GRGCYC 1 cut(s) 96
EgeI GGCGCC 1 cut(s) 216
EheI GGCGCC 1 cut(s) 216
FaiI YATR 2 cut(s) 400, 468
FaqI GGGAC 1 cut(s) 158
FblI GTMKAC 1 cut(s) 399
Fnu4HI GCNGC 5 cut(s) 79, 88, 207, 210, 213
FriOI GRGCYC 1 cut(s) 96
Fsp4HI GCNGC 5 cut(s) 79, 88, 207, 210, 213
GlaI GCGC 1 cut(s) 216
GluI GCNGC 5 cut(s) 79, 88, 207, 210, 213
HaeII RGCGCY 1 cut(s) 218
HaeIII GGCC 2 cut(s) 113, 449
HapII CCGG 5 cut(s) 28, 34, 75, 127, 218
HgaI GACGC 1 cut(s) 70
HhaI GCGC 1 cut(s) 217
Hin1I GRCGYC 1 cut(s) 215
Hin6I GCGC 1 cut(s) 215
HinP1I GCGC 1 cut(s) 215
HinfI GANTC 2 cut(s) 11, 533
HpaII CCGG 5 cut(s) 28, 34, 75, 127, 218
HphI GGTGA 1 cut(s) 245
Hpy166II GTNNAC 2 cut(s) 361, 400
Hpy188I TCNGA 5 cut(s) 10, 16, 55, 124, 244
Hpy188III TCNNGA 4 cut(s) 22, 97, 166, 530
Hpy8I GTNNAC 2 cut(s) 361, 400
Hpy99I CGWCG 3 cut(s) 197, 266, 269
HpyAV CCTTC 2 cut(s) 230, 349
HpyCH4III ACNGT 2 cut(s) 397, 465
HpyCH4IV ACGT 1 cut(s) 267
HpyCH4V TGCA 2 cut(s) 374, 507
HpyF10VI GCNNNNNNNGC 3 cut(s) 84, 87, 212
HpyF3I CTNAG 1 cut(s) 549
HpySE526I ACGT 1 cut(s) 267
Hsp92I GRCGYC 1 cut(s) 215
HspAI GCGC 1 cut(s) 215
KasI GGCGCC 1 cut(s) 214
KroI GCCGGC 1 cut(s) 74
KroNI GCCGGC 1 cut(s) 76
Kzo9I GATC 2 cut(s) 115, 181
LguI GCTCTTC 1 cut(s) 55
LmnI GCTCC 2 cut(s) 36, 245
Lsp1109I GCAGC 1 cut(s) 90
LweI GCATC 1 cut(s) 193
MaeII ACGT 1 cut(s) 267
MalI GATC 2 cut(s) 117, 183
MboI GATC 2 cut(s) 115, 181
MboII GAAGA 9 cut(s) 42, 209, 290, 302, 305, 308, 311, 314, 317
MhlI GDGCHC 1 cut(s) 96
MlsI TGGCCA 1 cut(s) 449
MluCI AATT 2 cut(s) 426, 482
MluNI TGGCCA 1 cut(s) 449
Mly113I GGCGCC 1 cut(s) 215
MmeI TCCRAC 2 cut(s) 147, 412
Mox20I TGGCCA 1 cut(s) 449
MroNI GCCGGC 1 cut(s) 74
MroXI GAANNNNTTC 1 cut(s) 104
MscI TGGCCA 1 cut(s) 449
MseI TTAA 3 cut(s) 270, 390, 471
Msp20I TGGCCA 1 cut(s) 449
MspI CCGG 5 cut(s) 28, 34, 75, 127, 218
MspR9I CCNGG 4 cut(s) 28, 35, 173, 188
Mva1269I GAATGC 1 cut(s) 253
MvaI CCWGG 2 cut(s) 173, 188
MvnI CGCG 1 cut(s) 90
MwoI GCNNNNNNNGC 3 cut(s) 84, 87, 212
NaeI GCCGGC 1 cut(s) 76
NarI GGCGCC 1 cut(s) 215
NciI CCSGG 2 cut(s) 28, 35
NdeII GATC 2 cut(s) 115, 181
NgoMIV GCCGGC 1 cut(s) 74
NlaIV GGNNCC 6 cut(s) 32, 112, 146, 216, 241, 318
NmeAIII GCCGAG 2 cut(s) 24, 277
PaeR7I CTCGAG 2 cut(s) 95, 164
PciSI GCTCTTC 1 cut(s) 55
PcsI WCGNNNNNNNCGW 1 cut(s) 198
PctI GAATGC 1 cut(s) 253
PdiI GCCGGC 1 cut(s) 76
PdmI GAANNNNTTC 1 cut(s) 104
PfeI GAWTC 2 cut(s) 11, 533
PfoI TCCNGGA 1 cut(s) 33
PkrI GCNGC 5 cut(s) 80, 89, 208, 211, 214
PluTI GGCGCC 1 cut(s) 218
Psp124BI GAGCTC 1 cut(s) 96
Psp6I CCWGG 2 cut(s) 171, 186
PspGI CCWGG 2 cut(s) 171, 186
PspN4I GGNNCC 6 cut(s) 32, 112, 146, 216, 241, 318
PspPI GGNCC 4 cut(s) 16, 55, 111, 145
RsaI GTAC 3 cut(s) 462, 476, 498
RsaNI GTAC 3 cut(s) 461, 475, 497
SacI GAGCTC 1 cut(s) 96
SapI GCTCTTC 1 cut(s) 55
SaqAI TTAA 3 cut(s) 270, 390, 471
SatI GCNGC 5 cut(s) 79, 88, 207, 210, 213
Sau3AI GATC 2 cut(s) 115, 181
Sau96I GGNCC 4 cut(s) 16, 55, 111, 145
ScaI AGTACT 1 cut(s) 476
ScrFI CCNGG 4 cut(s) 28, 35, 173, 188
SduI GDGCHC 1 cut(s) 96
SfaNI GCATC 1 cut(s) 193
SfoI GGCGCC 1 cut(s) 216
Sfr274I CTCGAG 2 cut(s) 95, 164
SinI GGWCC 3 cut(s) 16, 55, 145
SlaI CTCGAG 2 cut(s) 95, 164
SmlI CTYRAG 2 cut(s) 95, 164
SmoI CTYRAG 2 cut(s) 95, 164
Sse9I AATT 2 cut(s) 426, 482
SsiI CCGC 7 cut(s) 66, 72, 85, 88, 206, 209, 212
SspDI GGCGCC 1 cut(s) 214
SstI GAGCTC 1 cut(s) 96
StyD4I CCNGG 4 cut(s) 26, 33, 171, 186
TaaI ACNGT 2 cut(s) 397, 465
TaiI ACGT 1 cut(s) 270
TaqI TCGA 4 cut(s) 60, 96, 153, 165
TasI AATT 2 cut(s) 426, 482
TatI WGTACW 2 cut(s) 474, 496
TauI GCSGC 4 cut(s) 90, 209, 212, 215
TfiI GAWTC 2 cut(s) 11, 533
Tru1I TTAA 3 cut(s) 270, 390, 471
Tru9I TTAA 3 cut(s) 270, 390, 471
TseI GCWGC 1 cut(s) 78
TspGWI ACGGA 1 cut(s) 352
VpaK11BI GGWCC 3 cut(s) 16, 55, 145
XagI CCTNNNNNAGG 1 cut(s) 139
XapI RAATTY 1 cut(s) 482
XhoI CTCGAG 2 cut(s) 95, 164
XmiI GTMKAC 1 cut(s) 399
XmnI GAANNNNTTC 1 cut(s) 104
ZrmI AGTACT 1 cut(s) 476
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.