Rh1DG009900

Regulator of chromosome condensation (RCC1) repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1D
OG0000689
Physical Location & Seq
Reverse (-)
1603738 .. 1636001
32264 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1DG009900.1

Sequence Viewer

Length: 792 bp
ATGGAATTGTTAGTGGTGCCTAGGTTTCATGGTGGCGACGGTGATAGGGAAGACGAAGCTGCATTCTGGCTCGGCGCTCGGGACAGGGATGTCACCGTCACCGGTGTCCAGCTCACCAGCTCTCCTGGGGTTGAGGCCGTCGTCCCGGGAATATGTATGAAGGTCTTTTTGTATGCAAGTGCCATTGCCAACAAGCTCATTGAGACTCTGGATAGACAATATGCAGCAGTTCAACCTACTGCTTTGTTTTTTGTTTTACACTTCTTGAGCTCAGCCGACAGCCGCTCAGGAAGACAAGCAGTGAAGCAAACCAGAGGTCGACGCGGTGAGTCGGTGATTGCATTCAGATTTCTGACCGGAGGTGTGGACATGCCGCGTGCGGTGACTGTGACTCTCCAAAAGGTTGGCAGTCGGCTTGAGAGCTACCACAAAGCAACATCTCTAACACTGATGATTCAAGTGGATATTGCTGCTGGATGGCATTCTACTGCACTAACAGATGATGGAGAGGTGTATGGATGGGGCCGAGGGGAACATGGTAGACTTGGTTTCGGCGAGAATGATAAGAGCAGTAAAATGGTCCAGCAAAAGGTTCATCTTTTAGCTGGGGAGGATATCGTTCAGAAAGCTGTTGCCGGCCTCAGACGTATTAATCTTGATGGTCTGAGATGGAGAGTATTCGATGCGAAAGGCCAGTCAAATGGTGACCGCGGTGTTGATATCACTTACAGCTTCGACCTAAATGGTGGCCGCAGTGTTGGCTTAACTATTAAGCGGCCAGTCTGGCTGTAA
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

263

Amino Acids

28.78

Weight (kDa)

9.23

Isoelectric Point (pI)

39.63

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
WD40_RLD PF25390 154 - 210 8.8e-11 RCC1-like domain
RCC1_2 PF13540 155 - 180 5.7e-07 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 168 - 208 3.5e-06 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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Publication-ready
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Orthologous Genes (Group: OG0000689)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g08040
malus_domestica MD09G1245800.v1.1 MD11G1098500.v1.1 MD16G1237300.v1.1
pyrus_communis pycom03g07090 pycom03g07100 pycom09g08560 pycom13g20460 pycom16g19890
rosa_chinensis RchiOBHm_Chr2g0118961 RchiOBHm_Chr2g0148671 RchiOBHm_Chr2g0150531 RchiOBHm_Chr2g0171301 RchiOBHm_Chr3g0455021 RchiOBHm_Chr6g0249451
rosa_laevigata RLG00000001225 RLG00000001972 RLG00000008936 RLG00000009011 RLG00000009032 RLG00000015372 RLG00000019992 RLG00000020680 RLG00000026543
rosa_multiflora Rmu_co8272705.1_g000001 Rmu_co8286409.1_g000001 Rmu_sc0000048.1_g000034 Rmu_sc0000824.1_g000002 Rmu_sc0001839.1_g000023 Rmu_sc0002070.1_g000050 Rmu_sc0002349.1_g000005 Rmu_sc0002453.1_g000019 Rmu_sc0006431.1_g000026 Rmu_sc0006758.1_g000001 Rmu_sc0006758.1_g000013 Rmu_sc0006997.1_g000015 Rmu_sc0008411.1_g000007 Rmu_sc0008411.1_g000019 Rmu_sc0008411.1_g000028 Rmu_sc0008678.1_g000001
rosa_roxburghii Rroxscaffold_3G00225850 Rroxscaffold_3G00225860 Rroxscaffold_3G00233460 Rroxscaffold_3G00234260 Rroxscaffold_3G00236880 Rroxscaffold_3G00236890 Rroxscaffold_4G00294300 Rroxscaffold_4G00297380 Rroxscaffold_4G00324650 Rroxscaffold_5G00352840 Rroxscaffold_5G00354640 Rroxscaffold_5G00361500 Rroxscaffold_7G00156410 Rroxscaffold_7G00156420 Rroxscaffold_7G00198110 Rroxscaffold_7G00198120
rosa_samantha Rh1CG014400 Rh1DG009900 Rh2AG465900 Rh2BG342900 Rh2CG452400 Rh2DG488000 Rh3DG303300 Rh4AG118000 Rh4DG159500 Rh5AG246100 Rh6AG232100 Rh6BG178700 Rh6DG174100 Rh7BG231200 Rh7DG380300
rosa_wichuraiana Rw2G027640 Rw2G038070 Rw6G005920 Rw7G034430

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 89
AccB1I GGYRCC 1 cut(s) 16
AccBSI CCGCTC 1 cut(s) 285
AccI GTMKAC 2 cut(s) 319, 541
AccII CGCG 3 cut(s) 324, 376, 711
AciI CCGC 8 cut(s) 283, 324, 374, 380, 709, 711, 751, 775
AcoI YGGCCR 2 cut(s) 748, 776
AfiI CCNNNNNNNGG 1 cut(s) 589
AgeI ACCGGT 1 cut(s) 101
AgsI TTSAA 2 cut(s) 233, 458
AjnI CCWGG 1 cut(s) 124
AluBI AGCT 9 cut(s) 59, 112, 120, 196, 270, 423, 605, 629, 732
AluI AGCT 9 cut(s) 59, 112, 120, 196, 270, 423, 605, 629, 732
Alw21I GWGCWC 1 cut(s) 272
Alw26I GTCTC 1 cut(s) 197
Ama87I CYCGRG 2 cut(s) 78, 145
AoxI GGCC 6 cut(s) 135, 523, 637, 691, 748, 776
ApeKI GCWGC 3 cut(s) 59, 224, 470
ArsI GACNNNNNNTTYG 4 cut(s) 301, 333, 680, 712
AseI ATTAAT 1 cut(s) 651
AsiGI ACCGGT 1 cut(s) 101
AspA2I CCTAGG 1 cut(s) 20
AspLEI GCGC 1 cut(s) 77
AspS9I GGNCC 2 cut(s) 523, 580
AsuC2I CCSGG 2 cut(s) 146, 147
AsuHPI GGTGA 8 cut(s) 53, 85, 91, 106, 338, 346, 394, 716
AvaI CYCGRG 2 cut(s) 78, 145
AvaII GGWCC 1 cut(s) 580
AvrII CCTAGG 1 cut(s) 20
BanI GGYRCC 1 cut(s) 16
BanII GRGCYC 1 cut(s) 272
BbsI GAAGAC 2 cut(s) 57, 298
Bbv12I GWGCWC 1 cut(s) 272
BbvI GCAGC 3 cut(s) 46, 236, 457
BccI CCATC 5 cut(s) 471, 497, 513, 653, 663
BceAI ACGGC 1 cut(s) 122
BciT130I CCWGG 1 cut(s) 126
BcnI CCSGG 2 cut(s) 146, 147
BcoDI GTCTC 1 cut(s) 197
BfaI CTAG 1 cut(s) 21
BfoI RGCGCY 1 cut(s) 78
BglI GCCNNNNNGGC 1 cut(s) 784
BisI GCNGC 7 cut(s) 60, 225, 283, 374, 471, 751, 776
BlnI CCTAGG 1 cut(s) 20
BlpI GCTNAGC 1 cut(s) 271
BlsI GCNGC 7 cut(s) 61, 226, 284, 375, 472, 752, 777
Bme1390I CCNGG 3 cut(s) 126, 146, 147
Bme18I GGWCC 1 cut(s) 580
BmeT110I CYCGRG 2 cut(s) 78, 145
BmgT120I GGNCC 2 cut(s) 523, 580
BmiI GGNNCC 2 cut(s) 18, 524
BmrFI CCNGG 3 cut(s) 126, 146, 147
BmsI GCATC 1 cut(s) 673
BpiI GAAGAC 2 cut(s) 57, 298
Bpu10I CCTNAGC 1 cut(s) 286
Bpu1102I GCTNAGC 1 cut(s) 271
BpuEI CTTGAG 2 cut(s) 286, 437
BpuMI CCSGG 2 cut(s) 146, 147
BsaJI CCNNGG 5 cut(s) 20, 125, 145, 526, 709
BsaWI WCCGGW 2 cut(s) 101, 356
BsaXI ACNNNNNCTCC 2 cut(s) 106, 136
Bsc4I CCNNNNNNNGG 1 cut(s) 589
Bse118I RCCGGY 2 cut(s) 101, 635
Bse1I ACTGG 2 cut(s) 694, 779
Bse3DI GCAATG 1 cut(s) 183
BseBI CCWGG 1 cut(s) 126
BseDI CCNNGG 5 cut(s) 20, 125, 145, 526, 709
BseGI GGATG 3 cut(s) 94, 482, 524
BseLI CCNNNNNNNGG 1 cut(s) 589
BseMI GCAATG 1 cut(s) 183
BseMII CTCAG 4 cut(s) 285, 300, 655, 656
BseNI ACTGG 2 cut(s) 694, 779
BseXI GCAGC 3 cut(s) 46, 236, 457
BseYI CCCAGC 1 cut(s) 605
BsgI GTGCAG 1 cut(s) 474
Bsh1236I CGCG 3 cut(s) 324, 376, 711
BshFI GGCC 6 cut(s) 137, 525, 639, 693, 750, 778
BshNI GGYRCC 1 cut(s) 16
BshTI ACCGGT 1 cut(s) 101
BsiHKAI GWGCWC 1 cut(s) 272
BsiHKCI CYCGRG 2 cut(s) 78, 145
BsiSI CCGG 4 cut(s) 102, 146, 357, 636
BslFI GGGAC 2 cut(s) 95, 128
BslI CCNNNNNNNGG 1 cut(s) 589
BsmAI GTCTC 1 cut(s) 197
BsmFI GGGAC 2 cut(s) 95, 128
BsmI GAATGC 3 cut(s) 62, 341, 481
BsnI GGCC 6 cut(s) 137, 525, 639, 693, 750, 778
BsoBI CYCGRG 2 cut(s) 78, 145
Bsp1286I GDGCHC 1 cut(s) 272
Bsp1720I GCTNAGC 1 cut(s) 271
BspACI CCGC 8 cut(s) 283, 324, 374, 380, 709, 711, 751, 775
BspANI GGCC 6 cut(s) 137, 525, 639, 693, 750, 778
BspCNI CTCAG 4 cut(s) 284, 299, 654, 657
BspFNI CGCG 3 cut(s) 324, 376, 711
BspLI GGNNCC 2 cut(s) 18, 524
BspT107I GGYRCC 1 cut(s) 16
BsrBI CCGCTC 1 cut(s) 285
BsrDI GCAATG 1 cut(s) 183
BsrFI RCCGGY 2 cut(s) 101, 635
BsrI ACTGG 2 cut(s) 694, 779
BssAI RCCGGY 2 cut(s) 101, 635
BssECI CCNNGG 5 cut(s) 20, 125, 145, 526, 709
BssT1I CCWWGG 1 cut(s) 20
Bst2UI CCWGG 1 cut(s) 126
Bst4CI ACNGT 3 cut(s) 41, 97, 388
BstC8I GCNNGC 2 cut(s) 378, 637
BstDEI CTNAG 4 cut(s) 271, 286, 641, 665
BstDSI CCRYGG 1 cut(s) 709
BstEII GGTNACC 1 cut(s) 704
BstF5I GGATG 3 cut(s) 94, 482, 524
BstFNI CGCG 3 cut(s) 324, 376, 711
BstH2I RGCGCY 1 cut(s) 78
BstHHI GCGC 1 cut(s) 77
BstMAI GTCTC 1 cut(s) 197
BstMWI GCNNNNNNNGC 2 cut(s) 759, 784
BstNI CCWGG 1 cut(s) 126
BstNSI RCATGY 1 cut(s) 373
BstPI GGTNACC 1 cut(s) 704
BstSCI CCNGG 3 cut(s) 124, 144, 145
BstUI CGCG 3 cut(s) 324, 376, 711
BstV1I GCAGC 3 cut(s) 46, 236, 457
BstV2I GAAGAC 2 cut(s) 57, 298
BstXI CCANNNNNNTGG 2 cut(s) 404, 701
BsuRI GGCC 6 cut(s) 137, 525, 639, 693, 750, 778
BtgI CCRYGG 1 cut(s) 709
BtsCI GGATG 3 cut(s) 94, 482, 524
BtsI GCAGTG 2 cut(s) 306, 760
BtsIMutI CAGTG 3 cut(s) 306, 446, 760
Cac8I GCNNGC 2 cut(s) 378, 637
CfoI GCGC 1 cut(s) 77
Cfr10I RCCGGY 2 cut(s) 101, 635
Cfr13I GGNCC 2 cut(s) 523, 580
Cfr42I CCGCGG 1 cut(s) 712
Cfr9I CCCGGG 1 cut(s) 145
CseI GACGC 1 cut(s) 330
CspAI ACCGGT 1 cut(s) 101
CviAII CATG 3 cut(s) 29, 370, 536
DdeI CTNAG 4 cut(s) 271, 286, 641, 665
DrdI GACNNNNNNGTC 1 cut(s) 89
DseDI GACNNNNNNGTC 1 cut(s) 89
EaeI YGGCCR 2 cut(s) 748, 776
Ecl136II GAGCTC 1 cut(s) 270
Eco130I CCWWGG 1 cut(s) 20
Eco24I GRGCYC 1 cut(s) 272
Eco32I GATATC 2 cut(s) 616, 721
Eco47I GGWCC 1 cut(s) 580
Eco53kI GAGCTC 1 cut(s) 270
Eco88I CYCGRG 2 cut(s) 78, 145
Eco91I GGTNACC 1 cut(s) 704
EcoICRI GAGCTC 1 cut(s) 270
EcoO65I GGTNACC 1 cut(s) 704
EcoRII CCWGG 1 cut(s) 124
EcoRV GATATC 2 cut(s) 616, 721
EcoT14I CCWWGG 1 cut(s) 20
EcoT38I GRGCYC 1 cut(s) 272
ErhI CCWWGG 1 cut(s) 20
FaeI CATG 3 cut(s) 32, 373, 539
FaiI YATR 8 cut(s) 30, 154, 158, 174, 222, 371, 516, 537
FaqI GGGAC 2 cut(s) 95, 128
FatI CATG 3 cut(s) 28, 369, 535
FblI GTMKAC 2 cut(s) 319, 541
Fnu4HI GCNGC 7 cut(s) 60, 225, 283, 374, 471, 751, 776
FokI GGATG 3 cut(s) 101, 489, 531
FriOI GRGCYC 1 cut(s) 272
Fsp4HI GCNGC 7 cut(s) 60, 225, 283, 374, 471, 751, 776
FspBI CTAG 1 cut(s) 21
GlaI GCGC 1 cut(s) 76
GluI GCNGC 7 cut(s) 60, 225, 283, 374, 471, 751, 776
GsaI CCCAGC 1 cut(s) 609
HaeII RGCGCY 1 cut(s) 78
HaeIII GGCC 6 cut(s) 137, 525, 639, 693, 750, 778
HapII CCGG 4 cut(s) 102, 146, 357, 636
HgaI GACGC 1 cut(s) 330
HhaI GCGC 1 cut(s) 77
Hin1II CATG 3 cut(s) 32, 373, 539
Hin6I GCGC 1 cut(s) 75
HinP1I GCGC 1 cut(s) 75
HincII GTYRAC 1 cut(s) 320
HindII GTYRAC 1 cut(s) 320
HinfI GANTC 4 cut(s) 205, 329, 391, 454
HpaII CCGG 4 cut(s) 102, 146, 357, 636
HphI GGTGA 8 cut(s) 53, 85, 91, 106, 338, 346, 394, 716
Hpy166II GTNNAC 3 cut(s) 320, 367, 542
Hpy188I TCNGA 5 cut(s) 347, 354, 624, 644, 666
Hpy188III TCNNGA 5 cut(s) 80, 209, 265, 288, 656
Hpy8I GTNNAC 3 cut(s) 320, 367, 542
Hpy99I CGWCG 3 cut(s) 41, 143, 324
HpyAV CCTTC 1 cut(s) 154
HpyCH4III ACNGT 3 cut(s) 41, 97, 388
HpyCH4IV ACGT 1 cut(s) 646
HpyCH4V TGCA 5 cut(s) 62, 176, 224, 341, 491
HpyF10VI GCNNNNNNNGC 2 cut(s) 759, 784
HpyF3I CTNAG 4 cut(s) 271, 286, 641, 665
HpySE526I ACGT 1 cut(s) 646
Hsp92II CATG 3 cut(s) 32, 373, 539
HspAI GCGC 1 cut(s) 75
KroI GCCGGC 1 cut(s) 635
KroNI GCCGGC 1 cut(s) 637
KspI CCGCGG 1 cut(s) 712
Lsp1109I GCAGC 3 cut(s) 46, 236, 457
LweI GCATC 1 cut(s) 673
MaeI CTAG 1 cut(s) 21
MaeII ACGT 1 cut(s) 646
MaeIII GTNAC 5 cut(s) 91, 97, 382, 388, 704
MbiI CCGCTC 1 cut(s) 285
MboII GAAGA 2 cut(s) 62, 303
MhlI GDGCHC 1 cut(s) 272
MluCI AATT 1 cut(s) 5
MlyI GAGTC 3 cut(s) 199, 338, 385
MnlI CCTC 7 cut(s) 127, 308, 353, 502, 521, 604, 650
MroNI GCCGGC 1 cut(s) 635
MseI TTAA 3 cut(s) 651, 764, 771
MspA1I CMGCKG 1 cut(s) 711
MspI CCGG 4 cut(s) 102, 146, 357, 636
MspR9I CCNGG 3 cut(s) 126, 146, 147
Mva1269I GAATGC 3 cut(s) 62, 341, 481
MvaI CCWGG 1 cut(s) 126
MvnI CGCG 3 cut(s) 324, 376, 711
MwoI GCNNNNNNNGC 2 cut(s) 759, 784
NaeI GCCGGC 1 cut(s) 637
NciI CCSGG 2 cut(s) 146, 147
NgoMIV GCCGGC 1 cut(s) 635
NlaIII CATG 3 cut(s) 32, 373, 539
NlaIV GGNNCC 2 cut(s) 18, 524
NmeAIII GCCGAG 2 cut(s) 51, 551
NmuCI GTSAC 5 cut(s) 91, 97, 382, 388, 704
NspI RCATGY 1 cut(s) 373
PctI GAATGC 3 cut(s) 62, 341, 481
PdiI GCCGGC 1 cut(s) 637
PfeI GAWTC 1 cut(s) 454
PinAI ACCGGT 1 cut(s) 101
PkrI GCNGC 7 cut(s) 61, 226, 284, 375, 472, 752, 777
PleI GAGTC 3 cut(s) 199, 337, 385
PpsI GAGTC 3 cut(s) 199, 337, 385
PshBI ATTAAT 1 cut(s) 651
Psp124BI GAGCTC 1 cut(s) 272
Psp6I CCWGG 1 cut(s) 124
PspEI GGTNACC 1 cut(s) 704
PspFI CCCAGC 1 cut(s) 605
PspGI CCWGG 1 cut(s) 124
PspN4I GGNNCC 2 cut(s) 18, 524
PspPI GGNCC 2 cut(s) 523, 580
SacI GAGCTC 1 cut(s) 272
SacII CCGCGG 1 cut(s) 712
SalI GTCGAC 1 cut(s) 318
SaqAI TTAA 3 cut(s) 651, 764, 771
SatI GCNGC 7 cut(s) 60, 225, 283, 374, 471, 751, 776
Sau96I GGNCC 2 cut(s) 523, 580
SchI GAGTC 3 cut(s) 199, 338, 385
ScrFI CCNGG 3 cut(s) 126, 146, 147
SduI GDGCHC 1 cut(s) 272
SfaNI GCATC 1 cut(s) 673
Sfr303I CCGCGG 1 cut(s) 712
SgrAI CRCCGGYG 1 cut(s) 101
SgrBI CCGCGG 1 cut(s) 712
SinI GGWCC 1 cut(s) 580
SmaI CCCGGG 1 cut(s) 147
SmlI CTYRAG 2 cut(s) 265, 416
SmoI CTYRAG 2 cut(s) 265, 416
Sse9I AATT 1 cut(s) 5
SsiI CCGC 8 cut(s) 283, 324, 374, 380, 709, 711, 751, 775
SspMI CTAG 1 cut(s) 21
SstI GAGCTC 1 cut(s) 272
StyD4I CCNGG 3 cut(s) 124, 144, 145
StyI CCWWGG 1 cut(s) 20
TaaI ACNGT 3 cut(s) 41, 97, 388
TaiI ACGT 1 cut(s) 649
TaqI TCGA 3 cut(s) 319, 681, 735
TasI AATT 1 cut(s) 5
TauI GCSGC 4 cut(s) 285, 376, 753, 778
TfiI GAWTC 1 cut(s) 454
Tru1I TTAA 3 cut(s) 651, 764, 771
Tru9I TTAA 3 cut(s) 651, 764, 771
TscAI CASTG 3 cut(s) 306, 453, 760
TseFI GTSAC 5 cut(s) 91, 97, 382, 388, 704
TseI GCWGC 3 cut(s) 59, 224, 470
Tsp45I GTSAC 5 cut(s) 91, 97, 382, 388, 704
TspDTI ATGAA 3 cut(s) 17, 173, 584
TspMI CCCGGG 1 cut(s) 145
TspRI CASTG 3 cut(s) 306, 453, 760
VpaK11BI GGWCC 1 cut(s) 580
VspI ATTAAT 1 cut(s) 651
XceI RCATGY 1 cut(s) 373
XmaI CCCGGG 1 cut(s) 145
XmaJI CCTAGG 1 cut(s) 20
XmiI GTMKAC 2 cut(s) 319, 541
XspI CTAG 1 cut(s) 21
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.