MD09G1144200.v1.1

Regulator of chromosome condensation (RCC1) repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0008533
Physical Location & Seq
Reverse (-)
11218846 .. 11222454
3609 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1144200.v1.1.491

Sequence Viewer

Length: 1410 bp
ATGAGTGTCCGTCTGTCTCTCCGCCACCGCTCTTTCGCATACCTCAATCGCTGCCTTTCCTCCTCGCCCTTCTCCACGACCACCACCTCCAAAATCCCCACCCTTTACGAACCCACCGCCGCCCCCACCACCACCACCCAAAACGACGCCGTCCCCACCACAACCCTCCAACTCCTCTCATGGGGCAGAGGCGCCTCCGGCCAGCTCGGCGGCGGCATCGAAGAAATCCGGCTCTACCCAACTCCAGTCGCCAACCTCGTCGTTCCCACCTCATCCTTCACTCTTTCACCAACCCAGGGCCGAATTCAAGCACCCAATTGCTCAAATCAAAAGAACAATGCCGACAGCGGTGTTGTGGAGGTGGGTATTTCTTGTGGCTTGTTCCACTCATCGCTGTTGGTAGACGGTAAGGTTTGGATTTGGGGTAAAGGCGACGGCGGTCGACTTGGTTTTGGGCATGAGAATTCTCTGTTTCTCCCCACTTTGAACCCGAATTTGGATTCGGTTCGCTTTGTGGCGCTTGGCGGGTTGCATTCGGTGGCGCTCACCGCCACCGGGGAGGTCTATACTTGGGGTTATGGTGGTTTTGGTGCACTTGGGCATTCTGTTTATACTAGAGAGTTGTTCCCTAGATTGGTAGAAGGATCGTGGAGTGGGAAAATACGTCATATTTCGACTAGTGGGACGCATACTGGTGCCATCACGGAATCAGGAGAACTTTATACTTGGGGTCGAGATGAAGGGGATGGTAGATTGGGACTTGGTCCTAATCGAGGCCCAAACGAGGGTGGTGGACTCAGCATACCCTCCAAAGTAAAAGCATTACCTATGCCTGTGACTGCTGTTTCTTGCGGAGGTTTTTTCACAATGGCACTGACAGAAGATGGGGAACTTTGGAATTGGGGAGCAAACTCTAACTATGAGCTTGGAAGGGGTGATAAGGTTGGTGGTTGGACACCAAAACCAGTTCCTAGTCTTGCAGGCATTCGTATTATTCAGATAGAAAGTGGTGGATATCATTCTCTTGCGTTAAATGATGAAGGTAAAGTACTTTCTTGGGGCCATGGTGGTCATGGTCAGTTGGGCAACTCTTCTTTACAAAGTCAGAAAACACCTACAGTTGTTGAGGCTTTACCTGATGAGCGTGTTATCTATATTGCTTGCGGGGGTTCATCTTCAGCAGCTATAACAGATAAAGGAAAGTTGTATATGTGGGGATACACCAAAGACTCTCAGTTAGGAGTACCTGGGCTGCCGGAGATCCAACCATCTCCTGTTGAAGTCAAGTTTTTAATGGAGGATGATGGACTGGGAGCCCACAATGTGCTGTCTGTTGCAGTTGGTGCTTCCCATGCCATGTGCTTGGTTTCAAGGTCCGTTTGTCAAAAATTTCACGGTGATAATTACTAA
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

470

Amino Acids

49.6

Weight (kDa)

6.5

Isoelectric Point (pI)

35.81

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
WD40_RLD PF25390 57 - 454 3e-80 RCC1-like domain
RCC1 PF00415 135 - 182 5.1e-09 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 169 - 197 4.7e-07 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 186 - 234 5.6e-09 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 237 - 292 1.4e-09 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 279 - 306 5.7e-08 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 295 - 344 2.1e-12 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 331 - 360 5.1e-09 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 347 - 396 2.2e-13 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 399 - 455 6.5e-07 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)
AccB1I GGYRCC 2 cut(s) 191, 695
AccBSI CCGCTC 1 cut(s) 30
AccI GTMKAC 2 cut(s) 402, 442
AclWI GGATC 2 cut(s) 652, 1255
AcoI YGGCCR 1 cut(s) 199
AcsI RAATTY 4 cut(s) 303, 463, 493, 1388
AcuI CTGAAG 1 cut(s) 1161
AcyI GRCGYC 2 cut(s) 147, 192
AdeI CACNNNGTG 1 cut(s) 1324
AfaI GTAC 2 cut(s) 1050, 1245
AfiI CCNNNNNNNGG 8 cut(s) 181, 296, 496, 555, 634, 773, 784, 785
AgsI TTSAA 4 cut(s) 308, 487, 1280, 1371
AhlI ACTAGT 1 cut(s) 677
AjnI CCWGG 2 cut(s) 294, 1246
AjuI GAANNNNNNNTTGG 2 cut(s) 479, 511
AluBI AGCT 3 cut(s) 205, 925, 1184
AluI AGCT 3 cut(s) 205, 925, 1184
Alw21I GWGCWC 1 cut(s) 595
Alw26I GTCTC 1 cut(s) 21
Alw44I GTGCAC 1 cut(s) 591
AlwI GGATC 2 cut(s) 652, 1255
AoxI GGCC 4 cut(s) 199, 298, 775, 1060
ApaLI GTGCAC 1 cut(s) 591
ApeKI GCWGC 3 cut(s) 51, 1181, 1252
ApoI RAATTY 4 cut(s) 303, 463, 493, 1388
AspLEI GCGC 3 cut(s) 194, 520, 544
AspS9I GGNCC 5 cut(s) 298, 764, 776, 1060, 1374
AsuC2I CCSGG 1 cut(s) 556
AsuHPI GGTGA 4 cut(s) 279, 538, 947, 1409
AvaII GGWCC 2 cut(s) 764, 1374
BaeGI GKGCMC 1 cut(s) 595
BanI GGYRCC 2 cut(s) 191, 695
BanII GRGCYC 1 cut(s) 1318
BarI GAAGNNNNNNTAC 2 cut(s) 1032, 1064
Bbv12I GWGCWC 1 cut(s) 595
BbvI GCAGC 3 cut(s) 38, 1193, 1239
BccI CCATC 5 cut(s) 707, 740, 878, 1276, 1298
BceAI ACGGC 2 cut(s) 134, 451
BciT130I CCWGG 2 cut(s) 296, 1248
BciVI GTATCC 1 cut(s) 1211
BcnI CCSGG 1 cut(s) 556
BcoDI GTCTC 1 cut(s) 21
BcuI ACTAGT 1 cut(s) 677
BfaI CTAG 4 cut(s) 615, 630, 678, 972
BfmI CTRYAG 1 cut(s) 1116
BfoI RGCGCY 3 cut(s) 195, 521, 545
BfuI GTATCC 1 cut(s) 1211
BglI GCCNNNNNGGC 1 cut(s) 207
BisI GCNGC 6 cut(s) 52, 120, 211, 214, 1182, 1253
BlsI GCNGC 6 cut(s) 53, 121, 212, 215, 1183, 1254
BmcAI AGTACT 1 cut(s) 1050
Bme1390I CCNGG 3 cut(s) 296, 556, 1248
Bme18I GGWCC 2 cut(s) 764, 1374
BmgT120I GGNCC 5 cut(s) 298, 764, 776, 1060, 1374
BmiI GGNNCC 4 cut(s) 193, 697, 1061, 1315
BmrFI CCNGG 3 cut(s) 296, 556, 1248
BmrI ACTGGG 1 cut(s) 1319
BmsI GCATC 1 cut(s) 225
BmuI ACTGGG 1 cut(s) 1319
BoxI GACNNNNGTC 1 cut(s) 438
BpmI CTGGAG 1 cut(s) 228
BpuMI CCSGG 1 cut(s) 556
BsaHI GRCGYC 2 cut(s) 147, 192
BsaJI CCNNGG 5 cut(s) 294, 295, 555, 1063, 1247
Bsc4I CCNNNNNNNGG 8 cut(s) 181, 296, 496, 555, 634, 773, 784, 785
Bse1I ACTGG 4 cut(s) 245, 697, 965, 1314
BseBI CCWGG 2 cut(s) 296, 1248
BseDI CCNNGG 5 cut(s) 294, 295, 555, 1063, 1247
BseGI GGATG 3 cut(s) 272, 751, 1306
BseLI CCNNNNNNNGG 8 cut(s) 181, 296, 496, 555, 634, 773, 784, 785
BseMII CTCAG 2 cut(s) 811, 1247
BseNI ACTGG 4 cut(s) 245, 697, 965, 1314
BseRI GAGGAG 2 cut(s) 52, 164
BseSI GKGCMC 1 cut(s) 595
BseXI GCAGC 3 cut(s) 38, 1193, 1239
Bsh1285I CGRYCG 1 cut(s) 442
BshFI GGCC 4 cut(s) 201, 300, 777, 1062
BshNI GGYRCC 2 cut(s) 191, 695
BsiEI CGRYCG 1 cut(s) 442
BsiHKAI GWGCWC 1 cut(s) 595
BsiSI CCGG 4 cut(s) 198, 229, 555, 1256
BslFI GGGAC 3 cut(s) 137, 697, 771
BslI CCNNNNNNNGG 8 cut(s) 181, 296, 496, 555, 634, 773, 784, 785
BsmAI GTCTC 1 cut(s) 21
BsmFI GGGAC 3 cut(s) 137, 697, 771
BsmI GAATGC 3 cut(s) 532, 601, 984
BsnI GGCC 4 cut(s) 201, 300, 777, 1062
Bsp1286I GDGCHC 2 cut(s) 595, 1318
Bsp143I GATC 2 cut(s) 644, 1260
Bsp19I CCATGG 1 cut(s) 1063
BspANI GGCC 4 cut(s) 201, 300, 777, 1062
BspCNI CTCAG 2 cut(s) 810, 1246
BspLI GGNNCC 4 cut(s) 193, 697, 1061, 1315
BspPI GGATC 2 cut(s) 652, 1255
BspT107I GGYRCC 2 cut(s) 191, 695
BsrBI CCGCTC 1 cut(s) 30
BsrI ACTGG 4 cut(s) 245, 697, 965, 1314
BssECI CCNNGG 5 cut(s) 294, 295, 555, 1063, 1247
BssMI GATC 2 cut(s) 644, 1260
BssNI GRCGYC 2 cut(s) 147, 192
BssT1I CCWWGG 1 cut(s) 1063
Bst2UI CCWGG 2 cut(s) 296, 1248
Bst4CI ACNGT 3 cut(s) 407, 1120, 1397
Bst6I CTCTTC 1 cut(s) 1096
BstACI GRCGYC 2 cut(s) 147, 192
BstAPI GCANNNNNTGC 1 cut(s) 1343
BstC8I GCNNGC 3 cut(s) 203, 982, 1162
BstDEI CTNAG 2 cut(s) 797, 1233
BstDSI CCRYGG 1 cut(s) 1063
BstENI CCTNNNNNAGG 1 cut(s) 771
BstF5I GGATG 3 cut(s) 272, 751, 1306
BstH2I RGCGCY 3 cut(s) 195, 521, 545
BstHHI GCGC 3 cut(s) 194, 520, 544
BstKTI GATC 2 cut(s) 647, 1263
BstMAI GTCTC 1 cut(s) 21
BstMBI GATC 2 cut(s) 644, 1260
BstMCI CGRYCG 1 cut(s) 442
BstMWI GCNNNNNNNGC 5 cut(s) 198, 207, 548, 1343, 1352
BstNI CCWGG 2 cut(s) 296, 1248
BstPAI GACNNNNGTC 1 cut(s) 438
BstSCI CCNGG 3 cut(s) 294, 554, 1246
BstSFI CTRYAG 1 cut(s) 1116
BstSLI GKGCMC 1 cut(s) 595
BstV1I GCAGC 3 cut(s) 38, 1193, 1239
BstX2I RGATCY 1 cut(s) 1260
BstXI CCANNNNNNTGG 1 cut(s) 1363
BstYI RGATCY 1 cut(s) 1260
BsuI GTATCC 1 cut(s) 1211
BsuRI GGCC 4 cut(s) 201, 300, 777, 1062
BtgI CCRYGG 1 cut(s) 1063
BtgZI GCGATG 1 cut(s) 375
BtsCI GGATG 3 cut(s) 272, 751, 1306
BtsIMutI CAGTG 1 cut(s) 872
Cac8I GCNNGC 3 cut(s) 203, 982, 1162
CfoI GCGC 3 cut(s) 194, 520, 544
Cfr13I GGNCC 5 cut(s) 298, 764, 776, 1060, 1374
CseI GACGC 2 cut(s) 155, 694
Csp6I GTAC 2 cut(s) 1049, 1244
CviAII CATG 6 cut(s) 180, 458, 1064, 1073, 1352, 1357
CviQI GTAC 2 cut(s) 1049, 1244
DdeI CTNAG 2 cut(s) 797, 1233
DinI GGCGCC 1 cut(s) 193
DpnI GATC 2 cut(s) 646, 1262
DpnII GATC 2 cut(s) 644, 1260
DraIII CACNNNGTG 1 cut(s) 1324
EaeI YGGCCR 1 cut(s) 199
Eam1104I CTCTTC 1 cut(s) 1096
EarI CTCTTC 1 cut(s) 1096
EciI GGCGGA 1 cut(s) 11
Eco130I CCWWGG 1 cut(s) 1063
Eco24I GRGCYC 1 cut(s) 1318
Eco32I GATATC 1 cut(s) 1016
Eco47I GGWCC 2 cut(s) 764, 1374
Eco57I CTGAAG 1 cut(s) 1161
EcoNI CCTNNNNNAGG 1 cut(s) 771
EcoRI GAATTC 2 cut(s) 303, 463
EcoRII CCWGG 2 cut(s) 294, 1246
EcoRV GATATC 1 cut(s) 1016
EcoT14I CCWWGG 1 cut(s) 1063
EcoT38I GRGCYC 1 cut(s) 1318
EgeI GGCGCC 1 cut(s) 193
EheI GGCGCC 1 cut(s) 193
ErhI CCWWGG 1 cut(s) 1063
FaeI CATG 6 cut(s) 183, 461, 1067, 1076, 1355, 1360
FaqI GGGAC 3 cut(s) 137, 697, 771
FatI CATG 6 cut(s) 179, 457, 1063, 1072, 1351, 1356
FauI CCCGC 2 cut(s) 518, 1157
FblI GTMKAC 2 cut(s) 402, 442
Fnu4HI GCNGC 6 cut(s) 52, 120, 211, 214, 1182, 1253
FokI GGATG 3 cut(s) 259, 758, 1313
FriOI GRGCYC 1 cut(s) 1318
Fsp4HI GCNGC 6 cut(s) 52, 120, 211, 214, 1182, 1253
FspBI CTAG 4 cut(s) 615, 630, 678, 972
GlaI GCGC 3 cut(s) 193, 519, 543
GluI GCNGC 6 cut(s) 52, 120, 211, 214, 1182, 1253
GsuI CTGGAG 1 cut(s) 228
HaeII RGCGCY 3 cut(s) 195, 521, 545
HaeIII GGCC 4 cut(s) 201, 300, 777, 1062
HapII CCGG 4 cut(s) 198, 229, 555, 1256
HgaI GACGC 2 cut(s) 155, 694
HhaI GCGC 3 cut(s) 194, 520, 544
Hin1I GRCGYC 2 cut(s) 147, 192
Hin1II CATG 6 cut(s) 183, 461, 1067, 1076, 1355, 1360
Hin6I GCGC 3 cut(s) 192, 518, 542
HinP1I GCGC 3 cut(s) 192, 518, 542
HincII GTYRAC 1 cut(s) 443
HindII GTYRAC 1 cut(s) 443
HinfI GANTC 4 cut(s) 500, 707, 795, 1229
HpaII CCGG 4 cut(s) 198, 229, 555, 1256
HphI GGTGA 4 cut(s) 279, 538, 947, 1409
Hpy166II GTNNAC 4 cut(s) 403, 443, 593, 794
Hpy188I TCNGA 2 cut(s) 999, 1107
Hpy188III TCNNGA 2 cut(s) 711, 734
Hpy8I GTNNAC 4 cut(s) 403, 443, 593, 794
Hpy99I CGWCG 3 cut(s) 149, 263, 437
HpyAV CCTTC 6 cut(s) 79, 286, 635, 734, 924, 1034
HpyCH4III ACNGT 3 cut(s) 407, 1120, 1397
HpyCH4IV ACGT 1 cut(s) 664
HpyCH4V TGCA 4 cut(s) 532, 593, 980, 1337
HpyF10VI GCNNNNNNNGC 5 cut(s) 198, 207, 548, 1343, 1352
HpyF3I CTNAG 2 cut(s) 797, 1233
HpySE526I ACGT 1 cut(s) 664
Hsp92I GRCGYC 2 cut(s) 147, 192
Hsp92II CATG 6 cut(s) 183, 461, 1067, 1076, 1355, 1360
HspAI GCGC 3 cut(s) 192, 518, 542
KasI GGCGCC 1 cut(s) 191
Kzo9I GATC 2 cut(s) 644, 1260
LmnI GCTCC 2 cut(s) 905, 1313
Lsp1109I GCAGC 3 cut(s) 38, 1193, 1239
LweI GCATC 1 cut(s) 225
MaeI CTAG 4 cut(s) 615, 630, 678, 972
MaeII ACGT 1 cut(s) 664
MaeIII GTNAC 1 cut(s) 835
MalI GATC 2 cut(s) 646, 1262
MbiI CCGCTC 1 cut(s) 30
MboI GATC 2 cut(s) 644, 1260
MboII GAAGA 4 cut(s) 233, 893, 1083, 1167
MfeI CAATTG 1 cut(s) 316
MflI RGATCY 1 cut(s) 1260
MhlI GDGCHC 2 cut(s) 595, 1318
MluCI AATT 7 cut(s) 303, 316, 463, 493, 898, 1388, 1402
Mly113I GGCGCC 1 cut(s) 192
MlyI GAGTC 2 cut(s) 789, 1223
MmeI TCCRAC 3 cut(s) 193, 932, 1288
MseI TTAA 2 cut(s) 1031, 1292
MslI CAYNNNNRTG 1 cut(s) 693
MspA1I CMGCKG 1 cut(s) 348
MspI CCGG 4 cut(s) 198, 229, 555, 1256
MspR9I CCNGG 3 cut(s) 296, 556, 1248
MunI CAATTG 1 cut(s) 316
Mva1269I GAATGC 3 cut(s) 532, 601, 984
MvaI CCWGG 2 cut(s) 296, 1248
MwoI GCNNNNNNNGC 5 cut(s) 198, 207, 548, 1343, 1352
NarI GGCGCC 1 cut(s) 192
NciI CCSGG 1 cut(s) 556
NcoI CCATGG 1 cut(s) 1063
NdeII GATC 2 cut(s) 644, 1260
NlaIII CATG 6 cut(s) 183, 461, 1067, 1076, 1355, 1360
NlaIV GGNNCC 4 cut(s) 193, 697, 1061, 1315
NmeAIII GCCGAG 1 cut(s) 186
NmuCI GTSAC 1 cut(s) 835
PasI CCCWGGG 1 cut(s) 295
PcsI WCGNNNNNNNCGW 1 cut(s) 255
PctI GAATGC 3 cut(s) 532, 601, 984
PfeI GAWTC 2 cut(s) 500, 707
PflFI GACNNNGTC 2 cut(s) 149, 762
PkrI GCNGC 6 cut(s) 53, 121, 212, 215, 1183, 1254
PleI GAGTC 2 cut(s) 789, 1223
PluTI GGCGCC 1 cut(s) 195
PpsI GAGTC 2 cut(s) 789, 1223
PshAI GACNNNNGTC 1 cut(s) 438
Psp6I CCWGG 2 cut(s) 294, 1246
PspGI CCWGG 2 cut(s) 294, 1246
PspN4I GGNNCC 4 cut(s) 193, 697, 1061, 1315
PspPI GGNCC 5 cut(s) 298, 764, 776, 1060, 1374
PsuI RGATCY 1 cut(s) 1260
PsyI GACNNNGTC 2 cut(s) 149, 762
RsaI GTAC 2 cut(s) 1050, 1245
RsaNI GTAC 2 cut(s) 1049, 1244
RseI CAYNNNNRTG 1 cut(s) 693
SalI GTCGAC 1 cut(s) 441
SaqAI TTAA 2 cut(s) 1031, 1292
SatI GCNGC 6 cut(s) 52, 120, 211, 214, 1182, 1253
Sau3AI GATC 2 cut(s) 644, 1260
Sau96I GGNCC 5 cut(s) 298, 764, 776, 1060, 1374
ScaI AGTACT 1 cut(s) 1050
SchI GAGTC 2 cut(s) 789, 1223
ScrFI CCNGG 3 cut(s) 296, 556, 1248
SduI GDGCHC 2 cut(s) 595, 1318
SfaNI GCATC 1 cut(s) 225
SfcI CTRYAG 1 cut(s) 1116
SfoI GGCGCC 1 cut(s) 193
SinI GGWCC 2 cut(s) 764, 1374
SmiMI CAYNNNNRTG 1 cut(s) 693
SpeI ACTAGT 1 cut(s) 677
Sse9I AATT 7 cut(s) 303, 316, 463, 493, 898, 1388, 1402
SspDI GGCGCC 1 cut(s) 191
SspMI CTAG 4 cut(s) 615, 630, 678, 972
StyD4I CCNGG 3 cut(s) 294, 554, 1246
StyI CCWWGG 1 cut(s) 1063
TaaI ACNGT 3 cut(s) 407, 1120, 1397
TaiI ACGT 1 cut(s) 667
TaqI TCGA 5 cut(s) 219, 442, 674, 733, 772
TasI AATT 7 cut(s) 303, 316, 463, 493, 898, 1388, 1402
TatI WGTACW 1 cut(s) 1048
TauI GCSGC 3 cut(s) 122, 213, 216
TfiI GAWTC 2 cut(s) 500, 707
Tru1I TTAA 2 cut(s) 1031, 1292
Tru9I TTAA 2 cut(s) 1031, 1292
TscAI CASTG 1 cut(s) 879
TseFI GTSAC 1 cut(s) 835
TseI GCWGC 3 cut(s) 51, 1181, 1252
Tsp45I GTSAC 1 cut(s) 835
TspDTI ATGAA 3 cut(s) 753, 1053, 1161
TspGWI ACGGA 2 cut(s) 719, 1366
TspRI CASTG 1 cut(s) 879
Tth111I GACNNNGTC 2 cut(s) 149, 762
VneI GTGCAC 1 cut(s) 591
VpaK11BI GGWCC 2 cut(s) 764, 1374
XagI CCTNNNNNAGG 1 cut(s) 771
XapI RAATTY 4 cut(s) 303, 463, 493, 1388
XcmI CCANNNNNNNNNTGG 1 cut(s) 1070
XmiI GTMKAC 2 cut(s) 402, 442
XspI CTAG 4 cut(s) 615, 630, 678, 972
ZrmI AGTACT 1 cut(s) 1050
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.