Rroxscaffold_4G00288500

Regulator of chromosome condensation (RCC1) repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0004604
Physical Location & Seq
Reverse (-)
9277328 .. 9282909
5582 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00288500.1

Sequence Viewer

Length: 1503 bp
ATGAATGACGGCGGAGATGTGAATATGGAGGAGGGAGGGGGCGGAGAGAAGGTGGTGTTGATGTGGGGTTATCTTCCCGGAGCTCTGCCGCAAAGGTCGCCGCTTTTGTCGCCGACGGTTGTGCGGCCCGGTGGTGATTACTCCTGGAGGGATGTGTTTGGCGGCGGTTGCGGCTTCGCCATGGCCATTTCTGAGTCTGGAAAGCTGATTACATGGGGTTCGACAGATGATCTGGGTCAAAGCTATGTGACATCTGGGAAGCATGGGGAAACACCGGAGCCTTTTCCTCTTCCAGCTGAAGTTTCTCTAGTTAAGGCAGCTGCAGGTTGGGCGCATTGTGTTGCAGTTACAGATATTGGAGGAGTTTACACATGGGGATGGAAAGAGTGTGTTCCCTCTGGGAAGGTCATTGCCGAACCATCTACGAGTGCAAACTTTGAAAAGGATGTATTGGAAAGGCAGAGTTCTTTCTTGACAGACCAAGTTAGCCCTCGCTCTCAAGGCTCACAATCCACTGGCGGAACCATGTCTGCTACTGAAGCTAGAGGAGCTGGAGAAGAAAATTCAAAGAGAAGAAGAGTATCTTCAGCAAAGCAAGCAGCTGAAAGTTCATCGTCTGGTGATGAAACTCTCTCAGCATTGCCATGTCTTGTGACTTTGAACCCAGGAGTTAGAATAGCCAATGTTGCTGCTGGAGGACGCCATACTCTAGCATTGTCAGATATGGGACAGGTGTGGGGATGGGGATATGGAGGTGAAGGGCAGCTTGGTCTGGGCTCACGGATACGTATGGTGTCCACCCCTCATCCTATACCTTGTATCAAGTCCTCTTCTTACGGGATCATGAATTCAGAGGAACACAGTTTCAGAGTACCTGGAAGTTATGTGAAAGGGATTGCCTGCGGAGGTCGACATAGTGCAGTAATAACAGCTGGAAGGATGTTCAGTCATTGGAACTATAAGATCCCGTCTTCCAAACTACATGATATATCAGAGGGCAAGCCTTCTGTATTCAAAGATGCTGGAGCACTACTTACTTTCGGTTGGGGGCTTTATGGACAGTGTGGACAAGGAAGTACAGATGATGAGCTAACCCCAATATGTGTCTCTTCATTACTCGGTATCCGGATAGAGAGTGTCGCTGCAGGACTGTGGCATACTGTCTGCATATCAGCTGATGGTGATGTTTATGCATTTGGGGGGAATCAGTTTGGACAGTTGGGAACTGGAGCTGATCAAGCCGAGACTATTCCTAGACTTTTGGATGCTCCTATTCTGGAAAATGCGAATGCAAAAATTGTTTCCTGTGGAGCTCGTCATAGTTGCATTATCACTGAGGATGCAAAAGTGTTTGGCTGGGGATGGAACAAGTATGGCCAGCTTGGCTTGGGTGATGTGATCGACCGCAACATTCCAGCGCAAGTCATAATTGATGGATGTGTCCCGAAAAACGTGGCATGTGGCTGGTGGCATACCTTGCTTCTGGCCGAACTACCCACTTGA
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 RCC1_2

Protein Analysis

500

Amino Acids

52.64

Weight (kDa)

5.61

Isoelectric Point (pI)

41.77

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
WD40_RLD PF25390 36 - 130 3.1e-12 RCC1-like domain
WD40_RLD PF25390 212 - 311 2.5e-14 RCC1-like domain
RCC1_2 PF13540 226 - 255 2.5e-07 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 243 - 309 8.5e-07 Regulator of chromosome condensation (RCC1) repeat
WD40_RLD PF25390 339 - 495 1.4e-34 RCC1-like domain
RCC1 PF00415 342 - 390 2e-11 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 377 - 406 8.3e-09 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 393 - 444 3.7e-11 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 434 - 460 8.9e-11 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 449 - 495 2.5e-12 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 314
AccI GTMKAC 1 cut(s) 910
AccIII TCCGGA 1 cut(s) 1125
AclWI GGATC 2 cut(s) 848, 958
AcoI YGGCCR 3 cut(s) 183, 1375, 1485
AcsI RAATTY 2 cut(s) 562, 847
AcuI CTGAAG 3 cut(s) 318, 558, 570
AcyI GRCGYC 1 cut(s) 700
AfaI GTAC 2 cut(s) 873, 1078
AgsI TTSAA 4 cut(s) 440, 567, 661, 1015
AjnI CCWGG 3 cut(s) 143, 664, 874
AjuI GAANNNNNNNTTGG 2 cut(s) 750, 782
Alw21I GWGCWC 3 cut(s) 85, 1030, 1315
Alw26I GTCTC 2 cut(s) 1111, 1238
AlwI GGATC 2 cut(s) 848, 958
Aor13HI TCCGGA 1 cut(s) 1125
AoxI GGCC 4 cut(s) 125, 183, 1375, 1485
ApeKI GCWGC 6 cut(s) 317, 320, 599, 689, 763, 1142
ApoI RAATTY 2 cut(s) 562, 847
AspLEI GCGC 2 cut(s) 334, 1420
AspS9I GGNCC 1 cut(s) 126
AsuC2I CCSGG 2 cut(s) 78, 129
AsuHPI GGTGA 5 cut(s) 146, 632, 767, 1193, 1403
BalI TGGCCA 2 cut(s) 185, 1377
BanII GRGCYC 3 cut(s) 85, 779, 1315
BbsI GAAGAC 1 cut(s) 963
Bbv12I GWGCWC 3 cut(s) 85, 1030, 1315
BbvI GCAGC 6 cut(s) 307, 329, 611, 676, 775, 1129
BccI CCATC 6 cut(s) 372, 427, 735, 1172, 1356, 1427
BceAI ACGGC 1 cut(s) 25
BcgI CGANNNNNNTGC 2 cut(s) 103, 137
BciT130I CCWGG 3 cut(s) 145, 666, 876
BciVI GTATCC 2 cut(s) 777, 1133
BclI TGATCA 1 cut(s) 1234
BcnI CCSGG 2 cut(s) 78, 129
BcoDI GTCTC 2 cut(s) 1111, 1238
BfaI CTAG 4 cut(s) 308, 543, 710, 1254
BfmI CTRYAG 2 cut(s) 321, 1143
BfuAI ACCTGC 1 cut(s) 314
BfuI GTATCC 2 cut(s) 777, 1133
BglI GCCNNNNNGGC 1 cut(s) 1383
Bme1390I CCNGG 5 cut(s) 78, 129, 145, 666, 876
BmgT120I GGNCC 1 cut(s) 126
BmiI GGNNCC 2 cut(s) 279, 523
BmrFI CCNGG 5 cut(s) 78, 129, 145, 666, 876
BmsI GCATC 3 cut(s) 1009, 1255, 1330
BpiI GAAGAC 1 cut(s) 963
BpmI CTGGAG 5 cut(s) 166, 573, 714, 1044, 1248
BpuEI CTTGAG 1 cut(s) 483
BpuMI CCSGG 2 cut(s) 78, 129
BsaAI YACGTR 1 cut(s) 788
BsaHI GRCGYC 1 cut(s) 700
BsaJI CCNNGG 2 cut(s) 180, 664
BsaWI WCCGGW 2 cut(s) 274, 1125
BsaXI ACNNNNNCTCC 2 cut(s) 36, 66
Bse1I ACTGG 2 cut(s) 520, 1231
Bse3DI GCAATG 2 cut(s) 408, 638
BseAI TCCGGA 1 cut(s) 1125
BseBI CCWGG 3 cut(s) 145, 666, 876
BseDI CCNNGG 2 cut(s) 180, 664
BseMI GCAATG 2 cut(s) 408, 638
BseMII CTCAG 3 cut(s) 183, 648, 1326
BseNI ACTGG 2 cut(s) 520, 1231
BseRI GAGGAG 3 cut(s) 44, 375, 561
BseXI GCAGC 6 cut(s) 307, 329, 611, 676, 775, 1129
BseYI CCCAGC 1 cut(s) 1356
BsgI GTGCAG 1 cut(s) 939
Bsh1285I CGRYCG 1 cut(s) 1405
BshFI GGCC 4 cut(s) 127, 185, 1377, 1487
BsiEI CGRYCG 1 cut(s) 1405
BsiHKAI GWGCWC 3 cut(s) 85, 1030, 1315
BsiSI CCGG 4 cut(s) 78, 129, 275, 1126
BslFI GGGAC 2 cut(s) 741, 1427
BsmAI GTCTC 2 cut(s) 1111, 1238
BsmFI GGGAC 2 cut(s) 741, 1427
BsmI GAATGC 1 cut(s) 1294
BsnI GGCC 4 cut(s) 127, 185, 1377, 1487
Bsp1286I GDGCHC 4 cut(s) 85, 779, 1030, 1315
Bsp13I TCCGGA 1 cut(s) 1125
Bsp143I GATC 5 cut(s) 229, 840, 963, 1234, 1398
Bsp19I CCATGG 1 cut(s) 180
BspANI GGCC 4 cut(s) 127, 185, 1377, 1487
BspCNI CTCAG 3 cut(s) 184, 647, 1327
BspEI TCCGGA 1 cut(s) 1125
BspHI TCATGA 1 cut(s) 843
BspLI GGNNCC 2 cut(s) 279, 523
BspMAI CTGCAG 2 cut(s) 325, 1147
BspMI ACCTGC 1 cut(s) 314
BspPI GGATC 2 cut(s) 848, 958
BsrDI GCAATG 2 cut(s) 408, 638
BsrI ACTGG 2 cut(s) 520, 1231
BssECI CCNNGG 2 cut(s) 180, 664
BssMI GATC 5 cut(s) 229, 840, 963, 1234, 1398
BssNI GRCGYC 1 cut(s) 700
BssT1I CCWWGG 1 cut(s) 180
Bst2UI CCWGG 3 cut(s) 145, 666, 876
Bst4CI ACNGT 6 cut(s) 118, 863, 1062, 1152, 1162, 1218
Bst6I CTCTTC 4 cut(s) 294, 571, 835, 1114
BstACI GRCGYC 1 cut(s) 700
BstAPI GCANNNNNTGC 1 cut(s) 1477
BstBAI YACGTR 1 cut(s) 788
BstC8I GCNNGC 4 cut(s) 597, 901, 1001, 1379
BstDEI CTNAG 3 cut(s) 192, 634, 1335
BstDSI CCRYGG 1 cut(s) 180
BstHHI GCGC 2 cut(s) 334, 1420
BstKTI GATC 5 cut(s) 232, 843, 966, 1237, 1401
BstMAI GTCTC 2 cut(s) 1111, 1238
BstMBI GATC 5 cut(s) 229, 840, 963, 1234, 1398
BstMCI CGRYCG 1 cut(s) 1405
BstNI CCWGG 3 cut(s) 145, 666, 876
BstNSI RCATGY 1 cut(s) 1461
BstSCI CCNGG 5 cut(s) 76, 127, 143, 664, 874
BstSFI CTRYAG 2 cut(s) 321, 1143
BstSNI TACGTA 1 cut(s) 788
BstV1I GCAGC 6 cut(s) 307, 329, 611, 676, 775, 1129
BstV2I GAAGAC 1 cut(s) 963
BstX2I RGATCY 1 cut(s) 963
BstYI RGATCY 1 cut(s) 963
BsuI GTATCC 2 cut(s) 777, 1133
BsuRI GGCC 4 cut(s) 127, 185, 1377, 1487
BtgI CCRYGG 1 cut(s) 180
BtsIMutI CAGTG 3 cut(s) 513, 1067, 1332
BveI ACCTGC 1 cut(s) 314
Cac8I GCNNGC 4 cut(s) 597, 901, 1001, 1379
CciI TCATGA 1 cut(s) 843
CfoI GCGC 2 cut(s) 334, 1420
Cfr13I GGNCC 1 cut(s) 126
CseI GACGC 1 cut(s) 708
Csp6I GTAC 2 cut(s) 872, 1077
CviAII CATG 9 cut(s) 181, 213, 263, 372, 526, 645, 844, 983, 1458
CviQI GTAC 2 cut(s) 872, 1077
DdeI CTNAG 3 cut(s) 192, 634, 1335
DpnI GATC 5 cut(s) 231, 842, 965, 1236, 1400
DpnII GATC 5 cut(s) 229, 840, 963, 1234, 1398
EaeI YGGCCR 3 cut(s) 183, 1375, 1485
Eam1104I CTCTTC 4 cut(s) 294, 571, 835, 1114
EarI CTCTTC 4 cut(s) 294, 571, 835, 1114
EciI GGCGGA 3 cut(s) 27, 57, 534
Ecl136II GAGCTC 2 cut(s) 83, 1313
Eco105I TACGTA 1 cut(s) 788
Eco130I CCWWGG 1 cut(s) 180
Eco24I GRGCYC 3 cut(s) 85, 779, 1315
Eco53kI GAGCTC 2 cut(s) 83, 1313
Eco57I CTGAAG 3 cut(s) 318, 558, 570
EcoICRI GAGCTC 2 cut(s) 83, 1313
EcoRI GAATTC 1 cut(s) 847
EcoRII CCWGG 3 cut(s) 143, 664, 874
EcoT14I CCWWGG 1 cut(s) 180
EcoT22I ATGCAT 1 cut(s) 1195
EcoT38I GRGCYC 3 cut(s) 85, 779, 1315
ErhI CCWWGG 1 cut(s) 180
FaeI CATG 9 cut(s) 184, 216, 266, 375, 529, 648, 847, 986, 1461
FalI AAGNNNNNCTT 4 cut(s) 568, 600, 750, 782
FaqI GGGAC 2 cut(s) 741, 1427
FatI CATG 9 cut(s) 180, 212, 262, 371, 525, 644, 843, 982, 1457
FbaI TGATCA 1 cut(s) 1234
FblI GTMKAC 1 cut(s) 910
FriOI GRGCYC 3 cut(s) 85, 779, 1315
FspBI CTAG 4 cut(s) 308, 543, 710, 1254
GlaI GCGC 2 cut(s) 333, 1419
GsaI CCCAGC 1 cut(s) 1360
GsuI CTGGAG 5 cut(s) 166, 573, 714, 1044, 1248
HaeIII GGCC 4 cut(s) 127, 185, 1377, 1487
HapII CCGG 4 cut(s) 78, 129, 275, 1126
HgaI GACGC 1 cut(s) 708
HhaI GCGC 2 cut(s) 334, 1420
Hin1I GRCGYC 1 cut(s) 700
Hin1II CATG 9 cut(s) 184, 216, 266, 375, 529, 648, 847, 986, 1461
Hin6I GCGC 2 cut(s) 332, 1418
HinP1I GCGC 2 cut(s) 332, 1418
HincII GTYRAC 1 cut(s) 911
HindII GTYRAC 1 cut(s) 911
HinfI GANTC 2 cut(s) 194, 1204
HpaII CCGG 4 cut(s) 78, 129, 275, 1126
HphI GGTGA 5 cut(s) 146, 632, 767, 1193, 1403
Hpy166II GTNNAC 4 cut(s) 367, 798, 911, 1067
Hpy188I TCNGA 5 cut(s) 193, 721, 853, 869, 994
Hpy188III TCNNGA 6 cut(s) 198, 472, 844, 1126, 1277, 1444
Hpy8I GTNNAC 4 cut(s) 367, 798, 911, 1067
Hpy99I CGWCG 1 cut(s) 118
HpyAV CCTTC 5 cut(s) 43, 397, 752, 930, 1014
HpyCH4III ACNGT 6 cut(s) 118, 863, 1062, 1152, 1162, 1218
HpyCH4IV ACGT 2 cut(s) 787, 1452
HpyF3I CTNAG 3 cut(s) 192, 634, 1335
HpySE526I ACGT 2 cut(s) 787, 1452
Hsp92I GRCGYC 1 cut(s) 700
Hsp92II CATG 9 cut(s) 184, 216, 266, 375, 529, 648, 847, 986, 1461
HspAI GCGC 2 cut(s) 332, 1418
Kpn2I TCCGGA 1 cut(s) 1125
Ksp22I TGATCA 1 cut(s) 1234
Kzo9I GATC 5 cut(s) 229, 840, 963, 1234, 1398
LmnI GCTCC 7 cut(s) 80, 277, 548, 1025, 1229, 1273, 1310
Lsp1109I GCAGC 6 cut(s) 307, 329, 611, 676, 775, 1129
LweI GCATC 3 cut(s) 1009, 1255, 1330
MaeI CTAG 4 cut(s) 308, 543, 710, 1254
MaeII ACGT 2 cut(s) 787, 1452
MaeIII GTNAC 3 cut(s) 247, 346, 652
MalI GATC 5 cut(s) 231, 842, 965, 1236, 1400
MboI GATC 5 cut(s) 229, 840, 963, 1234, 1398
MboII GAAGA 9 cut(s) 65, 281, 569, 576, 585, 588, 822, 963, 1101
MflI RGATCY 1 cut(s) 963
MhlI GDGCHC 4 cut(s) 85, 779, 1030, 1315
MlsI TGGCCA 2 cut(s) 185, 1377
MluCI AATT 4 cut(s) 562, 847, 1296, 1428
MluNI TGGCCA 2 cut(s) 185, 1377
MlyI GAGTC 1 cut(s) 203
Mox20I TGGCCA 2 cut(s) 185, 1377
Mph1103I ATGCAT 1 cut(s) 1195
MroI TCCGGA 1 cut(s) 1125
MscI TGGCCA 2 cut(s) 185, 1377
MseI TTAA 1 cut(s) 312
MslI CAYNNNNRTG 2 cut(s) 376, 643
Msp20I TGGCCA 2 cut(s) 185, 1377
MspA1I CMGCKG 5 cut(s) 296, 320, 602, 932, 1175
MspI CCGG 4 cut(s) 78, 129, 275, 1126
MspR9I CCNGG 5 cut(s) 78, 129, 145, 666, 876
Mva1269I GAATGC 1 cut(s) 1294
MvaI CCWGG 3 cut(s) 145, 666, 876
NciI CCSGG 2 cut(s) 78, 129
NcoI CCATGG 1 cut(s) 180
NdeII GATC 5 cut(s) 229, 840, 963, 1234, 1398
NlaIII CATG 9 cut(s) 184, 216, 266, 375, 529, 648, 847, 986, 1461
NlaIV GGNNCC 2 cut(s) 279, 523
NmeAIII GCCGAG 1 cut(s) 1267
NmuCI GTSAC 2 cut(s) 247, 652
NsiI ATGCAT 1 cut(s) 1195
NspI RCATGY 1 cut(s) 1461
PagI TCATGA 1 cut(s) 843
PctI GAATGC 1 cut(s) 1294
PfeI GAWTC 1 cut(s) 1204
PfoI TCCNGGA 2 cut(s) 76, 143
PleI GAGTC 1 cut(s) 202
PpsI GAGTC 1 cut(s) 202
Ppu21I YACGTR 1 cut(s) 788
Psp124BI GAGCTC 2 cut(s) 85, 1315
Psp6I CCWGG 3 cut(s) 143, 664, 874
PspFI CCCAGC 1 cut(s) 1356
PspGI CCWGG 3 cut(s) 143, 664, 874
PspN4I GGNNCC 2 cut(s) 279, 523
PspPI GGNCC 1 cut(s) 126
PstI CTGCAG 2 cut(s) 325, 1147
PsuI RGATCY 1 cut(s) 963
PvuII CAGCTG 5 cut(s) 296, 320, 602, 932, 1175
RsaI GTAC 2 cut(s) 873, 1078
RsaNI GTAC 2 cut(s) 872, 1077
RseI CAYNNNNRTG 2 cut(s) 376, 643
SacI GAGCTC 2 cut(s) 85, 1315
SalI GTCGAC 1 cut(s) 909
SaqAI TTAA 1 cut(s) 312
Sau3AI GATC 5 cut(s) 229, 840, 963, 1234, 1398
Sau96I GGNCC 1 cut(s) 126
SchI GAGTC 1 cut(s) 203
ScrFI CCNGG 5 cut(s) 78, 129, 145, 666, 876
SduI GDGCHC 4 cut(s) 85, 779, 1030, 1315
SfaNI GCATC 3 cut(s) 1009, 1255, 1330
SfcI CTRYAG 2 cut(s) 321, 1143
SmiMI CAYNNNNRTG 2 cut(s) 376, 643
SmlI CTYRAG 1 cut(s) 498
SmoI CTYRAG 1 cut(s) 498
SnaBI TACGTA 1 cut(s) 788
Sse9I AATT 4 cut(s) 562, 847, 1296, 1428
SspMI CTAG 4 cut(s) 308, 543, 710, 1254
SstI GAGCTC 2 cut(s) 85, 1315
StyD4I CCNGG 5 cut(s) 76, 127, 143, 664, 874
StyI CCWWGG 1 cut(s) 180
TaaI ACNGT 6 cut(s) 118, 863, 1062, 1152, 1162, 1218
TaiI ACGT 2 cut(s) 790, 1455
TaqI TCGA 3 cut(s) 221, 910, 1401
TasI AATT 4 cut(s) 562, 847, 1296, 1428
TatI WGTACW 1 cut(s) 1076
TauI GCSGC 5 cut(s) 91, 103, 127, 165, 174
TfiI GAWTC 1 cut(s) 1204
Tru1I TTAA 1 cut(s) 312
Tru9I TTAA 1 cut(s) 312
TscAI CASTG 3 cut(s) 520, 1067, 1339
TseFI GTSAC 2 cut(s) 247, 652
TseI GCWGC 6 cut(s) 317, 320, 599, 689, 763, 1142
Tsp45I GTSAC 2 cut(s) 247, 652
TspDTI ATGAA 5 cut(s) 17, 600, 639, 860, 1101
TspGWI ACGGA 1 cut(s) 796
TspRI CASTG 3 cut(s) 520, 1067, 1339
XapI RAATTY 2 cut(s) 562, 847
XceI RCATGY 1 cut(s) 1461
XmiI GTMKAC 1 cut(s) 910
XspI CTAG 4 cut(s) 308, 543, 710, 1254
Zsp2I ATGCAT 1 cut(s) 1195
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.