MD16G1079700.v1.1

Regulator of chromosome condensation (RCC1) repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr16
OG0006605
Physical Location & Seq
Forward (+)
5590267 .. 5593439
3173 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1079700.v1.1.491

Sequence Viewer

Length: 1272 bp
ATGAGAAATTTAATAGAATCACAGAAAGCAGAAGTCATTGAGAAGGAAGAGCATCAGGGCACCGTAGTAATGGAAGAGAGTGAAGAAAGCAGAGTAGCAAAGCACGACGAAGAAGGAAGCAGCGAGCAACAGATATGGAGTTGGGGGGCAGGAACGGACGGGCAACTGGGCACGGGCAGGCTACAGGACGAGCACCTCCCTCAGCTGCTTCGCCTCCCTTCTCTCTCCCCCGCCGCCGGATCCATCTGCTCCCTTGCCTGCGGCGGTGCTCACGTTCTCGCCTTAACCTCAGGTGGGAAGGTGCTGACATGGGGAAGGGGTACGTCTGGTCAACTGGGTCATCCTGATACGGTCAACAGTCCAAATCCTAAGTTTGTAATGTCTTTGAACAACCTCTTCATTACTCATGCTTCTGCTGGTTGGAACCACTCCGGTTTTGTTTCAGATGCAGGAGATCTTTTCACGTGCGGAGATGGCTCGTTTGGTCAGCTCGGGCATGGTGATTTCCAGTCGCATTGCTATCCTGTCAAAGTCTCCTTCTTTGTTGATAAGCACGTGGAGCAGATAGCATGCGGGATGCGCCATTCGCTTGTTTTGGTGAAAGGAGATGAAGTTTATGCGTTTGGTTCGGGGAAGCGTGGTCAACTGGGTATCTCTGAGGATAAGATCAAATTAGTTAATATTCCTGAACGAATTCATGGATTTGACAGCGTAAAAATCACTAGCATCGCTGCAAATGGAGATCATAGTGCTGCGTTATCTGCTGATGGGCATTTGTACACTTGGGGAAGAGGGTTCGGTGGCATCTCAAGCGCTCACTCCCCACAGCGTTTATCTACATCGTTCTTGTTTACCAAAGTTGCTGTTGGATGGAATCATTCTTTGGTATTGACGGGTGGAGAAGTTTTTATGCTTGGTGGAAATCACCATGGAGTTCTTAGTAATCCTGAAAAAATTACTCCAATAAAGCACTTAGCAGATCCGAGGGAAGTTGTCCTGGAGAAAGTCCCCGACCTCGAAGGGACTGGAATTGTGCACATTGCATCTGGAGCTGAGCACTCTGCTATTGTGACCGAGGATGGAGTGATTAAGACATGGGGTTGGGGTGAACATGGTCAGCTTGGCTTGGGAAATACAGATGACCAAACGAGTCCTCAAGAAGTGAGTTTCGGCCACAGATTTCGGAAAGAAGCGGACACAATCGAGATTTACTGCGGTAGCGGGTTTACAATTGTCGTAAGAACTTCACGTCGCTGTTCTCAGACAGATTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko04120 map04120
Pfam Domains
Protein Families
RCC1 RRM_1

Protein Analysis

424

Amino Acids

45.36

Weight (kDa)

5.82

Isoelectric Point (pI)

33.03

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Alsin_RLD PF25384 42 - 122 3.5e-06 Alsin RCC1-like domain
WD40_RLD PF25390 44 - 412 6.3e-83 RCC1-like domain
RCC1 PF00415 44 - 95 2.3e-10 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 82 - 111 4.2e-08 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 99 - 146 1.6e-13 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 151 - 199 4.9e-15 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 186 - 215 8.6e-06 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 204 - 253 4.4e-09 Regulator of chromosome condensation (RCC1) repeat
RCC1_2 PF13540 240 - 265 1.1e-06 Regulator of chromosome condensation (RCC1) repeat
Alsin_RLD PF25384 300 - 415 6.7e-09 Alsin RCC1-like domain
RCC1_2 PF13540 344 - 373 2.2e-07 Regulator of chromosome condensation (RCC1) repeat
RCC1 PF00415 365 - 413 7.7e-10 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 59
AciI CCGC 9 cut(s) 231, 234, 261, 264, 468, 573, 1193, 1215, 1221
AclWI GGATC 3 cut(s) 234, 247, 974
AcoI YGGCCR 1 cut(s) 1171
AcsI RAATTY 2 cut(s) 7, 693
AcvI CACGTG 2 cut(s) 465, 556
AfaI GTAC 2 cut(s) 322, 779
AfeI AGCGCT 1 cut(s) 814
AfiI CCNNNNNNNGG 2 cut(s) 236, 294
AgsI TTSAA 1 cut(s) 388
AjiI CACGTC 1 cut(s) 1250
AjnI CCWGG 1 cut(s) 996
AjuI GAANNNNNNNTTGG 2 cut(s) 866, 898
AluBI AGCT 4 cut(s) 205, 490, 1052, 1120
AluI AGCT 4 cut(s) 205, 490, 1052, 1120
Alw21I GWGCWC 4 cut(s) 195, 271, 1038, 1059
Alw26I GTCTC 1 cut(s) 538
Alw44I GTGCAC 1 cut(s) 1034
AlwI GGATC 3 cut(s) 234, 247, 974
Ama87I CYCGRG 1 cut(s) 491
Aor51HI AGCGCT 1 cut(s) 814
AoxI GGCC 1 cut(s) 1171
ApaLI GTGCAC 1 cut(s) 1034
ApeKI GCWGC 4 cut(s) 120, 205, 731, 752
ApoI RAATTY 2 cut(s) 7, 693
Asp700I GAANNNNTTC 1 cut(s) 693
AspLEI GCGC 2 cut(s) 582, 815
AsuHPI GGTGA 4 cut(s) 512, 610, 917, 1118
AvaI CYCGRG 1 cut(s) 491
AxyI CCTNAGG 1 cut(s) 289
BaeGI GKGCMC 3 cut(s) 62, 173, 1038
BamHI GGATCC 1 cut(s) 239
BanI GGYRCC 1 cut(s) 59
BbrPI CACGTG 2 cut(s) 465, 556
Bbv12I GWGCWC 4 cut(s) 195, 271, 1038, 1059
BbvCI CCTCAGC 1 cut(s) 201
BbvI GCAGC 4 cut(s) 132, 192, 718, 739
BccI CCATC 5 cut(s) 251, 467, 761, 864, 1073
BciT130I CCWGG 1 cut(s) 998
BcoDI GTCTC 1 cut(s) 538
BfaI CTAG 1 cut(s) 723
BfmI CTRYAG 1 cut(s) 182
BfoI RGCGCY 1 cut(s) 816
BglII AGATCT 1 cut(s) 454
BisI GCNGC 6 cut(s) 121, 206, 234, 262, 732, 753
BlpI GCTNAGC 1 cut(s) 1053
BlsI GCNGC 6 cut(s) 122, 207, 235, 263, 733, 754
Bme1390I CCNGG 1 cut(s) 998
BmeT110I CYCGRG 1 cut(s) 491
BmgBI CACGTC 1 cut(s) 1250
BmiI GGNNCC 3 cut(s) 61, 241, 425
BmrFI CCNGG 1 cut(s) 998
BmrI ACTGGG 3 cut(s) 176, 344, 656
BmsI GCATC 6 cut(s) 61, 436, 567, 735, 813, 1052
BmuI ACTGGG 3 cut(s) 176, 344, 656
BpmI CTGGAG 2 cut(s) 1019, 1068
Bpu10I CCTNAGC 1 cut(s) 201
Bpu1102I GCTNAGC 1 cut(s) 1053
BpuEI CTTGAG 2 cut(s) 793, 1140
BsaAI YACGTR 2 cut(s) 465, 556
BsaJI CCNNGG 3 cut(s) 928, 983, 1074
BsaWI WCCGGW 1 cut(s) 431
BsaXI ACNNNNNCTCC 2 cut(s) 597, 627
Bsc4I CCNNNNNNNGG 2 cut(s) 236, 294
Bse1I ACTGG 5 cut(s) 171, 339, 508, 651, 1030
Bse21I CCTNAGG 1 cut(s) 289
Bse3DI GCAATG 2 cut(s) 514, 1038
BseBI CCWGG 1 cut(s) 998
BseDI CCNNGG 3 cut(s) 928, 983, 1074
BseGI GGATG 4 cut(s) 340, 582, 875, 1084
BseLI CCNNNNNNNGG 2 cut(s) 236, 294
BseMI GCAATG 2 cut(s) 514, 1038
BseMII CTCAG 4 cut(s) 215, 303, 648, 1044
BseNI ACTGG 5 cut(s) 171, 339, 508, 651, 1030
BseSI GKGCMC 3 cut(s) 62, 173, 1038
BseXI GCAGC 4 cut(s) 132, 192, 718, 739
BshFI GGCC 1 cut(s) 1173
BshNI GGYRCC 1 cut(s) 59
BsiHKAI GWGCWC 4 cut(s) 195, 271, 1038, 1059
BsiHKCI CYCGRG 1 cut(s) 491
BsiSI CCGG 2 cut(s) 237, 432
BslFI GGGAC 2 cut(s) 992, 1036
BslI CCNNNNNNNGG 2 cut(s) 236, 294
BsmAI GTCTC 1 cut(s) 538
BsmFI GGGAC 2 cut(s) 992, 1036
BsnI GGCC 1 cut(s) 1173
BsoBI CYCGRG 1 cut(s) 491
Bsp1286I GDGCHC 6 cut(s) 62, 173, 195, 271, 1038, 1059
Bsp1407I TGTACA 1 cut(s) 777
Bsp143I GATC 5 cut(s) 239, 454, 666, 742, 979
Bsp1720I GCTNAGC 1 cut(s) 1053
Bsp19I CCATGG 1 cut(s) 928
BspACI CCGC 9 cut(s) 231, 234, 261, 264, 468, 573, 1193, 1215, 1221
BspANI GGCC 1 cut(s) 1173
BspCNI CTCAG 4 cut(s) 214, 302, 649, 1045
BspLI GGNNCC 3 cut(s) 61, 241, 425
BspPI GGATC 3 cut(s) 234, 247, 974
BspQI GCTCTTC 1 cut(s) 42
BspT107I GGYRCC 1 cut(s) 59
BsrDI GCAATG 2 cut(s) 514, 1038
BsrGI TGTACA 1 cut(s) 777
BsrI ACTGG 5 cut(s) 171, 339, 508, 651, 1030
BssECI CCNNGG 3 cut(s) 928, 983, 1074
BssMI GATC 5 cut(s) 239, 454, 666, 742, 979
BssT1I CCWWGG 1 cut(s) 928
Bst2UI CCWGG 1 cut(s) 998
Bst4CI ACNGT 3 cut(s) 64, 352, 359
Bst6I CTCTTC 4 cut(s) 42, 69, 401, 784
BstAUI TGTACA 1 cut(s) 777
BstBAI YACGTR 2 cut(s) 465, 556
BstC8I GCNNGC 4 cut(s) 125, 179, 259, 571
BstDEI CTNAG 8 cut(s) 201, 289, 369, 657, 938, 973, 1053, 1260
BstDSI CCRYGG 1 cut(s) 928
BstF5I GGATG 4 cut(s) 340, 582, 875, 1084
BstH2I RGCGCY 1 cut(s) 816
BstHHI GCGC 2 cut(s) 582, 815
BstKTI GATC 5 cut(s) 242, 457, 669, 745, 982
BstMAI GTCTC 1 cut(s) 538
BstMBI GATC 5 cut(s) 239, 454, 666, 742, 979
BstMWI GCNNNNNNNGC 7 cut(s) 474, 559, 579, 586, 761, 810, 1049
BstNI CCWGG 1 cut(s) 998
BstNSI RCATGY 1 cut(s) 573
BstSCI CCNGG 1 cut(s) 996
BstSFI CTRYAG 1 cut(s) 182
BstSLI GKGCMC 3 cut(s) 62, 173, 1038
BstV1I GCAGC 4 cut(s) 132, 192, 718, 739
BstX2I RGATCY 3 cut(s) 239, 454, 979
BstYI RGATCY 3 cut(s) 239, 454, 979
Bsu36I CCTNAGG 1 cut(s) 289
BsuRI GGCC 1 cut(s) 1173
BtgI CCRYGG 1 cut(s) 928
BtgZI GCGATG 1 cut(s) 712
BtrI CACGTC 1 cut(s) 1250
BtsCI GGATG 4 cut(s) 340, 582, 875, 1084
Cac8I GCNNGC 4 cut(s) 125, 179, 259, 571
CfoI GCGC 2 cut(s) 582, 815
Csp6I GTAC 2 cut(s) 321, 778
CviAII CATG 8 cut(s) 309, 407, 497, 570, 698, 929, 1095, 1112
CviJI RGCY 8 cut(s) 181, 205, 477, 490, 1052, 1120, 1125, 1173
CviKI_1 RGCY 8 cut(s) 181, 205, 477, 490, 1052, 1120, 1125, 1173
CviQI GTAC 2 cut(s) 321, 778
DdeI CTNAG 8 cut(s) 201, 289, 369, 657, 938, 973, 1053, 1260
DpnI GATC 5 cut(s) 241, 456, 668, 744, 981
DpnII GATC 5 cut(s) 239, 454, 666, 742, 979
EaeI YGGCCR 1 cut(s) 1171
Eam1104I CTCTTC 4 cut(s) 42, 69, 401, 784
EarI CTCTTC 4 cut(s) 42, 69, 401, 784
Eco130I CCWWGG 1 cut(s) 928
Eco47III AGCGCT 1 cut(s) 814
Eco72I CACGTG 2 cut(s) 465, 556
Eco81I CCTNAGG 1 cut(s) 289
Eco88I CYCGRG 1 cut(s) 491
EcoRI GAATTC 1 cut(s) 693
EcoRII CCWGG 1 cut(s) 996
EcoT14I CCWWGG 1 cut(s) 928
ErhI CCWWGG 1 cut(s) 928
FaeI CATG 8 cut(s) 312, 410, 500, 573, 701, 932, 1098, 1115
FaqI GGGAC 2 cut(s) 992, 1036
FatI CATG 8 cut(s) 308, 406, 496, 569, 697, 928, 1094, 1111
FauI CCCGC 3 cut(s) 238, 566, 1214
Fnu4HI GCNGC 6 cut(s) 121, 206, 234, 262, 732, 753
FokI GGATG 4 cut(s) 327, 589, 882, 1091
Fsp4HI GCNGC 6 cut(s) 121, 206, 234, 262, 732, 753
FspBI CTAG 1 cut(s) 723
GlaI GCGC 2 cut(s) 581, 814
GluI GCNGC 6 cut(s) 121, 206, 234, 262, 732, 753
GsuI CTGGAG 2 cut(s) 1019, 1068
HaeII RGCGCY 1 cut(s) 816
HaeIII GGCC 1 cut(s) 1173
HapII CCGG 2 cut(s) 237, 432
HhaI GCGC 2 cut(s) 582, 815
Hin1II CATG 8 cut(s) 312, 410, 500, 573, 701, 932, 1098, 1115
Hin6I GCGC 2 cut(s) 580, 813
HinP1I GCGC 2 cut(s) 580, 813
HincII GTYRAC 3 cut(s) 332, 355, 644
HindII GTYRAC 3 cut(s) 332, 355, 644
HinfI GANTC 3 cut(s) 17, 874, 1150
HpaII CCGG 2 cut(s) 237, 432
HphI GGTGA 4 cut(s) 512, 610, 917, 1118
Hpy166II GTNNAC 8 cut(s) 332, 355, 644, 780, 852, 1036, 1109, 1227
Hpy188I TCNGA 5 cut(s) 445, 658, 984, 1185, 1263
Hpy188III TCNNGA 6 cut(s) 344, 686, 947, 1047, 1157, 1204
Hpy8I GTNNAC 8 cut(s) 332, 355, 644, 780, 852, 1036, 1109, 1227
Hpy99I CGWCG 2 cut(s) 110, 1254
HpyAV CCTTC 7 cut(s) 37, 107, 228, 292, 309, 547, 1013
HpyCH4III ACNGT 3 cut(s) 64, 352, 359
HpyCH4IV ACGT 5 cut(s) 273, 323, 464, 555, 1249
HpyCH4V TGCA 4 cut(s) 449, 734, 1036, 1043
HpyF10VI GCNNNNNNNGC 7 cut(s) 474, 559, 579, 586, 761, 810, 1049
HpyF3I CTNAG 8 cut(s) 201, 289, 369, 657, 938, 973, 1053, 1260
HpySE526I ACGT 5 cut(s) 273, 323, 464, 555, 1249
Hsp92II CATG 8 cut(s) 312, 410, 500, 573, 701, 932, 1098, 1115
HspAI GCGC 2 cut(s) 580, 813
Kzo9I GATC 5 cut(s) 239, 454, 666, 742, 979
LguI GCTCTTC 1 cut(s) 42
LmnI GCTCC 3 cut(s) 254, 559, 1049
Lsp1109I GCAGC 4 cut(s) 132, 192, 718, 739
LweI GCATC 6 cut(s) 61, 436, 567, 735, 813, 1052
MaeI CTAG 1 cut(s) 723
MaeII ACGT 5 cut(s) 273, 323, 464, 555, 1249
MaeIII GTNAC 1 cut(s) 1069
MalI GATC 5 cut(s) 241, 456, 668, 744, 981
MboI GATC 5 cut(s) 239, 454, 666, 742, 979
MboII GAAGA 6 cut(s) 59, 86, 95, 122, 388, 801
MfeI CAATTG 1 cut(s) 1230
MflI RGATCY 3 cut(s) 239, 454, 979
MhlI GDGCHC 6 cut(s) 62, 173, 195, 271, 1038, 1059
MluCI AATT 6 cut(s) 7, 671, 693, 954, 1029, 1230
MlyI GAGTC 1 cut(s) 1159
MmeI TCCRAC 2 cut(s) 401, 847
MroXI GAANNNNTTC 1 cut(s) 693
MseI TTAA 5 cut(s) 11, 284, 678, 1089, 1270
MspA1I CMGCKG 1 cut(s) 205
MspI CCGG 2 cut(s) 237, 432
MspR9I CCNGG 1 cut(s) 998
MunI CAATTG 1 cut(s) 1230
MvaI CCWGG 1 cut(s) 998
MwoI GCNNNNNNNGC 7 cut(s) 474, 559, 579, 586, 761, 810, 1049
NcoI CCATGG 1 cut(s) 928
NdeII GATC 5 cut(s) 239, 454, 666, 742, 979
NlaIII CATG 8 cut(s) 312, 410, 500, 573, 701, 932, 1098, 1115
NlaIV GGNNCC 3 cut(s) 61, 241, 425
NmuCI GTSAC 1 cut(s) 1069
NspI RCATGY 1 cut(s) 573
PaeI GCATGC 1 cut(s) 573
PciSI GCTCTTC 1 cut(s) 42
PdmI GAANNNNTTC 1 cut(s) 693
PfeI GAWTC 2 cut(s) 17, 874
PfoI TCCNGGA 1 cut(s) 996
PkrI GCNGC 6 cut(s) 122, 207, 235, 263, 733, 754
PleI GAGTC 1 cut(s) 1158
PmaCI CACGTG 2 cut(s) 465, 556
PmlI CACGTG 2 cut(s) 465, 556
PpsI GAGTC 1 cut(s) 1158
Ppu21I YACGTR 2 cut(s) 465, 556
Psp6I CCWGG 1 cut(s) 996
PspCI CACGTG 2 cut(s) 465, 556
PspGI CCWGG 1 cut(s) 996
PspN4I GGNNCC 3 cut(s) 61, 241, 425
PsuI RGATCY 3 cut(s) 239, 454, 979
PvuII CAGCTG 1 cut(s) 205
RsaI GTAC 2 cut(s) 322, 779
RsaNI GTAC 2 cut(s) 321, 778
SapI GCTCTTC 1 cut(s) 42
SaqAI TTAA 5 cut(s) 11, 284, 678, 1089, 1270
SatI GCNGC 6 cut(s) 121, 206, 234, 262, 732, 753
Sau3AI GATC 5 cut(s) 239, 454, 666, 742, 979
SchI GAGTC 1 cut(s) 1159
ScrFI CCNGG 1 cut(s) 998
SduI GDGCHC 6 cut(s) 62, 173, 195, 271, 1038, 1059
SfaNI GCATC 6 cut(s) 61, 436, 567, 735, 813, 1052
SfcI CTRYAG 1 cut(s) 182
SmlI CTYRAG 2 cut(s) 808, 1155
SmoI CTYRAG 2 cut(s) 808, 1155
SphI GCATGC 1 cut(s) 573
Sse9I AATT 6 cut(s) 7, 671, 693, 954, 1029, 1230
SsiI CCGC 9 cut(s) 231, 234, 261, 264, 468, 573, 1193, 1215, 1221
SspI AATATT 1 cut(s) 682
SspMI CTAG 1 cut(s) 723
StyD4I CCNGG 1 cut(s) 996
StyI CCWWGG 1 cut(s) 928
TaaI ACNGT 3 cut(s) 64, 352, 359
TaiI ACGT 5 cut(s) 276, 326, 467, 558, 1252
TaqI TCGA 2 cut(s) 1017, 1203
TaqII GACCGA 1 cut(s) 1088
TasI AATT 6 cut(s) 7, 671, 693, 954, 1029, 1230
TatI WGTACW 1 cut(s) 777
TauI GCSGC 2 cut(s) 236, 264
TfiI GAWTC 2 cut(s) 17, 874
Tru1I TTAA 5 cut(s) 11, 284, 678, 1089, 1270
Tru9I TTAA 5 cut(s) 11, 284, 678, 1089, 1270
TseFI GTSAC 1 cut(s) 1069
TseI GCWGC 4 cut(s) 120, 205, 731, 752
Tsp45I GTSAC 1 cut(s) 1069
TspDTI ATGAA 3 cut(s) 388, 624, 686
TspGWI ACGGA 1 cut(s) 170
VneI GTGCAC 1 cut(s) 1034
XapI RAATTY 2 cut(s) 7, 693
XceI RCATGY 1 cut(s) 573
XmnI GAANNNNTTC 1 cut(s) 693
XspI CTAG 1 cut(s) 723
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.