Rw5G021740

Regulator of chromosome condensation (RCC1) repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0008686
Physical Location & Seq
Forward (+)
29546467 .. 29550288
3822 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G021740.1

Sequence Viewer

Length: 1476 bp
ATGGCGGGGTATAGGCCTATTTCAATTGAGGACTTGCCGACACATTTGGTTTTAGAAGTCTTGTGCTCCGGGAGGCTCAGTGCCGTTGATCTTTTGCATTTAGAGTCGACTTCTAGGACATTCGGAGGGAGTGGGGGGTTGTATCCTCACAAGTTTCGGTCATTGGTGGATTATGCGGCGTTTCAGCTGTGTATTTCCCATTCTGTATATGCTAAAATGGAAGAGAATGCTCAGACAGTGCTGTCTGAGCGGTGCGGTGGCAAGTGGAAGAGGATTTTGAGGTTCTTGCAATCCGTGGAGCAATCGTCTGACATGGTGGAGACTTCAGCAGGCAATATGCATATTACCACTGGAAGGTATCACACTCTGCTAATAAGCAATTCATCAGTCTACTCGTGTGGTTCCAGCTTATGTGGTGTTCTTGGCCAAGGTCCTGAGACTAAACTATGTGTGACATTTACCCGGATTAGTTTTCCATCTCCAGCACATGTGGTCCAAGTCTCAGCCTCCCACAACCATGCTGCTTTCGTTATGCAATCTGGAGAGGTTTTCACATGTGGGGACAATTCGTCATTTTGTTGTGGGCATAAAGATACAAACCGGCCAATATTTAGGCCTAGGCTCGTAGAGGCAATGAAGGGAATTCCTTGCAAGCAGGTTGTTGCAGGGCTTAATTTTACAGCTTTCCTTACAAGACAAGGCCATGTTTATACATGTGGGGCCAATACACATGGACAACTCGGTCATGGAGACACCACAGATAGCCCAACTCCCAAAATTATTGAATTTCTCAAGCAAATTGGCTCCATAATTCAGATTGCTGCTGGTCCAAGTTACGTCTTAGCTGTAACTGACTATGGAGTAGTCTACTCTTTTGGGTCAGGTTCTAATTTATGTCTTGGCCATGGAGAGCAGCATGATGAGTTCCAACCACGTGCAATCCAATCATTTAGAAGGAAGGGTATTCATGTAGTTCGAGTCTCTGCAGGTGACGAGCATGCAGTGGCACTTGATTCCAGTGGATTTGTATATACCTGGGGTAAAGGGTACTGTGGTGCATTAGGCCATGGGGATGAGATTGACAAGACTACCCCAGAACTCTTGAGCAGAGTTCAAAGCCAGCTGGCCGTGCAGGTGTGTGCAAGAAAACGGAAGACCTTTGTTCTAATGGATAATGGTTTAGTATATGGTTGTGGTTGGATGGGGTTTGGTAGCCTTGGGTTTACAGACAGGGGACTATCTGACAAAATCTTGAGCCCTCGCATCCTTGATAGCTTAAGACCTCATCATGTTTCTCAGATTAGCACCGGGCTGTACCATACTGTTGCTATCACTAACTCTGGACAACTCTTTGGATTCGGAGATAATGAAAGAGCACAACTTGGGCACGATACACTGAGAGCATGCCTCAACCCAACTGAAATTTTTATAGCAGAAATGACTGATGAGGTGAATCTTGTTTCAGAAAACCTCTGA
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

491

Amino Acids

53.35

Weight (kDa)

6.88

Isoelectric Point (pI)

38.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
WD40_RLD PF25390 113 - 317 2.3e-43 RCC1-like domain
RCC1_2 PF13540 164 - 191 5e-06 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 180 - 230 1.4e-07 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 218 - 246 1.3e-08 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 233 - 283 3.7e-13 Regulator of chromosome condensation (RCC1) repeat
Alsin_RLD PF25384 280 - 484 6.6e-09 Alsin RCC1-like domain
RCC1 PF00415 287 - 337 4.2e-12 Regulator of chromosome condensation (RCC1) repeat
WD40_RLD PF25390 323 - 475 6.9e-32 RCC1-like domain
RCC1_2 PF13540 324 - 352 8.9e-07 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 341 - 381 2.4e-06 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 431 - 460 7.2e-08 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)
AarI CACCTGC 2 cut(s) 977, 1123
AasI GACNNNNNNGTC 2 cut(s) 241, 741
Acc36I ACCTGC 3 cut(s) 646, 977, 1123
AccBSI CCGCTC 1 cut(s) 250
AccI GTMKAC 3 cut(s) 107, 390, 867
AciI CCGC 4 cut(s) 5, 176, 250, 255
AcoI YGGCCR 4 cut(s) 424, 602, 901, 1125
AcsI RAATTY 3 cut(s) 642, 785, 1422
AcuI CTGAAG 1 cut(s) 309
AcvI CACGTG 1 cut(s) 935
AfaI GTAC 2 cut(s) 1049, 1316
AfiI CCNNNNNNNGG 1 cut(s) 354
AflII CTTAAG 1 cut(s) 1276
AflIII ACRYGT 3 cut(s) 487, 554, 713
AgsI TTSAA 3 cut(s) 24, 785, 1115
AhdI GACNNNNNGTC 1 cut(s) 568
AjnI CCWGG 1 cut(s) 1034
AluBI AGCT 6 cut(s) 187, 408, 683, 845, 1123, 1275
AluI AGCT 6 cut(s) 187, 408, 683, 845, 1123, 1275
Alw21I GWGCWC 2 cut(s) 68, 1378
Alw26I GTCTC 5 cut(s) 314, 431, 505, 744, 985
AoxI GGCC 9 cut(s) 14, 424, 602, 614, 700, 720, 901, 1063, 1125
ApeKI GCWGC 3 cut(s) 521, 821, 913
ApoI RAATTY 3 cut(s) 642, 785, 1422
AspA2I CCTAGG 1 cut(s) 617
AspS9I GGNCC 4 cut(s) 431, 493, 720, 827
AsuC2I CCSGG 3 cut(s) 70, 463, 1309
AsuHPI GGTGA 2 cut(s) 1001, 1462
AvaII GGWCC 3 cut(s) 431, 493, 827
AvrII CCTAGG 1 cut(s) 617
BaeGI GKGCMC 1 cut(s) 1389
BaeI ACNNNNGTAYC 2 cut(s) 1039, 1072
BalI TGGCCA 2 cut(s) 426, 903
BanII GRGCYC 1 cut(s) 1259
BauI CACGAG 1 cut(s) 394
BbrPI CACGTG 1 cut(s) 935
BbsI GAAGAC 1 cut(s) 1160
Bbv12I GWGCWC 2 cut(s) 68, 1378
BbvI GCAGC 3 cut(s) 508, 808, 925
BccI CCATC 2 cut(s) 484, 1195
BceAI ACGGC 2 cut(s) 68, 1112
BciT130I CCWGG 1 cut(s) 1036
BciVI GTATCC 1 cut(s) 153
BcnI CCSGG 3 cut(s) 70, 463, 1309
BcoDI GTCTC 5 cut(s) 314, 431, 505, 744, 985
BfaI CTAG 2 cut(s) 114, 618
BfmI CTRYAG 1 cut(s) 984
BfrI CTTAAG 1 cut(s) 1276
BfuAI ACCTGC 3 cut(s) 646, 977, 1123
BfuI GTATCC 1 cut(s) 153
BisI GCNGC 4 cut(s) 177, 522, 822, 914
BlnI CCTAGG 1 cut(s) 617
BlsI GCNGC 4 cut(s) 178, 523, 823, 915
Bme1390I CCNGG 4 cut(s) 70, 463, 1036, 1309
Bme18I GGWCC 3 cut(s) 431, 493, 827
BmeRI GACNNNNNGTC 1 cut(s) 568
BmgT120I GGNCC 4 cut(s) 431, 493, 720, 827
BmiI GGNNCC 3 cut(s) 403, 721, 805
BmrFI CCNGG 4 cut(s) 70, 463, 1036, 1309
BmsI GCATC 1 cut(s) 1272
BpiI GAAGAC 1 cut(s) 1160
BplI GAGNNNNNCTC 2 cut(s) 1392, 1424
BpmI CTGGAG 2 cut(s) 465, 561
BpuEI CTTGAG 3 cut(s) 776, 1123, 1273
BpuMI CCSGG 3 cut(s) 70, 463, 1309
BsaAI YACGTR 1 cut(s) 935
BsaJI CCNNGG 7 cut(s) 294, 427, 617, 904, 1035, 1066, 1216
BsaXI ACNNNNNCTCC 4 cut(s) 64, 94, 290, 320
Bsc4I CCNNNNNNNGG 1 cut(s) 354
Bse118I RCCGGY 1 cut(s) 600
Bse1I ACTGG 2 cut(s) 355, 1017
Bse3DI GCAATG 1 cut(s) 639
BseBI CCWGG 1 cut(s) 1036
BseDI CCNNGG 7 cut(s) 294, 427, 617, 904, 1035, 1066, 1216
BseGI GGATG 3 cut(s) 1078, 1206, 1263
BseLI CCNNNNNNNGG 1 cut(s) 354
BseMI GCAATG 1 cut(s) 639
BseMII CTCAG 7 cut(s) 91, 237, 245, 426, 516, 1310, 1388
BseNI ACTGG 2 cut(s) 355, 1017
BseSI GKGCMC 1 cut(s) 1389
BseXI GCAGC 3 cut(s) 508, 808, 925
BsgI GTGCAG 1 cut(s) 1151
BshFI GGCC 9 cut(s) 16, 426, 604, 616, 702, 722, 903, 1065, 1127
BsiHKAI GWGCWC 2 cut(s) 68, 1378
BsiSI CCGG 4 cut(s) 69, 463, 601, 1308
BslFI GGGAC 2 cut(s) 575, 1248
BslI CCNNNNNNNGG 1 cut(s) 354
BsmAI GTCTC 5 cut(s) 314, 431, 505, 744, 985
BsmFI GGGAC 2 cut(s) 575, 1248
BsmI GAATGC 1 cut(s) 232
BsnI GGCC 9 cut(s) 16, 426, 604, 616, 702, 722, 903, 1065, 1127
Bsp1286I GDGCHC 4 cut(s) 68, 1259, 1378, 1389
Bsp143I GATC 1 cut(s) 88
Bsp19I CCATGG 2 cut(s) 904, 1066
BspACI CCGC 4 cut(s) 5, 176, 250, 255
BspANI GGCC 9 cut(s) 16, 426, 604, 616, 702, 722, 903, 1065, 1127
BspCNI CTCAG 7 cut(s) 90, 238, 244, 427, 515, 1309, 1389
BspLI GGNNCC 3 cut(s) 403, 721, 805
BspMAI CTGCAG 1 cut(s) 988
BspMI ACCTGC 3 cut(s) 646, 977, 1123
BspTI CTTAAG 1 cut(s) 1276
BsrBI CCGCTC 1 cut(s) 250
BsrDI GCAATG 1 cut(s) 639
BsrFI RCCGGY 1 cut(s) 600
BsrI ACTGG 2 cut(s) 355, 1017
BssAI RCCGGY 1 cut(s) 600
BssECI CCNNGG 7 cut(s) 294, 427, 617, 904, 1035, 1066, 1216
BssMI GATC 1 cut(s) 88
BssSI CACGAG 1 cut(s) 394
BssT1I CCWWGG 5 cut(s) 427, 617, 904, 1066, 1216
Bst2BI CACGAG 1 cut(s) 394
Bst2UI CCWGG 1 cut(s) 1036
Bst4CI ACNGT 3 cut(s) 238, 1052, 1324
Bst6I CTCTTC 2 cut(s) 216, 263
BstAFI CTTAAG 1 cut(s) 1276
BstBAI YACGTR 1 cut(s) 935
BstC8I GCNNGC 6 cut(s) 331, 653, 999, 1121, 1125, 1405
BstDEI CTNAG 8 cut(s) 77, 231, 246, 435, 502, 841, 1296, 1397
BstDSI CCRYGG 3 cut(s) 294, 904, 1066
BstF5I GGATG 3 cut(s) 1078, 1206, 1263
BstKTI GATC 1 cut(s) 91
BstMAI GTCTC 5 cut(s) 314, 431, 505, 744, 985
BstMBI GATC 1 cut(s) 88
BstMWI GCNNNNNNNGC 2 cut(s) 247, 1129
BstNI CCWGG 1 cut(s) 1036
BstNSI RCATGY 5 cut(s) 491, 558, 717, 1001, 1407
BstSCI CCNGG 4 cut(s) 68, 461, 1034, 1307
BstSFI CTRYAG 1 cut(s) 984
BstSLI GKGCMC 1 cut(s) 1389
BstV1I GCAGC 3 cut(s) 508, 808, 925
BstV2I GAAGAC 1 cut(s) 1160
BsuI GTATCC 1 cut(s) 153
BsuRI GGCC 9 cut(s) 16, 426, 604, 616, 702, 722, 903, 1065, 1127
BtgI CCRYGG 3 cut(s) 294, 904, 1066
BtsCI GGATG 3 cut(s) 1078, 1206, 1263
BtsI GCAGTG 1 cut(s) 1008
BtsIMutI CAGTG 6 cut(s) 85, 243, 348, 1008, 1024, 1394
BveI ACCTGC 3 cut(s) 646, 977, 1123
Cac8I GCNNGC 6 cut(s) 331, 653, 999, 1121, 1125, 1405
Cfr10I RCCGGY 1 cut(s) 600
Cfr13I GGNCC 4 cut(s) 431, 493, 720, 827
Csp6I GTAC 2 cut(s) 1048, 1315
CviQI GTAC 2 cut(s) 1048, 1315
DdeI CTNAG 8 cut(s) 77, 231, 246, 435, 502, 841, 1296, 1397
DpnI GATC 1 cut(s) 90
DpnII GATC 1 cut(s) 88
DrdI GACNNNNNNGTC 2 cut(s) 241, 741
DriI GACNNNNNGTC 1 cut(s) 568
DseDI GACNNNNNNGTC 2 cut(s) 241, 741
EaeI YGGCCR 4 cut(s) 424, 602, 901, 1125
Eam1104I CTCTTC 2 cut(s) 216, 263
Eam1105I GACNNNNNGTC 1 cut(s) 568
EarI CTCTTC 2 cut(s) 216, 263
Eco130I CCWWGG 5 cut(s) 427, 617, 904, 1066, 1216
Eco147I AGGCCT 2 cut(s) 16, 616
Eco24I GRGCYC 1 cut(s) 1259
Eco47I GGWCC 3 cut(s) 431, 493, 827
Eco57I CTGAAG 1 cut(s) 309
Eco72I CACGTG 1 cut(s) 935
EcoO109I RGGNCCY 1 cut(s) 431
EcoRI GAATTC 1 cut(s) 642
EcoRII CCWGG 1 cut(s) 1034
EcoT14I CCWWGG 5 cut(s) 427, 617, 904, 1066, 1216
EcoT22I ATGCAT 1 cut(s) 342
EcoT38I GRGCYC 1 cut(s) 1259
ErhI CCWWGG 5 cut(s) 427, 617, 904, 1066, 1216
FaqI GGGAC 2 cut(s) 575, 1248
FblI GTMKAC 3 cut(s) 107, 390, 867
Fnu4HI GCNGC 4 cut(s) 177, 522, 822, 914
FokI GGATG 3 cut(s) 1085, 1213, 1250
FriOI GRGCYC 1 cut(s) 1259
Fsp4HI GCNGC 4 cut(s) 177, 522, 822, 914
FspBI CTAG 2 cut(s) 114, 618
GluI GCNGC 4 cut(s) 177, 522, 822, 914
GsuI CTGGAG 2 cut(s) 465, 561
HaeIII GGCC 9 cut(s) 16, 426, 604, 616, 702, 722, 903, 1065, 1127
HapII CCGG 4 cut(s) 69, 463, 601, 1308
HincII GTYRAC 1 cut(s) 108
HindII GTYRAC 1 cut(s) 108
HinfI GANTC 5 cut(s) 104, 978, 1013, 1356, 1453
HpaII CCGG 4 cut(s) 69, 463, 601, 1308
HphI GGTGA 2 cut(s) 1001, 1462
Hpy166II GTNNAC 4 cut(s) 108, 391, 868, 1224
Hpy188III TCNNGA 5 cut(s) 434, 540, 1102, 1252, 1341
Hpy8I GTNNAC 4 cut(s) 108, 391, 868, 1224
HpyAV CCTTC 4 cut(s) 348, 631, 948, 952
HpyCH4III ACNGT 3 cut(s) 238, 1052, 1324
HpyCH4IV ACGT 2 cut(s) 837, 934
HpyF10VI GCNNNNNNNGC 2 cut(s) 247, 1129
HpyF3I CTNAG 8 cut(s) 77, 231, 246, 435, 502, 841, 1296, 1397
HpySE526I ACGT 2 cut(s) 837, 934
Kzo9I GATC 1 cut(s) 88
LmnI GCTCC 3 cut(s) 71, 298, 809
Lsp1109I GCAGC 3 cut(s) 508, 808, 925
LweI GCATC 1 cut(s) 1272
MaeI CTAG 2 cut(s) 114, 618
MaeII ACGT 2 cut(s) 837, 934
MaeIII GTNAC 4 cut(s) 451, 833, 847, 989
MalI GATC 1 cut(s) 90
MbiI CCGCTC 1 cut(s) 250
MboI GATC 1 cut(s) 88
MboII GAAGA 3 cut(s) 233, 280, 1165
MfeI CAATTG 1 cut(s) 24
MhlI GDGCHC 4 cut(s) 68, 1259, 1378, 1389
MlsI TGGCCA 2 cut(s) 426, 903
MluNI TGGCCA 2 cut(s) 426, 903
MlyI GAGTC 2 cut(s) 113, 987
MmeI TCCRAC 2 cut(s) 952, 1178
Mox20I TGGCCA 2 cut(s) 426, 903
Mph1103I ATGCAT 1 cut(s) 342
MscI TGGCCA 2 cut(s) 426, 903
MseI TTAA 2 cut(s) 672, 1277
MslI CAYNNNNRTG 2 cut(s) 516, 1071
Msp20I TGGCCA 2 cut(s) 426, 903
MspA1I CMGCKG 2 cut(s) 187, 1123
MspCI CTTAAG 1 cut(s) 1276
MspI CCGG 4 cut(s) 69, 463, 601, 1308
MspR9I CCNGG 4 cut(s) 70, 463, 1036, 1309
MunI CAATTG 1 cut(s) 24
Mva1269I GAATGC 1 cut(s) 232
MvaI CCWGG 1 cut(s) 1036
MwoI GCNNNNNNNGC 2 cut(s) 247, 1129
NciI CCSGG 3 cut(s) 70, 463, 1309
NcoI CCATGG 2 cut(s) 904, 1066
NdeII GATC 1 cut(s) 88
NlaIV GGNNCC 3 cut(s) 403, 721, 805
NmuCI GTSAC 2 cut(s) 451, 989
NsiI ATGCAT 1 cut(s) 342
NspI RCATGY 5 cut(s) 491, 558, 717, 1001, 1407
PaeI GCATGC 2 cut(s) 1001, 1407
PaqCI CACCTGC 2 cut(s) 977, 1123
PceI AGGCCT 2 cut(s) 16, 616
PciI ACATGT 3 cut(s) 487, 554, 713
PctI GAATGC 1 cut(s) 232
PfeI GAWTC 3 cut(s) 1013, 1356, 1453
PfoI TCCNGGA 1 cut(s) 68
PkrI GCNGC 4 cut(s) 178, 523, 823, 915
PleI GAGTC 2 cut(s) 112, 986
PmaCI CACGTG 1 cut(s) 935
PmlI CACGTG 1 cut(s) 935
PpsI GAGTC 2 cut(s) 112, 986
Ppu21I YACGTR 1 cut(s) 935
PpuMI RGGWCCY 1 cut(s) 431
PscI ACATGT 3 cut(s) 487, 554, 713
Psp5II RGGWCCY 1 cut(s) 431
Psp6I CCWGG 1 cut(s) 1034
PspCI CACGTG 1 cut(s) 935
PspGI CCWGG 1 cut(s) 1034
PspN4I GGNNCC 3 cut(s) 403, 721, 805
PspPI GGNCC 4 cut(s) 431, 493, 720, 827
PspPPI RGGWCCY 1 cut(s) 431
PstI CTGCAG 1 cut(s) 988
PvuII CAGCTG 2 cut(s) 187, 1123
RsaI GTAC 2 cut(s) 1049, 1316
RsaNI GTAC 2 cut(s) 1048, 1315
RseI CAYNNNNRTG 2 cut(s) 516, 1071
SalI GTCGAC 1 cut(s) 106
SaqAI TTAA 2 cut(s) 672, 1277
SatI GCNGC 4 cut(s) 177, 522, 822, 914
Sau3AI GATC 1 cut(s) 88
Sau96I GGNCC 4 cut(s) 431, 493, 720, 827
SchI GAGTC 2 cut(s) 113, 987
ScrFI CCNGG 4 cut(s) 70, 463, 1036, 1309
SduI GDGCHC 4 cut(s) 68, 1259, 1378, 1389
SfaNI GCATC 1 cut(s) 1272
SfcI CTRYAG 1 cut(s) 984
SinI GGWCC 3 cut(s) 431, 493, 827
SmiMI CAYNNNNRTG 2 cut(s) 516, 1071
SmlI CTYRAG 4 cut(s) 791, 1102, 1252, 1276
SmoI CTYRAG 4 cut(s) 791, 1102, 1252, 1276
SphI GCATGC 2 cut(s) 1001, 1407
SseBI AGGCCT 2 cut(s) 16, 616
SsiI CCGC 4 cut(s) 5, 176, 250, 255
SspI AATATT 1 cut(s) 609
SspMI CTAG 2 cut(s) 114, 618
StuI AGGCCT 2 cut(s) 16, 616
StyD4I CCNGG 4 cut(s) 68, 461, 1034, 1307
StyI CCWWGG 5 cut(s) 427, 617, 904, 1066, 1216
TaaI ACNGT 3 cut(s) 238, 1052, 1324
TaiI ACGT 2 cut(s) 840, 937
TaqI TCGA 2 cut(s) 107, 976
TaqII GACCGA 2 cut(s) 147, 731
TauI GCSGC 1 cut(s) 179
TfiI GAWTC 3 cut(s) 1013, 1356, 1453
Tru1I TTAA 2 cut(s) 672, 1277
Tru9I TTAA 2 cut(s) 672, 1277
TscAI CASTG 6 cut(s) 85, 243, 355, 1008, 1024, 1401
TseFI GTSAC 2 cut(s) 451, 989
TseI GCWGC 3 cut(s) 521, 821, 913
Tsp45I GTSAC 2 cut(s) 451, 989
TspDTI ATGAA 4 cut(s) 372, 650, 956, 1383
TspGWI ACGGA 2 cut(s) 283, 1165
TspRI CASTG 6 cut(s) 85, 243, 355, 1008, 1024, 1401
Vha464I CTTAAG 1 cut(s) 1276
VpaK11BI GGWCC 3 cut(s) 431, 493, 827
XapI RAATTY 3 cut(s) 642, 785, 1422
XceI RCATGY 5 cut(s) 491, 558, 717, 1001, 1407
XmaJI CCTAGG 1 cut(s) 617
XmiI GTMKAC 3 cut(s) 107, 390, 867
XspI CTAG 2 cut(s) 114, 618
Zsp2I ATGCAT 1 cut(s) 342
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.