FvH4_6g45310

Regulator of chromosome condensation (RCC1) repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
fragaria_vesca
Fvb6
OG0008433
Physical Location & Seq
Forward (+)
34799143 .. 34803437
4295 bp
Loading structure...
UTR
Exon/CDS
Intron
FvH4_6g45310.t1

Sequence Viewer

Length: 1185 bp
ATGGCATCCGATACCGCCATTATCGCCTGGGGCTCCGGAGAAGACGGGCAGTTGGGAATAGGGTGCAACGACGACAAGGAACTAGTCTGCGTTGTCACCGCCTTAGAGTCACAGACCGTTCGCTCTGTCGTCGCTGGCAGCCGAAACTCTCTCGCTATTTGTGATGATGGCAAGCTGTTTACATGGGGTTGGAATCAGAGAGGGACTTTGGGGCATCCACCCGAGAGCAAAACCGAGAACGTTCCCAGCCAAGTTGAAGCTCTGTCCAATGTTAAAATCGTTCAGGCTGCTATTGGTGGATGGCATTGTTTGGCTGTTGATGATCAAGGCCGTGCCTATGCCTGGGGTGGAAATGAGTATGGACAGTGCGGTGAAGAACCTGAGCGCGACACTGGTAAACCTTTGAAGAGGGACATAGTGATTCCTCAGCGATGTGCGCCCAAACTTGTGGTTCGCCAGGTAGCTGCTGGGGGTACTCACTCTGTGGTGCTTACACGTGAAGGGCATGTATGGACATGGGGTCAACCATGGCCTCCAGGAGACATAAAACAAATTTCCACACCTGTACGAGTACAAGGTCTTGATAAGGTGAAGCTCATTGCAGTAGGGGCATTTCATAATTTGGCTCTCCAAGAGGATGGCACTTTATGGGCATGGGGTAACAACGAATACGGACAGCTTGGAACAGGGGATACGCAGCCGAGATCACAACCCATTCCTGTCAATGGACTTTCTGGTCTTACTTTGGTGGATATTGCTGCTGGAGGATGGCATTCTACTGCACTAACAGATGATGGAGAGGTCTATGGATGGGGCCGAGGGGAGCATGGTAGACTTGGTTTTGGTGACAATGATAAGAGTAGTAAAATGGTCCCCCAAAAGGTTCATCTTTTAGCTGGGGAGGACATTGTTCAGGTGTCTTGTGGAGGCACTCACTCTGCGGCATTAACACGTGATGGTCGCATTTTCTCGTTTGGTCGAGGTGACCATGGACGTCTCGGGTATGGAAGGAAGGTGACAACTGGTCACCCGATGGAAGTCCCCATCGAACTCCCACCTAAAAATGTCACTGACGGTGAAGCCCATGGCCATTGGATTGCCAAACTTATTGCCTCTGGAGGACGCCATACTCTAGCAATAGTCGAATGGAAATCAGATGAAACAACTGAAAACGGTGACGCTTAA
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

395

Amino Acids

42.1

Weight (kDa)

5.69

Isoelectric Point (pI)

21.99

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Alsin_RLD PF25384 4 - 112 5e-08 Alsin RCC1-like domain
WD40_RLD PF25390 7 - 379 5.8e-91 RCC1-like domain
RCC1 PF00415 9 - 53 1e-05 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 40 - 68 5e-08 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 56 - 106 4.9e-16 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 93 - 122 2.1e-08 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 109 - 164 7.6e-09 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 151 - 175 9.3e-08 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 197 - 226 2.4e-10 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 213 - 262 1.1e-15 Regulator of chromosome condensation (RCC1) repeat
Alsin_RLD PF25384 215 - 287 1.2e-06 Alsin RCC1-like domain
RCC1_2 PF13540 250 - 277 3.6e-10 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 265 - 316 8e-17 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 303 - 331 2e-09 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 319 - 380 4.7e-08 Regulator of chromosome condensation (RCC1) repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 735
AatII GACGTC 1 cut(s) 997
AccI GTMKAC 1 cut(s) 832
AccII CGCG 1 cut(s) 387
AccIII TCCGGA 1 cut(s) 35
AciI CCGC 4 cut(s) 15, 99, 369, 941
AclI AACGTT 1 cut(s) 240
AcoI YGGCCR 1 cut(s) 1087
AcsI RAATTY 1 cut(s) 552
AcvI CACGTG 2 cut(s) 497, 953
AcyI GRCGYC 2 cut(s) 994, 1123
AdeI CACNNNGTG 1 cut(s) 484
AfaI GTAC 3 cut(s) 475, 567, 573
AfiI CCNNNNNNNGG 3 cut(s) 342, 725, 880
AflIII ACRYGT 2 cut(s) 494, 950
AgsI TTSAA 2 cut(s) 257, 406
AhdI GACNNNNNGTC 2 cut(s) 519, 1023
AhlI ACTAGT 1 cut(s) 82
AjnI CCWGG 4 cut(s) 26, 341, 456, 535
AluBI AGCT 6 cut(s) 175, 260, 464, 595, 679, 896
AluI AGCT 6 cut(s) 175, 260, 464, 595, 679, 896
Alw26I GTCTC 2 cut(s) 534, 1001
Ama87I CYCGRG 2 cut(s) 221, 998
Aor13HI TCCGGA 1 cut(s) 35
AoxI GGCC 4 cut(s) 328, 530, 814, 1087
ApeKI GCWGC 5 cut(s) 138, 287, 464, 697, 758
ApoI RAATTY 1 cut(s) 552
AspLEI GCGC 2 cut(s) 387, 439
AspS9I GGNCC 2 cut(s) 814, 871
AsuHPI GGTGA 8 cut(s) 88, 383, 601, 857, 995, 1019, 1027, 1088
AvaI CYCGRG 2 cut(s) 221, 998
AvaII GGWCC 1 cut(s) 871
BalI TGGCCA 1 cut(s) 1089
BanII GRGCYC 1 cut(s) 35
BbrPI CACGTG 2 cut(s) 497, 953
BbsI GAAGAC 1 cut(s) 48
BbvCI CCTCAGC 1 cut(s) 426
BbvI GCAGC 5 cut(s) 150, 274, 451, 709, 745
BccI CCATC 9 cut(s) 161, 294, 632, 762, 788, 804, 950, 1027, 1052
BceAI ACGGC 1 cut(s) 315
BciT130I CCWGG 4 cut(s) 28, 343, 458, 537
BciVI GTATCC 1 cut(s) 685
BclI TGATCA 1 cut(s) 322
BcoDI GTCTC 2 cut(s) 534, 1001
BcuI ACTAGT 1 cut(s) 82
BfaI CTAG 2 cut(s) 83, 1133
BfuI GTATCC 1 cut(s) 685
BisI GCNGC 6 cut(s) 139, 288, 465, 698, 759, 942
BlsI GCNGC 6 cut(s) 140, 289, 466, 699, 760, 943
Bme1390I CCNGG 4 cut(s) 28, 343, 458, 537
Bme18I GGWCC 1 cut(s) 871
BmeRI GACNNNNNGTC 2 cut(s) 519, 1023
BmeT110I CYCGRG 2 cut(s) 221, 998
BmgT120I GGNCC 2 cut(s) 814, 871
BmiI GGNNCC 3 cut(s) 34, 815, 873
BmrFI CCNGG 4 cut(s) 28, 343, 458, 537
BmsI GCATC 2 cut(s) 14, 223
BpiI GAAGAC 1 cut(s) 48
BpmI CTGGAG 3 cut(s) 519, 783, 1137
Bpu10I CCTNAGC 2 cut(s) 381, 426
BsaAI YACGTR 2 cut(s) 497, 953
BsaHI GRCGYC 2 cut(s) 994, 1123
BsaJI CCNNGG 6 cut(s) 27, 342, 527, 817, 988, 1084
BsaWI WCCGGW 1 cut(s) 35
Bsc4I CCNNNNNNNGG 3 cut(s) 342, 725, 880
Bse1I ACTGG 2 cut(s) 397, 1027
Bse3DI GCAATG 1 cut(s) 597
BseAI TCCGGA 1 cut(s) 35
BseBI CCWGG 4 cut(s) 28, 343, 458, 537
BseDI CCNNGG 6 cut(s) 27, 342, 527, 817, 988, 1084
BseGI GGATG 6 cut(s) 5, 214, 305, 643, 773, 815
BseLI CCNNNNNNNGG 3 cut(s) 342, 725, 880
BseMI GCAATG 1 cut(s) 597
BseMII CTCAG 2 cut(s) 372, 440
BseNI ACTGG 2 cut(s) 397, 1027
BseXI GCAGC 5 cut(s) 150, 274, 451, 709, 745
BseYI CCCAGC 3 cut(s) 245, 467, 896
BsgI GTGCAG 1 cut(s) 765
Bsh1236I CGCG 1 cut(s) 387
BshFI GGCC 4 cut(s) 330, 532, 816, 1089
BsiHKCI CYCGRG 2 cut(s) 221, 998
BsiSI CCGG 1 cut(s) 36
BslFI GGGAC 4 cut(s) 217, 425, 857, 1025
BslI CCNNNNNNNGG 3 cut(s) 342, 725, 880
BsmAI GTCTC 2 cut(s) 534, 1001
BsmBI CGTCTC 1 cut(s) 1001
BsmFI GGGAC 4 cut(s) 217, 425, 857, 1025
BsmI GAATGC 1 cut(s) 772
BsnI GGCC 4 cut(s) 330, 532, 816, 1089
BsoBI CYCGRG 2 cut(s) 221, 998
Bsp1286I GDGCHC 1 cut(s) 35
Bsp13I TCCGGA 1 cut(s) 35
Bsp143I GATC 2 cut(s) 322, 704
Bsp19I CCATGG 3 cut(s) 527, 988, 1084
BspACI CCGC 4 cut(s) 15, 99, 369, 941
BspANI GGCC 4 cut(s) 330, 532, 816, 1089
BspCNI CTCAG 2 cut(s) 373, 439
BspEI TCCGGA 1 cut(s) 35
BspFNI CGCG 1 cut(s) 387
BspLI GGNNCC 3 cut(s) 34, 815, 873
BsrDI GCAATG 1 cut(s) 597
BsrI ACTGG 2 cut(s) 397, 1027
BssECI CCNNGG 6 cut(s) 27, 342, 527, 817, 988, 1084
BssMI GATC 2 cut(s) 322, 704
BssNI GRCGYC 2 cut(s) 994, 1123
BssT1I CCWWGG 3 cut(s) 527, 988, 1084
Bst2UI CCWGG 4 cut(s) 28, 343, 458, 537
Bst4CI ACNGT 4 cut(s) 118, 366, 1076, 1175
Bst6I CTCTTC 1 cut(s) 401
BstACI GRCGYC 2 cut(s) 994, 1123
BstBAI YACGTR 2 cut(s) 497, 953
BstC8I GCNNGC 2 cut(s) 136, 173
BstDEI CTNAG 3 cut(s) 103, 381, 426
BstDSI CCRYGG 3 cut(s) 527, 988, 1084
BstEII GGTNACC 2 cut(s) 983, 1025
BstF5I GGATG 6 cut(s) 5, 214, 305, 643, 773, 815
BstFNI CGCG 1 cut(s) 387
BstHHI GCGC 2 cut(s) 387, 439
BstKTI GATC 2 cut(s) 325, 707
BstMAI GTCTC 2 cut(s) 534, 1001
BstMBI GATC 2 cut(s) 322, 704
BstMWI GCNNNNNNNGC 3 cut(s) 23, 436, 608
BstNI CCWGG 4 cut(s) 28, 343, 458, 537
BstNSI RCATGY 1 cut(s) 509
BstPI GGTNACC 2 cut(s) 983, 1025
BstSCI CCNGG 4 cut(s) 26, 341, 456, 535
BstUI CGCG 1 cut(s) 387
BstV1I GCAGC 5 cut(s) 150, 274, 451, 709, 745
BstV2I GAAGAC 1 cut(s) 48
BstXI CCANNNNNNTGG 2 cut(s) 448, 638
BsuI GTATCC 1 cut(s) 685
BsuRI GGCC 4 cut(s) 330, 532, 816, 1089
BtgI CCRYGG 3 cut(s) 527, 988, 1084
BtgZI GCGATG 1 cut(s) 445
BtsCI GGATG 6 cut(s) 5, 214, 305, 643, 773, 815
BtsIMutI CAGTG 3 cut(s) 371, 390, 1068
Cac8I GCNNGC 2 cut(s) 136, 173
CfoI GCGC 2 cut(s) 387, 439
Cfr13I GGNCC 2 cut(s) 814, 871
CseI GACGC 1 cut(s) 1131
Csp6I GTAC 3 cut(s) 474, 566, 572
CviAII CATG 8 cut(s) 183, 506, 516, 528, 654, 827, 989, 1085
CviQI GTAC 3 cut(s) 474, 566, 572
DdeI CTNAG 3 cut(s) 103, 381, 426
DpnI GATC 2 cut(s) 324, 706
DpnII GATC 2 cut(s) 322, 704
DraIII CACNNNGTG 1 cut(s) 484
DrdI GACNNNNNNGTC 1 cut(s) 735
DriI GACNNNNNGTC 2 cut(s) 519, 1023
DseDI GACNNNNNNGTC 1 cut(s) 735
EaeI YGGCCR 1 cut(s) 1087
Eam1104I CTCTTC 1 cut(s) 401
Eam1105I GACNNNNNGTC 2 cut(s) 519, 1023
EarI CTCTTC 1 cut(s) 401
Eco130I CCWWGG 3 cut(s) 527, 988, 1084
Eco24I GRGCYC 1 cut(s) 35
Eco47I GGWCC 1 cut(s) 871
Eco72I CACGTG 2 cut(s) 497, 953
Eco88I CYCGRG 2 cut(s) 221, 998
Eco91I GGTNACC 2 cut(s) 983, 1025
EcoO65I GGTNACC 2 cut(s) 983, 1025
EcoRII CCWGG 4 cut(s) 26, 341, 456, 535
EcoT14I CCWWGG 3 cut(s) 527, 988, 1084
EcoT38I GRGCYC 1 cut(s) 35
ErhI CCWWGG 3 cut(s) 527, 988, 1084
Esp3I CGTCTC 1 cut(s) 1001
FaeI CATG 8 cut(s) 186, 509, 519, 531, 657, 830, 992, 1088
FaqI GGGAC 4 cut(s) 217, 425, 857, 1025
FatI CATG 8 cut(s) 182, 505, 515, 527, 653, 826, 988, 1084
FbaI TGATCA 1 cut(s) 322
FblI GTMKAC 1 cut(s) 832
Fnu4HI GCNGC 6 cut(s) 139, 288, 465, 698, 759, 942
FokI GGATG 5 cut(s) 201, 312, 650, 780, 822
FriOI GRGCYC 1 cut(s) 35
Fsp4HI GCNGC 6 cut(s) 139, 288, 465, 698, 759, 942
FspBI CTAG 2 cut(s) 83, 1133
GlaI GCGC 2 cut(s) 386, 438
GluI GCNGC 6 cut(s) 139, 288, 465, 698, 759, 942
GsaI CCCAGC 3 cut(s) 249, 471, 900
GsuI CTGGAG 3 cut(s) 519, 783, 1137
HaeIII GGCC 4 cut(s) 330, 532, 816, 1089
HapII CCGG 1 cut(s) 36
HgaI GACGC 1 cut(s) 1131
HhaI GCGC 2 cut(s) 387, 439
Hin1I GRCGYC 2 cut(s) 994, 1123
Hin1II CATG 8 cut(s) 186, 509, 519, 531, 657, 830, 992, 1088
Hin6I GCGC 2 cut(s) 385, 437
HinP1I GCGC 2 cut(s) 385, 437
HincII GTYRAC 1 cut(s) 524
HindII GTYRAC 1 cut(s) 524
HinfI GANTC 3 cut(s) 107, 193, 421
HpaII CCGG 1 cut(s) 36
HphI GGTGA 8 cut(s) 88, 383, 601, 857, 995, 1019, 1027, 1088
Hpy166II GTNNAC 4 cut(s) 180, 398, 524, 833
Hpy188I TCNGA 3 cut(s) 10, 198, 1156
Hpy188III TCNNGA 3 cut(s) 36, 581, 1116
Hpy8I GTNNAC 4 cut(s) 180, 398, 524, 833
Hpy99I CGWCG 2 cut(s) 74, 134
HpyAV CCTTC 3 cut(s) 494, 1002, 1006
HpyCH4III ACNGT 4 cut(s) 118, 366, 1076, 1175
HpyCH4IV ACGT 4 cut(s) 240, 496, 952, 994
HpyCH4V TGCA 3 cut(s) 66, 602, 782
HpyF10VI GCNNNNNNNGC 3 cut(s) 23, 436, 608
HpyF3I CTNAG 3 cut(s) 103, 381, 426
HpySE526I ACGT 4 cut(s) 240, 496, 952, 994
Hsp92I GRCGYC 2 cut(s) 994, 1123
Hsp92II CATG 8 cut(s) 186, 509, 519, 531, 657, 830, 992, 1088
HspAI GCGC 2 cut(s) 385, 437
Kpn2I TCCGGA 1 cut(s) 35
Ksp22I TGATCA 1 cut(s) 322
Kzo9I GATC 2 cut(s) 322, 704
LmnI GCTCC 2 cut(s) 38, 823
Lsp1109I GCAGC 5 cut(s) 150, 274, 451, 709, 745
LweI GCATC 2 cut(s) 14, 223
MaeI CTAG 2 cut(s) 83, 1133
MaeII ACGT 4 cut(s) 240, 496, 952, 994
MaeIII GTNAC 9 cut(s) 94, 108, 659, 845, 983, 1015, 1025, 1066, 1175
MalI GATC 2 cut(s) 324, 706
MboI GATC 2 cut(s) 322, 704
MboII GAAGA 3 cut(s) 53, 386, 418
MhlI GDGCHC 1 cut(s) 35
MlsI TGGCCA 1 cut(s) 1089
MluCI AATT 2 cut(s) 552, 619
MluNI TGGCCA 1 cut(s) 1089
MlyI GAGTC 1 cut(s) 116
MmeI TCCRAC 1 cut(s) 170
Mox20I TGGCCA 1 cut(s) 1089
MroI TCCGGA 1 cut(s) 35
MscI TGGCCA 1 cut(s) 1089
MseI TTAA 3 cut(s) 273, 947, 1183
Msp20I TGGCCA 1 cut(s) 1089
MspI CCGG 1 cut(s) 36
MspR9I CCNGG 4 cut(s) 28, 343, 458, 537
Mva1269I GAATGC 1 cut(s) 772
MvaI CCWGG 4 cut(s) 28, 343, 458, 537
MvnI CGCG 1 cut(s) 387
MwoI GCNNNNNNNGC 3 cut(s) 23, 436, 608
NcoI CCATGG 3 cut(s) 527, 988, 1084
NdeII GATC 2 cut(s) 322, 704
NlaIII CATG 8 cut(s) 186, 509, 519, 531, 657, 830, 992, 1088
NlaIV GGNNCC 3 cut(s) 34, 815, 873
NmeAIII GCCGAG 2 cut(s) 726, 842
NmuCI GTSAC 8 cut(s) 94, 108, 845, 983, 1015, 1025, 1066, 1175
NspI RCATGY 1 cut(s) 509
PctI GAATGC 1 cut(s) 772
PfeI GAWTC 2 cut(s) 193, 421
PfoI TCCNGGA 1 cut(s) 535
PkrI GCNGC 6 cut(s) 140, 289, 466, 699, 760, 943
PleI GAGTC 1 cut(s) 115
PmaCI CACGTG 2 cut(s) 497, 953
PmlI CACGTG 2 cut(s) 497, 953
PpsI GAGTC 1 cut(s) 115
Ppu21I YACGTR 2 cut(s) 497, 953
Psp1406I AACGTT 1 cut(s) 240
Psp6I CCWGG 4 cut(s) 26, 341, 456, 535
PspCI CACGTG 2 cut(s) 497, 953
PspEI GGTNACC 2 cut(s) 983, 1025
PspFI CCCAGC 3 cut(s) 245, 467, 896
PspGI CCWGG 4 cut(s) 26, 341, 456, 535
PspN4I GGNNCC 3 cut(s) 34, 815, 873
PspPI GGNCC 2 cut(s) 814, 871
PsrI GAACNNNNNNTAC 2 cut(s) 676, 708
RsaI GTAC 3 cut(s) 475, 567, 573
RsaNI GTAC 3 cut(s) 474, 566, 572
SaqAI TTAA 3 cut(s) 273, 947, 1183
SatI GCNGC 6 cut(s) 139, 288, 465, 698, 759, 942
Sau3AI GATC 2 cut(s) 322, 704
Sau96I GGNCC 2 cut(s) 814, 871
SchI GAGTC 1 cut(s) 116
ScrFI CCNGG 4 cut(s) 28, 343, 458, 537
SduI GDGCHC 1 cut(s) 35
SfaNI GCATC 2 cut(s) 14, 223
SinI GGWCC 1 cut(s) 871
SpeI ACTAGT 1 cut(s) 82
Sse9I AATT 2 cut(s) 552, 619
SsiI CCGC 4 cut(s) 15, 99, 369, 941
SspMI CTAG 2 cut(s) 83, 1133
StyD4I CCNGG 4 cut(s) 26, 341, 456, 535
StyI CCWWGG 3 cut(s) 527, 988, 1084
TaaI ACNGT 4 cut(s) 118, 366, 1076, 1175
TaiI ACGT 4 cut(s) 243, 499, 955, 997
TaqI TCGA 3 cut(s) 979, 1047, 1143
TasI AATT 2 cut(s) 552, 619
TatI WGTACW 1 cut(s) 571
TauI GCSGC 1 cut(s) 944
TfiI GAWTC 2 cut(s) 193, 421
Tru1I TTAA 3 cut(s) 273, 947, 1183
Tru9I TTAA 3 cut(s) 273, 947, 1183
TscAI CASTG 3 cut(s) 371, 397, 1075
TseFI GTSAC 8 cut(s) 94, 108, 845, 983, 1015, 1025, 1066, 1175
TseI GCWGC 5 cut(s) 138, 287, 464, 697, 758
Tsp45I GTSAC 8 cut(s) 94, 108, 845, 983, 1015, 1025, 1066, 1175
TspDTI ATGAA 3 cut(s) 605, 875, 1173
TspGWI ACGGA 1 cut(s) 687
TspRI CASTG 3 cut(s) 371, 397, 1075
VpaK11BI GGWCC 1 cut(s) 871
XapI RAATTY 1 cut(s) 552
XceI RCATGY 1 cut(s) 509
XcmI CCANNNNNNNNNTGG 1 cut(s) 464
XmiI GTMKAC 1 cut(s) 832
XspI CTAG 2 cut(s) 83, 1133
ZraI GACGTC 1 cut(s) 995
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.