FvH4_6g46400

Regulator of chromosome condensation (RCC1) repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0011361
Physical Location & Seq
Forward (+)
35403836 .. 35407572
3737 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g46400.t2

Sequence Viewer

Length: 1437 bp
ATGGACATGGAAGAACTATTAGGACGAAACTACCCACCGGCAACAACCATCAAGGCCAAGAGTGCGATTTACGTCTGGGGATACAACCAGTCCGGCCAGACTGGCCGCAACGGGAAACAGCCCCAGCTCAGGATCCCCAAGCAGCTCTCCCCTGAGCTCTTTCACTGCACCGCCGGAGCTAACTCCCGCTGGCTTGACATTGCTTGCGGCCGCGAGCATACCGCCGCGGTTGCTTCCGACGGCTCCCTCTTCACTTGGGGGGCTAATGAATTTGGGCAATTGGGGGATGGGACTGAGGAGAGAAGTAAGCATCCGAAGAAAGTGAAGCGGTTGGAGAGGGAGTTTGTGAAATCTGTGTCGTGTGGAGCACATTGTACAGCTGCCATTGCAGAGCCGAGAGAGAATGATGGGACAGTTTCGACTAGTAGGCTTTGGATTTGGGGGCAAAATCAGGGTTCCAATCTGCCGCGTTTGTTTTGGGGGGCATTTGCTCCAAACACGGCTATCCGTCAAGTATCTTGTGGAGCAGCTCATGTGATGGCTTTATCAGAGGATGGCCTGCTACAAGCTTGGGGATACAATGAATTTGGCCAGCTTGGCAGAGGTGTAACATGTGAAGGATTACAAGGGGCTCGTATTATAAATGCATATGCAAAGTTCCTTGATGAAGCCCCTGAGCTTGTGAAGATTACCCAAGTGTCATGCGGGGAGTACCACACAGCCGCTCTATCTGAAGATGGCGAGGTGTATACTTGGGGGTTGGGAAGTATGGGACAACTAGGTCATTGTTCTCTTCAATCTGCTGATAAAGAGTTACTGCCAAGGAAAGTGGTCGCACTTGATGGAATCTTCATGAAAGATGTGGCATGTGGTGGTGTGCATACATGTGCTGTGACTCAGAAGGGAGCTCTTTATGCTTGGGGTGGCAGTCGAGCAGGGCAATTAGGTCTTGGCCCTGAAACTGGATTCTTTTCATGTAATCCTAATGAGTCTGCCAGCTTTTTCCGAAACATCCCTGCTTTGGTTATTCCACTTGGTGTGCAGCTCATTGCATGTGGACATTCCCATACACTTATTTCTACAAGGGAAGGAAGGATTCATGGATGGGGCTACAATAGCTATGGTCAGGCATCTAATGAGAAATCTACTTATGCTTGGTACCCATCTCCTGTTGATTGGTGTGTTGGGGAAGTTCGAAAACTTGCAGCTGGTGGGGGACATTCAGCTGTGTTGACCGATGCATGTTCCTTGAAGGAATTGTGCGAATTTAGGCTTGCAGATAGTGTGACTCCAACCAATGCTTCTATTATTGAGGACATTGCGTCTAGAACAGATTCAGATAACTTAGTGCGCCTTTGTGAAAGATTGAGGCAGCACATAACGGATGGTGGGGACTACGAATGTGAAGATGATGAACCAAATACTTGTAGAAATTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04120 map04120
Pfam Domains
Protein Families
RCC1

Protein Analysis

479

Amino Acids

51.79

Weight (kDa)

5.84

Isoelectric Point (pI)

38.26

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
WD40_RLD PF25390 17 - 155 2.6e-26 RCC1-like domain
RCC1 PF00415 23 - 77 1.2e-07 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 66 - 93 4.1e-09 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 80 - 129 1.4e-15 Regulator of chromosome condensation (RCC1) repeat
WD40_RLD PF25390 146 - 410 7.2e-55 RCC1-like domain
RCC1_2 PF13540 169 - 198 6.4e-09 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 185 - 243 1.2e-07 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 230 - 259 1.5e-11 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 246 - 298 1.2e-13 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 286 - 314 1.7e-07 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 301 - 358 6.2e-08 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 348 - 376 3.5e-09 Regulator of chromosome condensation (RCC1) repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0011361)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G02300 AT3G02300
fragaria_vesca FvH4_6g46400 FvH4_6g46400
malus_domestica MD09G1074200.v1.1 MD17G1065600.v1.1
prunus_persica Prupe.3G249200_v2.0.a1 Prupe.3G249200_v2.0.a1
pyrus_communis pycom09g00130 pycom17g06550
rosa_chinensis RchiOBHm_Chr2g0164931
rosa_laevigata RLG00000021498
rosa_multiflora Rmu_sc0001097.1_g000002
rosa_roxburghii Rroxscaffold_2G00086200
rosa_rugosa Rorug02G0511300
rosa_samantha Rh2AG579600 Rh2BG590600 Rh2CG561300 Rh2DG601000
rosa_wichuraiana Rw2G048110

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 641
AasI GACNNNNNNGTC 1 cut(s) 780
Acc65I GGTACC 1 cut(s) 1158
AccB1I GGYRCC 1 cut(s) 1158
AccBSI CCGCTC 1 cut(s) 725
AccI GTMKAC 1 cut(s) 749
AccII CGCG 3 cut(s) 213, 227, 469
AclWI GGATC 2 cut(s) 127, 140
AcoI YGGCCR 4 cut(s) 94, 103, 208, 589
AcsI RAATTY 3 cut(s) 269, 584, 1265
AcuI CTGAAG 1 cut(s) 753
AdeI CACNNNGTG 1 cut(s) 1037
AfaI GTAC 3 cut(s) 376, 713, 1160
AfiI CCNNNNNNNGG 3 cut(s) 129, 962, 1021
AflIII ACRYGT 2 cut(s) 611, 884
AgsI TTSAA 2 cut(s) 797, 1252
AhdI GACNNNNNGTC 1 cut(s) 1321
AhlI ACTAGT 1 cut(s) 422
AjuI GAANNNNNNNTTGG 2 cut(s) 1285, 1317
Alw21I GWGCWC 3 cut(s) 159, 370, 910
AlwI GGATC 2 cut(s) 127, 140
AoxI GGCC 7 cut(s) 54, 94, 103, 208, 556, 589, 952
ApeKI GCWGC 6 cut(s) 142, 380, 527, 1042, 1205, 1372
ApoI RAATTY 3 cut(s) 269, 584, 1265
Asp700I GAANNNNTTC 1 cut(s) 1333
Asp718I GGTACC 1 cut(s) 1158
AspLEI GCGC 1 cut(s) 1353
AspS9I GGNCC 1 cut(s) 953
AsuII TTCGAA 1 cut(s) 1195
BalI TGGCCA 1 cut(s) 591
BamHI GGATCC 1 cut(s) 132
BanI GGYRCC 1 cut(s) 1158
BanII GRGCYC 3 cut(s) 159, 634, 910
Bbv12I GWGCWC 3 cut(s) 159, 370, 910
BbvI GCAGC 6 cut(s) 154, 367, 539, 1054, 1217, 1384
BceAI ACGGC 2 cut(s) 256, 516
BciVI GTATCC 2 cut(s) 74, 569
BcuI ACTAGT 1 cut(s) 422
BfaI CTAG 3 cut(s) 423, 779, 1326
BfuI GTATCC 2 cut(s) 74, 569
BglI GCCNNNNNGGC 2 cut(s) 102, 597
BmeRI GACNNNNNGTC 1 cut(s) 1321
BmgT120I GGNCC 1 cut(s) 953
BmiI GGNNCC 4 cut(s) 134, 244, 457, 1160
BmsI GCATC 3 cut(s) 319, 1139, 1228
Bpu10I CCTNAGC 3 cut(s) 128, 153, 675
Bpu14I TTCGAA 1 cut(s) 1195
BsaJI CCNNGG 2 cut(s) 225, 821
BsaXI ACNNNNNCTCC 2 cut(s) 326, 356
Bsc4I CCNNNNNNNGG 3 cut(s) 129, 962, 1021
Bse118I RCCGGY 1 cut(s) 37
Bse1I ACTGG 3 cut(s) 88, 106, 967
Bse3DI GCAATG 4 cut(s) 198, 384, 1047, 1317
BseDI CCNNGG 2 cut(s) 225, 821
BseGI GGATG 6 cut(s) 292, 310, 559, 1011, 1109, 1390
BseLI CCNNNNNNNGG 3 cut(s) 129, 962, 1021
BseMI GCAATG 4 cut(s) 198, 384, 1047, 1317
BseMII CTCAG 5 cut(s) 142, 144, 285, 666, 911
BseNI ACTGG 3 cut(s) 88, 106, 967
BseRI GAGGAG 1 cut(s) 311
BseX3I CGGCCG 1 cut(s) 208
BseXI GCAGC 6 cut(s) 154, 367, 539, 1054, 1217, 1384
BseYI CCCAGC 1 cut(s) 123
BsgI GTGCAG 2 cut(s) 151, 1061
Bsh1236I CGCG 3 cut(s) 213, 227, 469
Bsh1285I CGRYCG 1 cut(s) 211
BshFI GGCC 7 cut(s) 56, 96, 105, 210, 558, 591, 954
BshNI GGYRCC 1 cut(s) 1158
BsiEI CGRYCG 1 cut(s) 211
BsiHKAI GWGCWC 3 cut(s) 159, 370, 910
BsiSI CCGG 3 cut(s) 38, 93, 174
BslFI GGGAC 5 cut(s) 304, 424, 786, 1230, 1406
BslI CCNNNNNNNGG 3 cut(s) 129, 962, 1021
BsmFI GGGAC 5 cut(s) 304, 424, 786, 1230, 1406
BsnI GGCC 7 cut(s) 56, 96, 105, 210, 558, 591, 954
Bsp119I TTCGAA 1 cut(s) 1195
Bsp1286I GDGCHC 4 cut(s) 159, 370, 634, 910
Bsp1407I TGTACA 1 cut(s) 374
Bsp143I GATC 1 cut(s) 132
BspANI GGCC 7 cut(s) 56, 96, 105, 210, 558, 591, 954
BspCNI CTCAG 5 cut(s) 141, 145, 286, 667, 910
BspFNI CGCG 3 cut(s) 213, 227, 469
BspHI TCATGA 1 cut(s) 852
BspLI GGNNCC 4 cut(s) 134, 244, 457, 1160
BspPI GGATC 2 cut(s) 127, 140
BspT104I TTCGAA 1 cut(s) 1195
BspT107I GGYRCC 1 cut(s) 1158
BsrBI CCGCTC 1 cut(s) 725
BsrDI GCAATG 4 cut(s) 198, 384, 1047, 1317
BsrFI RCCGGY 1 cut(s) 37
BsrGI TGTACA 1 cut(s) 374
BsrI ACTGG 3 cut(s) 88, 106, 967
BssAI RCCGGY 1 cut(s) 37
BssECI CCNNGG 2 cut(s) 225, 821
BssMI GATC 1 cut(s) 132
BssNAI GTATAC 1 cut(s) 750
BssT1I CCWWGG 1 cut(s) 821
Bst1107I GTATAC 1 cut(s) 750
Bst4CI ACNGT 1 cut(s) 415
Bst6I CTCTTC 2 cut(s) 254, 798
BstAUI TGTACA 1 cut(s) 374
BstBI TTCGAA 1 cut(s) 1195
BstC8I GCNNGC 7 cut(s) 191, 205, 215, 560, 593, 997, 1275
BstDEI CTNAG 6 cut(s) 128, 153, 294, 675, 897, 1345
BstDSI CCRYGG 1 cut(s) 225
BstF5I GGATG 6 cut(s) 292, 310, 559, 1011, 1109, 1390
BstFNI CGCG 3 cut(s) 213, 227, 469
BstHHI GCGC 1 cut(s) 1353
BstKTI GATC 1 cut(s) 135
BstMBI GATC 1 cut(s) 132
BstMCI CGRYCG 1 cut(s) 211
BstMWI GCNNNNNNNGC 7 cut(s) 62, 102, 230, 386, 597, 914, 1116
BstNSI RCATGY 5 cut(s) 615, 870, 888, 1056, 1245
BstUI CGCG 3 cut(s) 213, 227, 469
BstV1I GCAGC 6 cut(s) 154, 367, 539, 1054, 1217, 1384
BstX2I RGATCY 1 cut(s) 132
BstYI RGATCY 1 cut(s) 132
BstZ17I GTATAC 1 cut(s) 750
BstZI CGGCCG 1 cut(s) 208
BsuI GTATCC 2 cut(s) 74, 569
BsuRI GGCC 7 cut(s) 56, 96, 105, 210, 558, 591, 954
BtgI CCRYGG 1 cut(s) 225
BtsCI GGATG 6 cut(s) 292, 310, 559, 1011, 1109, 1390
BtsI GCAGTG 1 cut(s) 163
BtsIMutI CAGTG 1 cut(s) 163
Cac8I GCNNGC 7 cut(s) 191, 205, 215, 560, 593, 997, 1275
CciI TCATGA 1 cut(s) 852
CciNI GCGGCCGC 1 cut(s) 208
CfoI GCGC 1 cut(s) 1353
Cfr10I RCCGGY 1 cut(s) 37
Cfr13I GGNCC 1 cut(s) 953
Cfr42I CCGCGG 1 cut(s) 228
CseI GACGC 1 cut(s) 1311
Csp6I GTAC 3 cut(s) 375, 712, 1159
CspCI CAANNNNNGTGG 2 cut(s) 810, 845
CviQI GTAC 3 cut(s) 375, 712, 1159
DdeI CTNAG 6 cut(s) 128, 153, 294, 675, 897, 1345
DpnI GATC 1 cut(s) 134
DpnII GATC 1 cut(s) 132
DraIII CACNNNGTG 1 cut(s) 1037
DrdI GACNNNNNNGTC 1 cut(s) 780
DriI GACNNNNNGTC 1 cut(s) 1321
DseDI GACNNNNNNGTC 1 cut(s) 780
EaeI YGGCCR 4 cut(s) 94, 103, 208, 589
EagI CGGCCG 1 cut(s) 208
Eam1104I CTCTTC 2 cut(s) 254, 798
Eam1105I GACNNNNNGTC 1 cut(s) 1321
EarI CTCTTC 2 cut(s) 254, 798
Ecl136II GAGCTC 2 cut(s) 157, 908
EclXI CGGCCG 1 cut(s) 208
Eco130I CCWWGG 1 cut(s) 821
Eco24I GRGCYC 3 cut(s) 159, 634, 910
Eco52I CGGCCG 1 cut(s) 208
Eco53kI GAGCTC 2 cut(s) 157, 908
Eco57I CTGAAG 1 cut(s) 753
EcoICRI GAGCTC 2 cut(s) 157, 908
EcoT14I CCWWGG 1 cut(s) 821
EcoT22I ATGCAT 2 cut(s) 649, 1243
EcoT38I GRGCYC 3 cut(s) 159, 634, 910
ErhI CCWWGG 1 cut(s) 821
FaqI GGGAC 5 cut(s) 304, 424, 786, 1230, 1406
FauI CCCGC 2 cut(s) 194, 698
FauNDI CATATG 1 cut(s) 649
FblI GTMKAC 1 cut(s) 749
FokI GGATG 6 cut(s) 297, 299, 566, 998, 1116, 1397
FriOI GRGCYC 3 cut(s) 159, 634, 910
FspBI CTAG 3 cut(s) 423, 779, 1326
GlaI GCGC 1 cut(s) 1352
GsaI CCCAGC 1 cut(s) 127
HaeIII GGCC 7 cut(s) 56, 96, 105, 210, 558, 591, 954
HapII CCGG 3 cut(s) 38, 93, 174
HgaI GACGC 1 cut(s) 1311
HhaI GCGC 1 cut(s) 1353
Hin6I GCGC 1 cut(s) 1351
HinP1I GCGC 1 cut(s) 1351
HincII GTYRAC 1 cut(s) 1233
HindII GTYRAC 1 cut(s) 1233
HindIII AAGCTT 1 cut(s) 567
HinfI GANTC 7 cut(s) 846, 895, 966, 989, 1096, 1288, 1334
HpaII CCGG 3 cut(s) 38, 93, 174
Hpy166II GTNNAC 3 cut(s) 750, 1058, 1233
Hpy188I TCNGA 7 cut(s) 238, 315, 550, 733, 900, 1007, 1339
Hpy188III TCNNGA 3 cut(s) 130, 853, 1326
Hpy8I GTNNAC 3 cut(s) 750, 1058, 1233
Hpy99I CGWCG 1 cut(s) 242
HpyAV CCTTC 5 cut(s) 611, 895, 1082, 1086, 1246
HpyCH4III ACNGT 1 cut(s) 415
HpyCH4IV ACGT 1 cut(s) 72
HpyF10VI GCNNNNNNNGC 7 cut(s) 62, 102, 230, 386, 597, 914, 1116
HpyF3I CTNAG 6 cut(s) 128, 153, 294, 675, 897, 1345
HpySE526I ACGT 1 cut(s) 72
HspAI GCGC 1 cut(s) 1351
KpnI GGTACC 1 cut(s) 1162
KspI CCGCGG 1 cut(s) 228
Kzo9I GATC 1 cut(s) 132
LmnI GCTCC 6 cut(s) 176, 248, 365, 496, 524, 905
Lsp1109I GCAGC 6 cut(s) 154, 367, 539, 1054, 1217, 1384
LweI GCATC 3 cut(s) 319, 1139, 1228
MaeI CTAG 3 cut(s) 423, 779, 1326
MaeII ACGT 1 cut(s) 72
MaeIII GTNAC 4 cut(s) 607, 813, 892, 1285
MalI GATC 1 cut(s) 134
MbiI CCGCTC 1 cut(s) 725
MboI GATC 1 cut(s) 132
MboII GAAGA 8 cut(s) 23, 241, 328, 697, 746, 785, 841, 1418
MfeI CAATTG 1 cut(s) 278
MflI RGATCY 1 cut(s) 132
MhlI GDGCHC 4 cut(s) 159, 370, 634, 910
MlsI TGGCCA 1 cut(s) 591
MluCI AATT 7 cut(s) 269, 278, 584, 941, 1256, 1265, 1432
MluNI TGGCCA 1 cut(s) 591
MlyI GAGTC 3 cut(s) 889, 998, 1282
MmeI TCCRAC 3 cut(s) 261, 312, 1316
MnlI CCTC 8 cut(s) 257, 289, 330, 544, 596, 736, 1306, 1362
Mox20I TGGCCA 1 cut(s) 591
Mph1103I ATGCAT 2 cut(s) 649, 1243
MroXI GAANNNNTTC 1 cut(s) 1333
MscI TGGCCA 1 cut(s) 591
MslI CAYNNNNRTG 1 cut(s) 885
Msp20I TGGCCA 1 cut(s) 591
MspA1I CMGCKG 5 cut(s) 189, 227, 380, 1208, 1226
MspI CCGG 3 cut(s) 38, 93, 174
MunI CAATTG 1 cut(s) 278
MvnI CGCG 3 cut(s) 213, 227, 469
MwoI GCNNNNNNNGC 7 cut(s) 62, 102, 230, 386, 597, 914, 1116
NdeI CATATG 1 cut(s) 649
NdeII GATC 1 cut(s) 132
NlaIV GGNNCC 4 cut(s) 134, 244, 457, 1160
NmeAIII GCCGAG 1 cut(s) 420
NmuCI GTSAC 2 cut(s) 892, 1285
NotI GCGGCCGC 1 cut(s) 208
NsiI ATGCAT 2 cut(s) 649, 1243
NspI RCATGY 5 cut(s) 615, 870, 888, 1056, 1245
NspV TTCGAA 1 cut(s) 1195
PagI TCATGA 1 cut(s) 852
PciI ACATGT 2 cut(s) 611, 884
PdmI GAANNNNTTC 1 cut(s) 1333
PfeI GAWTC 4 cut(s) 846, 966, 1096, 1334
PleI GAGTC 3 cut(s) 889, 997, 1282
PpsI GAGTC 3 cut(s) 889, 997, 1282
PscI ACATGT 2 cut(s) 611, 884
PsiI TTATAA 1 cut(s) 641
Psp124BI GAGCTC 2 cut(s) 159, 910
PspFI CCCAGC 1 cut(s) 123
PspN4I GGNNCC 4 cut(s) 134, 244, 457, 1160
PspPI GGNCC 1 cut(s) 953
PsuI RGATCY 1 cut(s) 132
PvuII CAGCTG 3 cut(s) 380, 1208, 1226
RsaI GTAC 3 cut(s) 376, 713, 1160
RsaNI GTAC 3 cut(s) 375, 712, 1159
RseI CAYNNNNRTG 1 cut(s) 885
SacI GAGCTC 2 cut(s) 159, 910
SacII CCGCGG 1 cut(s) 228
Sau3AI GATC 1 cut(s) 132
Sau96I GGNCC 1 cut(s) 953
SchI GAGTC 3 cut(s) 889, 998, 1282
SduI GDGCHC 4 cut(s) 159, 370, 634, 910
SfaNI GCATC 3 cut(s) 319, 1139, 1228
SfiI GGCCNNNNNGGCC 1 cut(s) 102
Sfr303I CCGCGG 1 cut(s) 228
SfuI TTCGAA 1 cut(s) 1195
SgrBI CCGCGG 1 cut(s) 228
SmiMI CAYNNNNRTG 1 cut(s) 885
SpeI ACTAGT 1 cut(s) 422
Sse9I AATT 7 cut(s) 269, 278, 584, 941, 1256, 1265, 1432
SspMI CTAG 3 cut(s) 423, 779, 1326
SstI GAGCTC 2 cut(s) 159, 910
StyI CCWWGG 1 cut(s) 821
TaaI ACNGT 1 cut(s) 415
TaiI ACGT 1 cut(s) 75
TaqI TCGA 3 cut(s) 419, 931, 1195
TaqII GACCGA 1 cut(s) 1250
TasI AATT 7 cut(s) 269, 278, 584, 941, 1256, 1265, 1432
TatI WGTACW 1 cut(s) 374
TauI GCSGC 6 cut(s) 108, 210, 213, 227, 469, 725
TfiI GAWTC 4 cut(s) 846, 966, 1096, 1334
TscAI CASTG 1 cut(s) 170
TseFI GTSAC 2 cut(s) 892, 1285
TseI GCWGC 6 cut(s) 142, 380, 527, 1042, 1205, 1372
Tsp45I GTSAC 2 cut(s) 892, 1285
TspDTI ATGAA 8 cut(s) 282, 597, 681, 841, 869, 963, 1088, 1428
TspGWI ACGGA 2 cut(s) 497, 1397
TspRI CASTG 1 cut(s) 170
XapI RAATTY 3 cut(s) 269, 584, 1265
XbaI TCTAGA 1 cut(s) 1325
XceI RCATGY 5 cut(s) 615, 870, 888, 1056, 1245
XmiI GTMKAC 1 cut(s) 749
XmnI GAANNNNTTC 1 cut(s) 1333
XspI CTAG 3 cut(s) 423, 779, 1326
Zsp2I ATGCAT 2 cut(s) 649, 1243
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.