AT5G16040

regulator of chromosome condensation (RCC1) family protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0008433
Physical Location & Seq
Reverse (-)
5240675 .. 5243473
2799 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G16040.2

Sequence Viewer

Length: 1191 bp
ATGGCTTCAGCTACTTCCGTCATAGCCTGGGGTTCTGGAGAAGATGGGCAACTAGGACTTGGAACCGATGAAGAAAAGGAATTGGCTTCCGTCGTCGACGCTCTTGAGCCTTTCAACGTTCGCTCCGTCGTCGGTGGTAGCCGCAATTCCCTCGCCATTTGCGATGATGGCAAGCTGTTTACATGGGGTTGGAATCAAAGGGGTACATTAGGACACCCACCTGAGACAAAAACAGAAAGCACCCCAAGTCTAGTTAAGTCTCTTGCCAACGTCAAGATTGTTCAGGCAGCTATTGGTGGCTGGCATTGTTTAGCTGTCGATGATCAAGGCCGAGCATATGCTTGGGGTGGAAATGAATATGGACAGTGTGGTGAAGAGCCTTCCAAGGATGAGACAGGTAGGCCTGTGCGGAGGGATATTGTAATACCTAAGCGTTGTGCCCAGCAACTTACAGTCCGACAGGTAGCTGCAGGGGGTACTCACTCTGTGGTTCTAACCCGTGAAGGTTATGTATGGACTTGGGGTCAACCGTGGCCTCCCGGTGACATAAAACAAATTTCTGTTCCTGTAAGAGTTCAGGGTCTTGAAAACGTTCGTCTGATTGCTGTGGGAGCATTTCATAACTTGGCTCTGAAAGAAGATGGGACTTTGTGGGCTTGGGGTAATAATGAATATGGACAACTTGGAACTGGAGACACACAACCGAGATCGTATCCTATTCCTGTCCAAGGCCTTGACGATCTCACTTTGGTTGATATCGCTGCGGGTGGATGGCATTCAACAGCTTTAACCAATGAAGGAGAGGTTTATGGTTGGGGAAGAGGAGAGCATGGAAGGCTCGGGTTTGGTGACAATGATAAGAGCAGTAAAATGCTTCCGCAGAAAGTTAATCTCTTAGCTGGAGAAGACATCATTCAGGTCTCTTGTGGCGGAACTCATTCAGTCGCTTTGACAAGAGACGGTAGGATCTTCTCGTTTGGTCGGGGAGACCACGGTAGACTCGGGTATGGAAGAAAAGTAACTACGGGACAACCATTGGAGCTTCCTATACACATTCCACCACCAGAAGGACGGTTCAACCACACCGATGAAGAAGACGATGGAAAATGGATAGCTAAACATGTAGCTTGTGGTGGCCGACACACTCTAGCAATTGTGGAATGGAAGTATGATCAGGAGGAAACAGAATAA
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

396

Amino Acids

42.9

Weight (kDa)

5.43

Isoelectric Point (pI)

31.72

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Alsin_RLD PF25384 5 - 111 3.4e-06 Alsin RCC1-like domain
WD40_RLD PF25390 7 - 310 7.2e-77 RCC1-like domain
RCC1_2 PF13540 40 - 68 7.9e-07 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 56 - 106 3.3e-15 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 93 - 122 1.8e-08 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 109 - 165 1.2e-08 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 152 - 176 1.2e-07 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 198 - 227 2.3e-11 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 214 - 263 3e-16 Regulator of chromosome condensation (RCC1) repeat
Alsin_RLD PF25384 217 - 290 4.9e-07 Alsin RCC1-like domain
RCC1_2 PF13540 251 - 278 2e-09 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 266 - 308 4.8e-10 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)
AccI GTMKAC 2 cut(s) 96, 997
AciI CCGC 5 cut(s) 142, 409, 764, 878, 930
AclI AACGTT 2 cut(s) 117, 591
AclWI GGATC 1 cut(s) 974
AcoI YGGCCR 1 cut(s) 1135
AcsI RAATTY 1 cut(s) 555
AdeI CACNNNGTG 1 cut(s) 487
AfaI GTAC 2 cut(s) 205, 478
AfiI CCNNNNNNNGG 2 cut(s) 728, 1067
AflIII ACRYGT 1 cut(s) 1120
AgsI TTSAA 4 cut(s) 115, 587, 780, 1078
AhdI GACNNNNNGTC 1 cut(s) 522
AjnI CCWGG 1 cut(s) 26
Alw26I GTCTC 7 cut(s) 218, 264, 386, 687, 925, 951, 981
AlwI GGATC 1 cut(s) 974
Ama87I CYCGRG 2 cut(s) 839, 1001
AoxI GGCC 5 cut(s) 328, 401, 533, 730, 1135
ApeKI GCWGC 3 cut(s) 287, 467, 761
ApoI RAATTY 1 cut(s) 555
Asp700I GAANNNNTTC 2 cut(s) 591, 937
AsuC2I CCSGG 1 cut(s) 540
AsuHPI GGTGA 3 cut(s) 383, 554, 860
AvaI CYCGRG 2 cut(s) 839, 1001
BaeGI GKGCMC 1 cut(s) 442
BbsI GAAGAC 2 cut(s) 912, 1101
BbvI GCAGC 3 cut(s) 299, 454, 748
BccI CCATC 5 cut(s) 38, 161, 635, 765, 1094
BcgI CGANNNNNNTGC 2 cut(s) 133, 167
BciT130I CCWGG 1 cut(s) 28
BciVI GTATCC 1 cut(s) 723
BclI TGATCA 2 cut(s) 322, 1171
BcnI CCSGG 1 cut(s) 540
BcoDI GTCTC 7 cut(s) 218, 264, 386, 687, 925, 951, 981
BfaI CTAG 3 cut(s) 53, 251, 1148
BfmI CTRYAG 1 cut(s) 468
BfuI GTATCC 1 cut(s) 723
BisI GCNGC 4 cut(s) 142, 288, 468, 762
BlsI GCNGC 4 cut(s) 143, 289, 469, 763
Bme1390I CCNGG 2 cut(s) 28, 540
BmeRI GACNNNNNGTC 1 cut(s) 522
BmeT110I CYCGRG 2 cut(s) 839, 1001
BmiI GGNNCC 1 cut(s) 64
BmrFI CCNGG 2 cut(s) 28, 540
BpiI GAAGAC 2 cut(s) 912, 1101
BpmI CTGGAG 3 cut(s) 57, 711, 921
Bpu10I CCTNAGC 1 cut(s) 429
BpuEI CTTGAG 1 cut(s) 125
BpuMI CCSGG 1 cut(s) 540
BsaI GGTCTC 2 cut(s) 925, 981
BsaJI CCNNGG 5 cut(s) 27, 384, 530, 727, 991
BsaXI ACNNNNNCTCC 2 cut(s) 107, 137
Bsc4I CCNNNNNNNGG 2 cut(s) 728, 1067
Bse1I ACTGG 1 cut(s) 694
BseBI CCWGG 1 cut(s) 28
BseDI CCNNGG 5 cut(s) 27, 384, 530, 727, 991
BseGI GGATG 2 cut(s) 394, 776
BseLI CCNNNNNNNGG 2 cut(s) 728, 1067
BseMII CTCAG 1 cut(s) 213
BseNI ACTGG 1 cut(s) 694
BseRI GAGGAG 1 cut(s) 837
BseSI GKGCMC 1 cut(s) 442
BseXI GCAGC 3 cut(s) 299, 454, 748
BseYI CCCAGC 1 cut(s) 441
BshFI GGCC 5 cut(s) 330, 403, 535, 732, 1137
BsiHKCI CYCGRG 2 cut(s) 839, 1001
BsiSI CCGG 1 cut(s) 540
BslFI GGGAC 2 cut(s) 658, 1041
BslI CCNNNNNNNGG 2 cut(s) 728, 1067
BsmAI GTCTC 7 cut(s) 218, 264, 386, 687, 925, 951, 981
BsmBI CGTCTC 1 cut(s) 951
BsmFI GGGAC 2 cut(s) 658, 1041
BsmI GAATGC 1 cut(s) 775
BsnI GGCC 5 cut(s) 330, 403, 535, 732, 1137
Bso31I GGTCTC 2 cut(s) 925, 981
BsoBI CYCGRG 2 cut(s) 839, 1001
Bsp1286I GDGCHC 1 cut(s) 442
Bsp143I GATC 5 cut(s) 322, 707, 739, 966, 1171
BspACI CCGC 5 cut(s) 142, 409, 764, 878, 930
BspANI GGCC 5 cut(s) 330, 403, 535, 732, 1137
BspCNI CTCAG 1 cut(s) 214
BspLI GGNNCC 1 cut(s) 64
BspMAI CTGCAG 1 cut(s) 472
BspPI GGATC 1 cut(s) 974
BspQI GCTCTTC 1 cut(s) 369
BspTNI GGTCTC 2 cut(s) 925, 981
BsrI ACTGG 1 cut(s) 694
BssECI CCNNGG 5 cut(s) 27, 384, 530, 727, 991
BssMI GATC 5 cut(s) 322, 707, 739, 966, 1171
BssT1I CCWWGG 2 cut(s) 384, 727
Bst2UI CCWGG 1 cut(s) 28
Bst4CI ACNGT 6 cut(s) 366, 454, 531, 962, 995, 1074
Bst6I CTCTTC 2 cut(s) 369, 814
BstC8I GCNNGC 2 cut(s) 173, 302
BstDEI CTNAG 3 cut(s) 222, 429, 895
BstDSI CCRYGG 2 cut(s) 530, 991
BstENI CCTNNNNNAGG 1 cut(s) 726
BstF5I GGATG 2 cut(s) 394, 776
BstKTI GATC 5 cut(s) 325, 710, 742, 969, 1174
BstMAI GTCTC 7 cut(s) 218, 264, 386, 687, 925, 951, 981
BstMBI GATC 5 cut(s) 322, 707, 739, 966, 1171
BstMWI GCNNNNNNNGC 3 cut(s) 168, 611, 835
BstNI CCWGG 1 cut(s) 28
BstNSI RCATGY 1 cut(s) 1124
BstSCI CCNGG 2 cut(s) 26, 538
BstSFI CTRYAG 1 cut(s) 468
BstSLI GKGCMC 1 cut(s) 442
BstV1I GCAGC 3 cut(s) 299, 454, 748
BstV2I GAAGAC 2 cut(s) 912, 1101
BstX2I RGATCY 1 cut(s) 966
BstYI RGATCY 1 cut(s) 966
BsuI GTATCC 1 cut(s) 723
BsuRI GGCC 5 cut(s) 330, 403, 535, 732, 1137
BtgI CCRYGG 2 cut(s) 530, 991
BtgZI GCGATG 1 cut(s) 177
BtsCI GGATG 2 cut(s) 394, 776
BtsIMutI CAGTG 1 cut(s) 371
Cac8I GCNNGC 2 cut(s) 173, 302
CseI GACGC 1 cut(s) 107
Csp6I GTAC 2 cut(s) 204, 477
CviAII CATG 3 cut(s) 183, 830, 1121
CviQI GTAC 2 cut(s) 204, 477
DdeI CTNAG 3 cut(s) 222, 429, 895
DpnI GATC 5 cut(s) 324, 709, 741, 968, 1173
DpnII GATC 5 cut(s) 322, 707, 739, 966, 1171
DraIII CACNNNGTG 1 cut(s) 487
DriI GACNNNNNGTC 1 cut(s) 522
EaeI YGGCCR 1 cut(s) 1135
Eam1104I CTCTTC 2 cut(s) 369, 814
Eam1105I GACNNNNNGTC 1 cut(s) 522
EarI CTCTTC 2 cut(s) 369, 814
EciI GGCGGA 1 cut(s) 945
Eco130I CCWWGG 2 cut(s) 384, 727
Eco147I AGGCCT 2 cut(s) 403, 732
Eco31I GGTCTC 2 cut(s) 925, 981
Eco32I GATATC 1 cut(s) 757
Eco88I CYCGRG 2 cut(s) 839, 1001
EcoNI CCTNNNNNAGG 1 cut(s) 726
EcoRII CCWGG 1 cut(s) 26
EcoRV GATATC 1 cut(s) 757
EcoT14I CCWWGG 2 cut(s) 384, 727
ErhI CCWWGG 2 cut(s) 384, 727
Esp3I CGTCTC 1 cut(s) 951
FaeI CATG 3 cut(s) 186, 833, 1124
FaqI GGGAC 2 cut(s) 658, 1041
FatI CATG 3 cut(s) 182, 829, 1120
FauI CCCGC 1 cut(s) 757
FauNDI CATATG 1 cut(s) 337
FbaI TGATCA 2 cut(s) 322, 1171
FblI GTMKAC 2 cut(s) 96, 997
Fnu4HI GCNGC 4 cut(s) 142, 288, 468, 762
FokI GGATG 2 cut(s) 401, 783
Fsp4HI GCNGC 4 cut(s) 142, 288, 468, 762
FspBI CTAG 3 cut(s) 53, 251, 1148
GluI GCNGC 4 cut(s) 142, 288, 468, 762
GsaI CCCAGC 1 cut(s) 445
GsuI CTGGAG 3 cut(s) 57, 711, 921
HaeIII GGCC 5 cut(s) 330, 403, 535, 732, 1137
HapII CCGG 1 cut(s) 540
HgaI GACGC 1 cut(s) 107
Hin1II CATG 3 cut(s) 186, 833, 1124
HincII GTYRAC 2 cut(s) 97, 527
HindII GTYRAC 2 cut(s) 97, 527
HinfI GANTC 2 cut(s) 193, 999
HpaII CCGG 1 cut(s) 540
HphI GGTGA 3 cut(s) 383, 554, 860
Hpy166II GTNNAC 4 cut(s) 97, 180, 527, 998
Hpy188I TCNGA 3 cut(s) 458, 600, 633
Hpy188III TCNNGA 5 cut(s) 36, 104, 274, 584, 1175
Hpy8I GTNNAC 4 cut(s) 97, 180, 527, 998
Hpy99I CGWCG 5 cut(s) 95, 98, 101, 131, 134
HpyAV CCTTC 5 cut(s) 390, 497, 791, 828, 1061
HpyCH4III ACNGT 6 cut(s) 366, 454, 531, 962, 995, 1074
HpyCH4IV ACGT 3 cut(s) 117, 270, 591
HpyCH4V TGCA 1 cut(s) 470
HpyF10VI GCNNNNNNNGC 3 cut(s) 168, 611, 835
HpyF3I CTNAG 3 cut(s) 222, 429, 895
HpySE526I ACGT 3 cut(s) 117, 270, 591
Hsp92II CATG 3 cut(s) 186, 833, 1124
Ksp22I TGATCA 2 cut(s) 322, 1171
Kzo9I GATC 5 cut(s) 322, 707, 739, 966, 1171
LguI GCTCTTC 1 cut(s) 369
LmnI GCTCC 3 cut(s) 128, 611, 1039
Lsp1109I GCAGC 3 cut(s) 299, 454, 748
MaeI CTAG 3 cut(s) 53, 251, 1148
MaeII ACGT 3 cut(s) 117, 270, 591
MaeIII GTNAC 3 cut(s) 542, 848, 1018
MalI GATC 5 cut(s) 324, 709, 741, 968, 1173
MboI GATC 5 cut(s) 322, 707, 739, 966, 1171
MfeI CAATTG 1 cut(s) 1152
MflI RGATCY 1 cut(s) 966
MhlI GDGCHC 1 cut(s) 442
MluCI AATT 4 cut(s) 80, 145, 555, 1152
MlyI GAGTC 1 cut(s) 993
MmeI TCCRAC 2 cut(s) 170, 481
MnlI CCTC 6 cut(s) 161, 405, 546, 796, 815, 1171
MroXI GAANNNNTTC 2 cut(s) 591, 937
MseI TTAA 3 cut(s) 255, 788, 888
MslI CAYNNNNRTG 1 cut(s) 1086
MspI CCGG 1 cut(s) 540
MspR9I CCNGG 2 cut(s) 28, 540
MunI CAATTG 1 cut(s) 1152
Mva1269I GAATGC 1 cut(s) 775
MvaI CCWGG 1 cut(s) 28
MwoI GCNNNNNNNGC 3 cut(s) 168, 611, 835
NciI CCSGG 1 cut(s) 540
NdeI CATATG 1 cut(s) 337
NdeII GATC 5 cut(s) 322, 707, 739, 966, 1171
NlaIII CATG 3 cut(s) 186, 833, 1124
NlaIV GGNNCC 1 cut(s) 64
NmeAIII GCCGAG 1 cut(s) 356
NmuCI GTSAC 2 cut(s) 542, 848
NspI RCATGY 1 cut(s) 1124
PceI AGGCCT 2 cut(s) 403, 732
PciI ACATGT 1 cut(s) 1120
PciSI GCTCTTC 1 cut(s) 369
PcsI WCGNNNNNNNCGW 2 cut(s) 123, 159
PctI GAATGC 1 cut(s) 775
PdmI GAANNNNTTC 2 cut(s) 591, 937
PfeI GAWTC 1 cut(s) 193
PkrI GCNGC 4 cut(s) 143, 289, 469, 763
PleI GAGTC 1 cut(s) 993
PpsI GAGTC 1 cut(s) 993
PscI ACATGT 1 cut(s) 1120
Psp1406I AACGTT 2 cut(s) 117, 591
Psp6I CCWGG 1 cut(s) 26
PspFI CCCAGC 1 cut(s) 441
PspGI CCWGG 1 cut(s) 26
PspN4I GGNNCC 1 cut(s) 64
PstI CTGCAG 1 cut(s) 472
PsuI RGATCY 1 cut(s) 966
RsaI GTAC 2 cut(s) 205, 478
RsaNI GTAC 2 cut(s) 204, 477
RseI CAYNNNNRTG 1 cut(s) 1086
SalI GTCGAC 1 cut(s) 95
SapI GCTCTTC 1 cut(s) 369
SaqAI TTAA 3 cut(s) 255, 788, 888
SatI GCNGC 4 cut(s) 142, 288, 468, 762
Sau3AI GATC 5 cut(s) 322, 707, 739, 966, 1171
SchI GAGTC 1 cut(s) 993
ScrFI CCNGG 2 cut(s) 28, 540
SduI GDGCHC 1 cut(s) 442
SfcI CTRYAG 1 cut(s) 468
SgrDI CGTCGACG 1 cut(s) 95
SmiMI CAYNNNNRTG 1 cut(s) 1086
SmlI CTYRAG 1 cut(s) 104
SmoI CTYRAG 1 cut(s) 104
Sse9I AATT 4 cut(s) 80, 145, 555, 1152
SseBI AGGCCT 2 cut(s) 403, 732
SsiI CCGC 5 cut(s) 142, 409, 764, 878, 930
SspMI CTAG 3 cut(s) 53, 251, 1148
StuI AGGCCT 2 cut(s) 403, 732
StyD4I CCNGG 2 cut(s) 26, 538
StyI CCWWGG 2 cut(s) 384, 727
TaaI ACNGT 6 cut(s) 366, 454, 531, 962, 995, 1074
TaiI ACGT 3 cut(s) 120, 273, 594
TaqI TCGA 2 cut(s) 96, 318
TasI AATT 4 cut(s) 80, 145, 555, 1152
TauI GCSGC 1 cut(s) 144
TfiI GAWTC 1 cut(s) 193
Tru1I TTAA 3 cut(s) 255, 788, 888
Tru9I TTAA 3 cut(s) 255, 788, 888
TscAI CASTG 1 cut(s) 371
TseFI GTSAC 2 cut(s) 542, 848
TseI GCWGC 3 cut(s) 287, 467, 761
Tsp45I GTSAC 2 cut(s) 542, 848
TspDTI ATGAA 6 cut(s) 84, 369, 608, 684, 810, 1104
TspGWI ACGGA 3 cut(s) 7, 79, 115
TspRI CASTG 1 cut(s) 371
XagI CCTNNNNNAGG 1 cut(s) 726
XapI RAATTY 1 cut(s) 555
XceI RCATGY 1 cut(s) 1124
XmiI GTMKAC 2 cut(s) 96, 997
XmnI GAANNNNTTC 2 cut(s) 591, 937
XspI CTAG 3 cut(s) 53, 251, 1148
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.