FvH4_6g39230

Regulator of chromosome condensation (RCC1) repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0008533
Physical Location & Seq
Forward (+)
31027468 .. 31031207
3740 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g39230.t2

Sequence Viewer

Length: 1335 bp
ATGACCGCCTACCACTCTCTCCGCCACCGCTCTCTCACGCACCTCACGCGCCACTTCTCCACCGCAACCAAAACCAAAACCCAAATCCCCACTCTCTATTCCCCCAACGACGCCGCACCCACCACCGCCCTCCAGCTCCTCTCCTGGGGCCGCGGCGCCTCCGGCCAACTCGGCGGCGGCATCGAGGAAATCCGCCTCTACCCATCTCCGGTAGCCAACCTCGCCGTCCCTTCCTCCTCCTTCACTCTCTCACCGACTCCGGGCAAACTCCCAACACCCAAAGCCGGCAATGACGTCATGGAGGTGGGCATTTCTTGTGGGCTGTTTCACTCTTCGCTATTGGTGGACGGCAAGGTTTGGATTTGGGGTAAAGGCGACGGAGGTCGGCTTGGTTTTGGGCATGAGAACTCTGCGTTTCTGCCCACTTTGAATCCCTATTTGGATTCGATACGGTGCGTTTCGCTTGGTGGGTTGCACTCTGTTTCGCTCACCACTCTCGGCGAGGTCTATACTTGGGGTTATGGTGGTTTTGGTGCGCTTGGACATTCTGTCTATACTAGAGAATTGTTCCCTAGATTGGTTGAAGGTTCATGGAGTGGGAGAATACAGCATGTTTCAACTAGTGGGACGCATACGGCTGCCATTACGGAATCAGGAGAACTTTATACTTGGGGTCGAGATGAAGGGGATGGTAGATTGGGCCTTGGTCCCAATCGGGGCCCAAATGAGGGTGGTGGACTGAGCATTCCCTCCAAAGTGAAAGCATTACCTATGCCTGTGGCTGCTGTTTCTTGCGGAGGGTTTTTCACTATGGTACTAACTGAAAATGGGGAACTTTGGAATTGGGGAGCAAACTCTAACTTTGAGCTTGGAAGGGGTGATAGGGTTGGTGGCTGGCAACCAAAAGCCGTACCTAGTCTTGTAGGCGTTCGTATCATTCAGGTAGCAAGTGGTGGATATCATTCTATTGCATTAACTGACGAAGGTAAAGTACTTTCTTGGGGCCATGGTGGACATGGTCAGTTGGGCAACTCTTCGGTCCAAAATCAAAAAACACCTACAACTGTTAAGGCTCTAACTGATGAGCGTGTCATCTATATAGCTTGTGGAGGTTCATCTTCAGCGGCTATAACAGATACAGGTAAGTTGTATATGTGGGGATACACCAAAGATTCTCAGTTAGGAGTTCCTGGGCTGCCAGAGATACAGTCAAGCCCTGTTGAAGTTAAATTTCTTATGGAAGATGATGGATTAGGACCCCACAATGTTCTTTCTATTGCAGTTGGTGCATCTCATGCTGTGTGTTTGGTTTCAAGGGGTAAATCATCCAAGTGA
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
RCC1

Protein Analysis

445

Amino Acids

46.76

Weight (kDa)

8.21

Isoelectric Point (pI)

31.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
WD40_RLD PF25390 46 - 378 2.4e-66 RCC1-like domain
RCC1 PF00415 116 - 162 3.3e-08 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 167 - 215 7.5e-10 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 218 - 273 8.4e-09 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 260 - 287 3.3e-07 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 276 - 325 1.3e-11 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 312 - 341 1.5e-10 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 328 - 377 2.1e-13 Regulator of chromosome condensation (RCC1) repeat
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)
AatII GACGTC 1 cut(s) 297
AccB1I GGYRCC 1 cut(s) 155
AccBSI CCGCTC 1 cut(s) 30
AccII CGCG 2 cut(s) 49, 153
AcoI YGGCCR 1 cut(s) 163
AcsI RAATTY 1 cut(s) 1229
AcuI CTGAAG 1 cut(s) 1104
AcyI GRCGYC 3 cut(s) 111, 156, 294
AfaI GTAC 3 cut(s) 816, 912, 993
AfiI CCNNNNNNNGG 8 cut(s) 145, 208, 260, 284, 577, 716, 727, 728
AgsI TTSAA 5 cut(s) 430, 584, 618, 1223, 1314
AhdI GACNNNNNGTC 1 cut(s) 548
AhlI ACTAGT 1 cut(s) 620
AjnI CCWGG 2 cut(s) 143, 1189
AjuI GAANNNNNNNTTGG 2 cut(s) 422, 454
AluBI AGCT 3 cut(s) 136, 868, 1103
AluI AGCT 3 cut(s) 136, 868, 1103
AoxI GGCC 5 cut(s) 148, 163, 700, 718, 1003
ApaI GGGCCC 1 cut(s) 722
ApeKI GCWGC 3 cut(s) 638, 782, 1195
ApoI RAATTY 1 cut(s) 1229
AspLEI GCGC 3 cut(s) 51, 158, 538
AspS9I GGNCC 8 cut(s) 148, 700, 707, 718, 719, 1003, 1039, 1256
AsuC2I CCSGG 1 cut(s) 261
AsuHPI GGTGA 3 cut(s) 243, 481, 890
AvaII GGWCC 3 cut(s) 707, 1039, 1256
BaeGI GKGCMC 1 cut(s) 722
BanI GGYRCC 1 cut(s) 155
BanII GRGCYC 1 cut(s) 722
BarI GAAGNNNNNNTAC 2 cut(s) 975, 1007
BbvI GCAGC 3 cut(s) 625, 769, 1182
BccI CCATC 3 cut(s) 211, 683, 1241
BceAI ACGGC 4 cut(s) 209, 364, 651, 893
BciT130I CCWGG 2 cut(s) 145, 1191
BciVI GTATCC 1 cut(s) 1154
BcnI CCSGG 1 cut(s) 261
BcuI ACTAGT 1 cut(s) 620
BfaI CTAG 4 cut(s) 558, 573, 621, 915
BfoI RGCGCY 1 cut(s) 159
BfuI GTATCC 1 cut(s) 1154
BglI GCCNNNNNGGC 1 cut(s) 171
BisI GCNGC 9 cut(s) 114, 151, 154, 175, 178, 639, 783, 1125, 1196
BlsI GCNGC 9 cut(s) 115, 152, 155, 176, 179, 640, 784, 1126, 1197
BmcAI AGTACT 1 cut(s) 993
Bme1390I CCNGG 3 cut(s) 145, 261, 1191
Bme18I GGWCC 3 cut(s) 707, 1039, 1256
BmeRI GACNNNNNGTC 1 cut(s) 548
BmgT120I GGNCC 8 cut(s) 148, 700, 707, 718, 719, 1003, 1039, 1256
BmiI GGNNCC 7 cut(s) 149, 157, 709, 719, 720, 1004, 1258
BmrFI CCNGG 3 cut(s) 145, 261, 1191
BmsI GCATC 2 cut(s) 189, 1298
BoxI GACNNNNGTC 1 cut(s) 381
BpmI CTGGAG 1 cut(s) 116
BpuMI CCSGG 1 cut(s) 261
BsaHI GRCGYC 3 cut(s) 111, 156, 294
BsaJI CCNNGG 5 cut(s) 144, 151, 703, 1006, 1190
BsaWI WCCGGW 1 cut(s) 208
Bsc4I CCNNNNNNNGG 8 cut(s) 145, 208, 260, 284, 577, 716, 727, 728
Bse118I RCCGGY 1 cut(s) 284
Bse3DI GCAATG 1 cut(s) 295
BseBI CCWGG 2 cut(s) 145, 1191
BseDI CCNNGG 5 cut(s) 144, 151, 703, 1006, 1190
BseGI GGATG 2 cut(s) 694, 1325
BseLI CCNNNNNNNGG 8 cut(s) 145, 208, 260, 284, 577, 716, 727, 728
BseMI GCAATG 1 cut(s) 295
BseMII CTCAG 2 cut(s) 731, 1190
BseRI GAGGAG 2 cut(s) 128, 226
BseSI GKGCMC 1 cut(s) 722
BseXI GCAGC 3 cut(s) 625, 769, 1182
Bsh1236I CGCG 2 cut(s) 49, 153
BshFI GGCC 5 cut(s) 150, 165, 702, 720, 1005
BshNI GGYRCC 1 cut(s) 155
BsiSI CCGG 4 cut(s) 162, 209, 260, 285
BslFI GGGAC 3 cut(s) 212, 640, 693
BslI CCNNNNNNNGG 8 cut(s) 145, 208, 260, 284, 577, 716, 727, 728
BsmFI GGGAC 3 cut(s) 212, 640, 693
BsmI GAATGC 1 cut(s) 744
BsnI GGCC 5 cut(s) 150, 165, 702, 720, 1005
Bsp120I GGGCCC 1 cut(s) 718
Bsp1286I GDGCHC 1 cut(s) 722
Bsp19I CCATGG 1 cut(s) 1006
BspANI GGCC 5 cut(s) 150, 165, 702, 720, 1005
BspCNI CTCAG 2 cut(s) 732, 1189
BspFNI CGCG 2 cut(s) 49, 153
BspLI GGNNCC 7 cut(s) 149, 157, 709, 719, 720, 1004, 1258
BspT107I GGYRCC 1 cut(s) 155
BsrBI CCGCTC 1 cut(s) 30
BsrDI GCAATG 1 cut(s) 295
BsrFI RCCGGY 1 cut(s) 284
BssAI RCCGGY 1 cut(s) 284
BssECI CCNNGG 5 cut(s) 144, 151, 703, 1006, 1190
BssNI GRCGYC 3 cut(s) 111, 156, 294
BssT1I CCWWGG 2 cut(s) 703, 1006
Bst2UI CCWGG 2 cut(s) 145, 1191
Bst4CI ACNGT 3 cut(s) 453, 1066, 1209
Bst6I CTCTTC 2 cut(s) 337, 1039
BstACI GRCGYC 3 cut(s) 111, 156, 294
BstAPI GCANNNNNTGC 2 cut(s) 1286, 1295
BstC8I GCNNGC 2 cut(s) 286, 896
BstDEI CTNAG 2 cut(s) 740, 1176
BstDSI CCRYGG 2 cut(s) 151, 1006
BstF5I GGATG 2 cut(s) 694, 1325
BstFNI CGCG 2 cut(s) 49, 153
BstH2I RGCGCY 1 cut(s) 159
BstHHI GCGC 3 cut(s) 51, 158, 538
BstMWI GCNNNNNNNGC 6 cut(s) 46, 162, 171, 221, 1286, 1295
BstNI CCWGG 2 cut(s) 145, 1191
BstNSI RCATGY 1 cut(s) 614
BstPAI GACNNNNGTC 1 cut(s) 381
BstSCI CCNGG 3 cut(s) 143, 259, 1189
BstSLI GKGCMC 1 cut(s) 722
BstUI CGCG 2 cut(s) 49, 153
BstV1I GCAGC 3 cut(s) 625, 769, 1182
BsuI GTATCC 1 cut(s) 1154
BsuRI GGCC 5 cut(s) 150, 165, 702, 720, 1005
BtgI CCRYGG 2 cut(s) 151, 1006
BtsCI GGATG 2 cut(s) 694, 1325
Cac8I GCNNGC 2 cut(s) 286, 896
CfoI GCGC 3 cut(s) 51, 158, 538
Cfr10I RCCGGY 1 cut(s) 284
Cfr13I GGNCC 8 cut(s) 148, 700, 707, 718, 719, 1003, 1039, 1256
Cfr42I CCGCGG 1 cut(s) 154
CseI GACGC 2 cut(s) 119, 637
Csp6I GTAC 3 cut(s) 815, 911, 992
CviAII CATG 7 cut(s) 298, 401, 591, 611, 1007, 1016, 1295
CviQI GTAC 3 cut(s) 815, 911, 992
DdeI CTNAG 2 cut(s) 740, 1176
DinI GGCGCC 1 cut(s) 157
DriI GACNNNNNGTC 1 cut(s) 548
EaeI YGGCCR 1 cut(s) 163
Eam1104I CTCTTC 2 cut(s) 337, 1039
Eam1105I GACNNNNNGTC 1 cut(s) 548
EarI CTCTTC 2 cut(s) 337, 1039
EciI GGCGGA 2 cut(s) 11, 182
Eco130I CCWWGG 2 cut(s) 703, 1006
Eco24I GRGCYC 1 cut(s) 722
Eco32I GATATC 1 cut(s) 959
Eco47I GGWCC 3 cut(s) 707, 1039, 1256
Eco57I CTGAAG 1 cut(s) 1104
EcoO109I RGGNCCY 2 cut(s) 718, 1256
EcoRII CCWGG 2 cut(s) 143, 1189
EcoRV GATATC 1 cut(s) 959
EcoT14I CCWWGG 2 cut(s) 703, 1006
EcoT38I GRGCYC 1 cut(s) 722
EgeI GGCGCC 1 cut(s) 157
EheI GGCGCC 1 cut(s) 157
ErhI CCWWGG 2 cut(s) 703, 1006
FaeI CATG 7 cut(s) 301, 404, 594, 614, 1010, 1019, 1298
FaqI GGGAC 3 cut(s) 212, 640, 693
FatI CATG 7 cut(s) 297, 400, 590, 610, 1006, 1015, 1294
Fnu4HI GCNGC 9 cut(s) 114, 151, 154, 175, 178, 639, 783, 1125, 1196
FokI GGATG 2 cut(s) 701, 1312
FriOI GRGCYC 1 cut(s) 722
Fsp4HI GCNGC 9 cut(s) 114, 151, 154, 175, 178, 639, 783, 1125, 1196
FspBI CTAG 4 cut(s) 558, 573, 621, 915
GlaI GCGC 3 cut(s) 50, 157, 537
GluI GCNGC 9 cut(s) 114, 151, 154, 175, 178, 639, 783, 1125, 1196
GsuI CTGGAG 1 cut(s) 116
HaeII RGCGCY 1 cut(s) 159
HaeIII GGCC 5 cut(s) 150, 165, 702, 720, 1005
HapII CCGG 4 cut(s) 162, 209, 260, 285
HgaI GACGC 2 cut(s) 119, 637
HhaI GCGC 3 cut(s) 51, 158, 538
Hin1I GRCGYC 3 cut(s) 111, 156, 294
Hin1II CATG 7 cut(s) 301, 404, 594, 614, 1010, 1019, 1298
Hin6I GCGC 3 cut(s) 49, 156, 536
HinP1I GCGC 3 cut(s) 49, 156, 536
HinfI GANTC 5 cut(s) 256, 430, 443, 650, 1172
HpaII CCGG 4 cut(s) 162, 209, 260, 285
HphI GGTGA 3 cut(s) 243, 481, 890
Hpy166II GTNNAC 3 cut(s) 346, 737, 1013
Hpy188III TCNNGA 2 cut(s) 654, 677
Hpy8I GTNNAC 3 cut(s) 346, 737, 1013
Hpy99I CGWCG 2 cut(s) 113, 380
HpyAV CCTTC 6 cut(s) 240, 250, 578, 677, 867, 977
HpyCH4III ACNGT 3 cut(s) 453, 1066, 1209
HpyCH4IV ACGT 1 cut(s) 294
HpyCH4V TGCA 4 cut(s) 475, 971, 1280, 1289
HpyF10VI GCNNNNNNNGC 6 cut(s) 46, 162, 171, 221, 1286, 1295
HpyF3I CTNAG 2 cut(s) 740, 1176
HpySE526I ACGT 1 cut(s) 294
Hsp92I GRCGYC 3 cut(s) 111, 156, 294
Hsp92II CATG 7 cut(s) 301, 404, 594, 614, 1010, 1019, 1298
HspAI GCGC 3 cut(s) 49, 156, 536
KasI GGCGCC 1 cut(s) 155
KroI GCCGGC 1 cut(s) 284
KroNI GCCGGC 1 cut(s) 286
KspI CCGCGG 1 cut(s) 154
LmnI GCTCC 2 cut(s) 141, 848
Lsp1109I GCAGC 3 cut(s) 625, 769, 1182
LweI GCATC 2 cut(s) 189, 1298
MaeI CTAG 4 cut(s) 558, 573, 621, 915
MaeII ACGT 1 cut(s) 294
MbiI CCGCTC 1 cut(s) 30
MboII GAAGA 4 cut(s) 324, 1026, 1110, 1253
MhlI GDGCHC 1 cut(s) 722
MluCI AATT 3 cut(s) 563, 841, 1229
Mly113I GGCGCC 1 cut(s) 156
MlyI GAGTC 1 cut(s) 250
MroNI GCCGGC 1 cut(s) 284
MseI TTAA 3 cut(s) 974, 1068, 1227
MslI CAYNNNNRTG 2 cut(s) 302, 1330
MspA1I CMGCKG 2 cut(s) 153, 1124
MspI CCGG 4 cut(s) 162, 209, 260, 285
MspR9I CCNGG 3 cut(s) 145, 261, 1191
Mva1269I GAATGC 1 cut(s) 744
MvaI CCWGG 2 cut(s) 145, 1191
MvnI CGCG 2 cut(s) 49, 153
MwoI GCNNNNNNNGC 6 cut(s) 46, 162, 171, 221, 1286, 1295
NaeI GCCGGC 1 cut(s) 286
NarI GGCGCC 1 cut(s) 156
NciI CCSGG 1 cut(s) 261
NcoI CCATGG 1 cut(s) 1006
NgoMIV GCCGGC 1 cut(s) 284
NlaIII CATG 7 cut(s) 301, 404, 594, 614, 1010, 1019, 1298
NlaIV GGNNCC 7 cut(s) 149, 157, 709, 719, 720, 1004, 1258
NmeAIII GCCGAG 2 cut(s) 150, 477
NspI RCATGY 1 cut(s) 614
PctI GAATGC 1 cut(s) 744
PdiI GCCGGC 1 cut(s) 286
PfeI GAWTC 4 cut(s) 430, 443, 650, 1172
PflFI GACNNNGTC 1 cut(s) 1017
PkrI GCNGC 9 cut(s) 115, 152, 155, 176, 179, 640, 784, 1126, 1197
PleI GAGTC 1 cut(s) 250
PluTI GGCGCC 1 cut(s) 159
PpsI GAGTC 1 cut(s) 250
PpuMI RGGWCCY 1 cut(s) 1256
PshAI GACNNNNGTC 1 cut(s) 381
Psp5II RGGWCCY 1 cut(s) 1256
Psp6I CCWGG 2 cut(s) 143, 1189
PspGI CCWGG 2 cut(s) 143, 1189
PspN4I GGNNCC 7 cut(s) 149, 157, 709, 719, 720, 1004, 1258
PspOMI GGGCCC 1 cut(s) 718
PspPI GGNCC 8 cut(s) 148, 700, 707, 718, 719, 1003, 1039, 1256
PspPPI RGGWCCY 1 cut(s) 1256
PsyI GACNNNGTC 1 cut(s) 1017
RsaI GTAC 3 cut(s) 816, 912, 993
RsaNI GTAC 3 cut(s) 815, 911, 992
RseI CAYNNNNRTG 2 cut(s) 302, 1330
SacII CCGCGG 1 cut(s) 154
SaqAI TTAA 3 cut(s) 974, 1068, 1227
SatI GCNGC 9 cut(s) 114, 151, 154, 175, 178, 639, 783, 1125, 1196
Sau96I GGNCC 8 cut(s) 148, 700, 707, 718, 719, 1003, 1039, 1256
ScaI AGTACT 1 cut(s) 993
SchI GAGTC 1 cut(s) 250
ScrFI CCNGG 3 cut(s) 145, 261, 1191
SduI GDGCHC 1 cut(s) 722
SfaNI GCATC 2 cut(s) 189, 1298
SfoI GGCGCC 1 cut(s) 157
Sfr303I CCGCGG 1 cut(s) 154
SgrBI CCGCGG 1 cut(s) 154
SinI GGWCC 3 cut(s) 707, 1039, 1256
SmiMI CAYNNNNRTG 2 cut(s) 302, 1330
SpeI ACTAGT 1 cut(s) 620
Sse9I AATT 3 cut(s) 563, 841, 1229
SspDI GGCGCC 1 cut(s) 155
SspMI CTAG 4 cut(s) 558, 573, 621, 915
StyD4I CCNGG 3 cut(s) 143, 259, 1189
StyI CCWWGG 2 cut(s) 703, 1006
TaaI ACNGT 3 cut(s) 453, 1066, 1209
TaiI ACGT 1 cut(s) 297
TaqI TCGA 3 cut(s) 183, 446, 676
TaqII GACCGA 1 cut(s) 1027
TasI AATT 3 cut(s) 563, 841, 1229
TatI WGTACW 1 cut(s) 991
TauI GCSGC 6 cut(s) 116, 153, 156, 177, 180, 1127
TfiI GAWTC 4 cut(s) 430, 443, 650, 1172
Tru1I TTAA 3 cut(s) 974, 1068, 1227
Tru9I TTAA 3 cut(s) 974, 1068, 1227
TseI GCWGC 3 cut(s) 638, 782, 1195
TspDTI ATGAA 3 cut(s) 579, 696, 1104
TspGWI ACGGA 2 cut(s) 393, 662
Tth111I GACNNNGTC 1 cut(s) 1017
VpaK11BI GGWCC 3 cut(s) 707, 1039, 1256
XapI RAATTY 1 cut(s) 1229
XceI RCATGY 1 cut(s) 614
XcmI CCANNNNNNNNNTGG 1 cut(s) 1013
XspI CTAG 4 cut(s) 558, 573, 621, 915
ZraI GACGTC 1 cut(s) 295
ZrmI AGTACT 1 cut(s) 993
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.