Rh3AG233100

CDK5RAP3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0014295
Physical Location & Seq
Reverse (-)
24036627 .. 24040824
4198 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG233100.1

Sequence Viewer

Length: 1419 bp
ATGCCGACCGCCGATGACATTGGGAACCTCCCAATTGACATCACCTTTTCTCGTCTAGGAGAATGGCTTGTTGATCGGAAAAGAATACCGGGAGATTGGAGGAAACGATTAGCAGCCGTGAGAGCTCGGATTTCCAAGGAGTTCGCTTCCCTTCCTAAAGATATCAATCCCTATTTTCATACCTTAGACCCTGATGGAATTGGTTACTTGGAGGCCAAACTGATATATGATATTCTTGTAAAGTCTGCTCCAGAAAGTCGAAATATATTCGGCCGGCTCTCCGGTGCTGCTGGTGCGTGGGAATCGATTGTGCGTGCTTTTGAGAAGGATTATATCTATCTTGGCGAAGCTGCGCAGATAATGGTTCAAAATGTGAACTATGAGATTCCGTATCAGAAAAAGCAGGTGCAGAAGATTCAGCAACAACTAGCTGAACTAGAGCACAAGGAAGCTGATATTAAGAGAACTGCAGCTCTATCGGCAGCCAAGTATGTGGAGGCTTGTCAAGAGCTTGGATTGAAGGGAAATAATGTAAGGGCGGAACTTTTAGAGACTGCAAAATCACTTCCTACCACATTCAGCAGGATATTGGAAGTGATAAATGGTGATTCTGTGTCGAGGGCTCTGGAGTATTATTCTAACTTTGTGAGAGATGCTCACACTGAAAAGGATAAATCTTTGGTTGTGTTAACAAACTTGAAAGATTTACGTGAGCATCCCCCATCATTGGATGTTTCTGTAGACTTGGAGGTTGTTGATTCTGGGAATGTTCAATCAAGCCATAATGAGTCAATCAATGTGACAGTGGATGCAGATGCTAATGCCGACAGTATAGACTGGGATTTTTCTGTGGACAGTGCTCAGATTGATTGGGATATTGGTACTGTGGAAGAAACAGAAGATTCTGGTAATGGTTTGGGCCCTTACGAAATGGTTAGTGCCAGTGAGATCCTGCAGAGTTCTCCAAATGAAGTGGCAAAATCTGATCAGGTCCCAGAGGTGGTTTCTGTGTCCGAGATATCTTGGGATATTAGTGTTGAAACTCCTCAAGTTGATGCAATTGATGATGTCAATTTGCCGAATGTTGTTGTTGACAATCAAACATCTGTTCTTCATACTTCAACTCCAACAACTGAAATCAAGGAAGGTAGGAGCCAACTTTTGGAAACAGAGTATAGGAACAAGATTCTGGATGATCTGAATGAGATCAAAGCTTTTCTAAATCAGCGGTTGGTTGAGTTGAAGAATGAAGAAACTTTGTCATTGCAACATCAAGTCCAGGCAGTTGCTCCCTTTGTGCTGCAGCAATATGGTCATGATGCCATTGAGACAATGCTATCTGATGTTTGCTTGGCCATTTCTTTGCTGACAAATAGGAAAACGCGGGACTTGATCATGATTCTCAACTCCAAAAGGTAA

Protein Analysis

472

Amino Acids

52.72

Weight (kDa)

4.66

Isoelectric Point (pI)

35.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CDK5RAP3 PF05600 9 - 472 3.1e-138 CDK5 regulatory subunit-associated protein 3
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: OG0014295)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G06830
fragaria_vesca FvH4_6g22670 FvH4_6g22670
malus_domestica MD14G1060600.v1.1
prunus_persica Prupe.7G073900_v2.0.a1 Prupe.7G073900_v2.0.a1
pyrus_communis pycom14g04910
rosa_chinensis RchiOBHm_Chr3g0480241
rosa_laevigata RLG00000023508
rosa_multiflora Rmu_sc0006148.1_g000001
rosa_roxburghii Rroxscaffold_6G00401680
rosa_rugosa Rorug03G0181400
rosa_samantha Rh3AG233100 Rh3BG265700 Rh3CG263000 Rh3DG258900
rosa_wichuraiana Rw3G020940

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 394
Acc16I TGCGCA 1 cut(s) 354
Acc36I ACCTGC 1 cut(s) 394
AccB7I CCANNNNNTGG 1 cut(s) 1162
AccI GTMKAC 1 cut(s) 741
AccII CGCG 1 cut(s) 1384
AciI CCGC 4 cut(s) 9, 539, 1228, 1384
AclWI GGATC 1 cut(s) 943
AcoI YGGCCR 2 cut(s) 271, 1353
AfaI GTAC 1 cut(s) 883
AfiI CCNNNNNNNGG 3 cut(s) 727, 1000, 1162
AgsI TTSAA 7 cut(s) 368, 520, 700, 773, 1040, 1122, 1243
AjnI CCWGG 1 cut(s) 1278
AluBI AGCT 7 cut(s) 125, 350, 431, 452, 473, 511, 1214
AluI AGCT 7 cut(s) 125, 350, 431, 452, 473, 511, 1214
Alw21I GWGCWC 3 cut(s) 127, 444, 862
Alw26I GTCTC 2 cut(s) 545, 1322
AlwI GGATC 1 cut(s) 943
AoxI GGCC 4 cut(s) 213, 271, 919, 1353
ApaI GGGCCC 1 cut(s) 923
ApeKI GCWGC 7 cut(s) 113, 287, 350, 470, 482, 1300, 1303
AspLEI GCGC 1 cut(s) 355
AspS9I GGNCC 3 cut(s) 919, 920, 991
AsuC2I CCSGG 1 cut(s) 90
AsuHPI GGTGA 2 cut(s) 34, 617
AvaII GGWCC 1 cut(s) 991
BaeGI GKGCMC 1 cut(s) 923
BalI TGGCCA 1 cut(s) 1355
BanII GRGCYC 3 cut(s) 127, 625, 923
Bbv12I GWGCWC 3 cut(s) 127, 444, 862
BbvI GCAGC 7 cut(s) 125, 274, 337, 482, 494, 1287, 1315
BccI CCATC 2 cut(s) 188, 730
BceAI ACGGC 1 cut(s) 101
BcgI CGANNNNNNTGC 2 cut(s) 459, 493
BciT130I CCWGG 1 cut(s) 1280
BclI TGATCA 2 cut(s) 985, 1392
BcnI CCSGG 1 cut(s) 90
BcoDI GTCTC 2 cut(s) 545, 1322
BfaI CTAG 3 cut(s) 56, 428, 437
BfmI CTRYAG 4 cut(s) 468, 738, 953, 1301
BfuAI ACCTGC 1 cut(s) 394
BisI GCNGC 7 cut(s) 114, 288, 351, 471, 483, 1301, 1304
BlsI GCNGC 7 cut(s) 115, 289, 352, 472, 484, 1302, 1305
Bme1390I CCNGG 2 cut(s) 90, 1280
Bme18I GGWCC 1 cut(s) 991
BmgT120I GGNCC 3 cut(s) 919, 920, 991
BmiI GGNNCC 4 cut(s) 26, 921, 993, 1154
BmrFI CCNGG 2 cut(s) 90, 1280
BmrI ACTGGG 1 cut(s) 847
BmsI GCATC 6 cut(s) 643, 724, 799, 805, 1045, 1309
BmuI ACTGGG 1 cut(s) 847
BplI GAGNNNNNCTC 2 cut(s) 640, 672
BpmI CTGGAG 2 cut(s) 234, 647
BpuEI CTTGAG 1 cut(s) 1032
BpuMI CCSGG 1 cut(s) 90
Bsa29I ATCGAT 1 cut(s) 305
BsaAI YACGTR 1 cut(s) 710
BsaBI GATNNNNATC 1 cut(s) 165
BsaJI CCNNGG 1 cut(s) 135
BsaWI WCCGGW 1 cut(s) 281
BsaXI ACNNNNNCTCC 2 cut(s) 1108, 1138
Bsc4I CCNNNNNNNGG 3 cut(s) 727, 1000, 1162
Bse118I RCCGGY 1 cut(s) 273
Bse1I ACTGG 2 cut(s) 842, 942
Bse3DI GCAATG 1 cut(s) 1262
Bse8I GATNNNNATC 1 cut(s) 165
BseBI CCWGG 1 cut(s) 1280
BseCI ATCGAT 1 cut(s) 305
BseDI CCNNGG 1 cut(s) 135
BseGI GGATG 4 cut(s) 715, 736, 814, 1198
BseJI GATNNNNATC 1 cut(s) 165
BseLI CCNNNNNNNGG 3 cut(s) 727, 1000, 1162
BseMI GCAATG 1 cut(s) 1262
BseMII CTCAG 1 cut(s) 875
BseNI ACTGG 2 cut(s) 842, 942
BseRI GAGGAG 1 cut(s) 1035
BseSI GKGCMC 1 cut(s) 923
BseX3I CGGCCG 1 cut(s) 271
BseXI GCAGC 7 cut(s) 125, 274, 337, 482, 494, 1287, 1315
BsgI GTGCAG 1 cut(s) 428
Bsh1236I CGCG 1 cut(s) 1384
Bsh1285I CGRYCG 2 cut(s) 9, 274
BshFI GGCC 4 cut(s) 215, 273, 921, 1355
BshVI ATCGAT 1 cut(s) 305
BsiEI CGRYCG 2 cut(s) 9, 274
BsiHKAI GWGCWC 3 cut(s) 127, 444, 862
BsiSI CCGG 3 cut(s) 89, 274, 282
BslFI GGGAC 2 cut(s) 977, 1400
BslI CCNNNNNNNGG 3 cut(s) 727, 1000, 1162
BsmAI GTCTC 2 cut(s) 545, 1322
BsmFI GGGAC 2 cut(s) 977, 1400
BsnI GGCC 4 cut(s) 215, 273, 921, 1355
Bsp120I GGGCCC 1 cut(s) 919
Bsp1286I GDGCHC 5 cut(s) 127, 444, 625, 862, 923
Bsp143I GATC 6 cut(s) 73, 948, 985, 1195, 1206, 1392
BspACI CCGC 4 cut(s) 9, 539, 1228, 1384
BspANI GGCC 4 cut(s) 215, 273, 921, 1355
BspCNI CTCAG 1 cut(s) 874
BspDI ATCGAT 1 cut(s) 305
BspFNI CGCG 1 cut(s) 1384
BspHI TCATGA 2 cut(s) 1315, 1395
BspLI GGNNCC 4 cut(s) 26, 921, 993, 1154
BspMAI CTGCAG 3 cut(s) 472, 957, 1305
BspMI ACCTGC 1 cut(s) 394
BspPI GGATC 1 cut(s) 943
BsrDI GCAATG 1 cut(s) 1262
BsrFI RCCGGY 1 cut(s) 273
BsrI ACTGG 2 cut(s) 842, 942
BssAI RCCGGY 1 cut(s) 273
BssECI CCNNGG 1 cut(s) 135
BssMI GATC 6 cut(s) 73, 948, 985, 1195, 1206, 1392
BssT1I CCWWGG 1 cut(s) 135
Bst2UI CCWGG 1 cut(s) 1280
Bst4CI ACNGT 4 cut(s) 805, 830, 857, 886
BstBAI YACGTR 1 cut(s) 710
BstC8I GCNNGC 2 cut(s) 275, 315
BstDEI CTNAG 2 cut(s) 184, 861
BstF5I GGATG 4 cut(s) 715, 736, 814, 1198
BstFNI CGCG 1 cut(s) 1384
BstHHI GCGC 1 cut(s) 355
BstKTI GATC 6 cut(s) 76, 951, 988, 1198, 1209, 1395
BstMAI GTCTC 2 cut(s) 545, 1322
BstMBI GATC 6 cut(s) 73, 948, 985, 1195, 1206, 1392
BstMCI CGRYCG 2 cut(s) 9, 274
BstMWI GCNNNNNNNGC 3 cut(s) 122, 293, 479
BstNI CCWGG 1 cut(s) 1280
BstSCI CCNGG 2 cut(s) 88, 1278
BstSFI CTRYAG 4 cut(s) 468, 738, 953, 1301
BstSLI GKGCMC 1 cut(s) 923
BstUI CGCG 1 cut(s) 1384
BstV1I GCAGC 7 cut(s) 125, 274, 337, 482, 494, 1287, 1315
BstX2I RGATCY 1 cut(s) 948
BstXI CCANNNNNNTGG 1 cut(s) 493
BstYI RGATCY 1 cut(s) 948
BstZI CGGCCG 1 cut(s) 271
Bsu15I ATCGAT 1 cut(s) 305
BsuRI GGCC 4 cut(s) 215, 273, 921, 1355
BsuTUI ATCGAT 1 cut(s) 305
BtsCI GGATG 4 cut(s) 715, 736, 814, 1198
BtsIMutI CAGTG 4 cut(s) 660, 810, 862, 949
BveI ACCTGC 1 cut(s) 394
Cac8I GCNNGC 2 cut(s) 275, 315
CciI TCATGA 2 cut(s) 1315, 1395
CfoI GCGC 1 cut(s) 355
Cfr10I RCCGGY 1 cut(s) 273
Cfr13I GGNCC 3 cut(s) 919, 920, 991
ClaI ATCGAT 1 cut(s) 305
Csp6I GTAC 1 cut(s) 882
CspCI CAANNNNNGTGG 2 cut(s) 954, 989
CviAII CATG 2 cut(s) 1316, 1396
CviQI GTAC 1 cut(s) 882
DdeI CTNAG 2 cut(s) 184, 861
DpnI GATC 6 cut(s) 75, 950, 987, 1197, 1208, 1394
DpnII GATC 6 cut(s) 73, 948, 985, 1195, 1206, 1392
EaeI YGGCCR 2 cut(s) 271, 1353
EagI CGGCCG 1 cut(s) 271
EciI GGCGGA 1 cut(s) 554
Ecl136II GAGCTC 1 cut(s) 125
EclXI CGGCCG 1 cut(s) 271
Eco130I CCWWGG 1 cut(s) 135
Eco24I GRGCYC 3 cut(s) 127, 625, 923
Eco32I GATATC 2 cut(s) 163, 1020
Eco47I GGWCC 1 cut(s) 991
Eco52I CGGCCG 1 cut(s) 271
Eco53kI GAGCTC 1 cut(s) 125
EcoICRI GAGCTC 1 cut(s) 125
EcoO109I RGGNCCY 2 cut(s) 920, 991
EcoRII CCWGG 1 cut(s) 1278
EcoRV GATATC 2 cut(s) 163, 1020
EcoT14I CCWWGG 1 cut(s) 135
EcoT38I GRGCYC 3 cut(s) 127, 625, 923
ErhI CCWWGG 1 cut(s) 135
FaeI CATG 2 cut(s) 1319, 1399
FaqI GGGAC 2 cut(s) 977, 1400
FatI CATG 2 cut(s) 1315, 1395
FauI CCCGC 1 cut(s) 1377
FbaI TGATCA 2 cut(s) 985, 1392
FblI GTMKAC 1 cut(s) 741
Fnu4HI GCNGC 7 cut(s) 114, 288, 351, 471, 483, 1301, 1304
FokI GGATG 4 cut(s) 702, 743, 821, 1205
FriOI GRGCYC 3 cut(s) 127, 625, 923
Fsp4HI GCNGC 7 cut(s) 114, 288, 351, 471, 483, 1301, 1304
FspBI CTAG 3 cut(s) 56, 428, 437
FspI TGCGCA 1 cut(s) 354
GlaI GCGC 1 cut(s) 354
GluI GCNGC 7 cut(s) 114, 288, 351, 471, 483, 1301, 1304
GsuI CTGGAG 2 cut(s) 234, 647
HaeIII GGCC 4 cut(s) 215, 273, 921, 1355
HapII CCGG 3 cut(s) 89, 274, 282
HhaI GCGC 1 cut(s) 355
Hin1II CATG 2 cut(s) 1319, 1399
Hin6I GCGC 1 cut(s) 353
HinP1I GCGC 1 cut(s) 353
HincII GTYRAC 2 cut(s) 690, 1093
HindII GTYRAC 2 cut(s) 690, 1093
HindIII AAGCTT 1 cut(s) 1212
HinfI GANTC 9 cut(s) 302, 385, 415, 608, 758, 788, 902, 1186, 1399
HpaI GTTAAC 1 cut(s) 690
HpaII CCGG 3 cut(s) 89, 274, 282
HphI GGTGA 2 cut(s) 34, 617
Hpy166II GTNNAC 5 cut(s) 376, 690, 742, 853, 1093
Hpy188I TCNGA 8 cut(s) 78, 129, 396, 864, 985, 1015, 1200, 1342
Hpy188III TCNNGA 6 cut(s) 251, 506, 626, 1190, 1316, 1396
Hpy8I GTNNAC 5 cut(s) 376, 690, 742, 853, 1093
HpyAV CCTTC 4 cut(s) 161, 319, 514, 1139
HpyCH4III ACNGT 4 cut(s) 805, 830, 857, 886
HpyCH4IV ACGT 1 cut(s) 709
HpyCH4V TGCA 8 cut(s) 409, 470, 557, 812, 955, 1058, 1267, 1303
HpyF10VI GCNNNNNNNGC 3 cut(s) 122, 293, 479
HpyF3I CTNAG 2 cut(s) 184, 861
HpySE526I ACGT 1 cut(s) 709
Hsp92II CATG 2 cut(s) 1319, 1399
HspAI GCGC 1 cut(s) 353
KroI GCCGGC 1 cut(s) 273
KroNI GCCGGC 1 cut(s) 275
Ksp22I TGATCA 2 cut(s) 985, 1392
KspAI GTTAAC 1 cut(s) 690
Kzo9I GATC 6 cut(s) 73, 948, 985, 1195, 1206, 1392
LmnI GCTCC 3 cut(s) 253, 1152, 1294
Lsp1109I GCAGC 7 cut(s) 125, 274, 337, 482, 494, 1287, 1315
LweI GCATC 6 cut(s) 643, 724, 799, 805, 1045, 1309
MaeI CTAG 3 cut(s) 56, 428, 437
MaeII ACGT 1 cut(s) 709
MaeIII GTNAC 2 cut(s) 203, 799
MalI GATC 6 cut(s) 75, 950, 987, 1197, 1208, 1394
MboI GATC 6 cut(s) 73, 948, 985, 1195, 1206, 1392
MboII GAAGA 6 cut(s) 424, 902, 911, 1103, 1255, 1262
MfeI CAATTG 2 cut(s) 33, 1059
MflI RGATCY 1 cut(s) 948
MhlI GDGCHC 5 cut(s) 127, 444, 625, 862, 923
MlsI TGGCCA 1 cut(s) 1355
MluCI AATT 4 cut(s) 33, 198, 1059, 1072
MluNI TGGCCA 1 cut(s) 1355
MlyI GAGTC 1 cut(s) 797
MmeI TCCRAC 1 cut(s) 1151
MnlI CCTC 8 cut(s) 38, 93, 205, 490, 612, 742, 991, 1056
Mox20I TGGCCA 1 cut(s) 1355
MroNI GCCGGC 1 cut(s) 273
MscI TGGCCA 1 cut(s) 1355
MseI TTAA 2 cut(s) 459, 689
Msp20I TGGCCA 1 cut(s) 1355
MspA1I CMGCKG 1 cut(s) 1228
MspI CCGG 3 cut(s) 89, 274, 282
MspR9I CCNGG 2 cut(s) 90, 1280
MunI CAATTG 2 cut(s) 33, 1059
MvaI CCWGG 1 cut(s) 1280
MvnI CGCG 1 cut(s) 1384
MwoI GCNNNNNNNGC 3 cut(s) 122, 293, 479
NaeI GCCGGC 1 cut(s) 275
NciI CCSGG 1 cut(s) 90
NdeII GATC 6 cut(s) 73, 948, 985, 1195, 1206, 1392
NgoMIV GCCGGC 1 cut(s) 273
NlaIII CATG 2 cut(s) 1319, 1399
NlaIV GGNNCC 4 cut(s) 26, 921, 993, 1154
NmuCI GTSAC 1 cut(s) 799
NsbI TGCGCA 1 cut(s) 354
PagI TCATGA 2 cut(s) 1315, 1395
PaqCI CACCTGC 1 cut(s) 394
PdiI GCCGGC 1 cut(s) 275
PfeI GAWTC 8 cut(s) 302, 385, 415, 608, 758, 902, 1186, 1399
PflMI CCANNNNNTGG 1 cut(s) 1162
PkrI GCNGC 7 cut(s) 115, 289, 352, 472, 484, 1302, 1305
PleI GAGTC 1 cut(s) 796
PpsI GAGTC 1 cut(s) 796
Ppu21I YACGTR 1 cut(s) 710
PpuMI RGGWCCY 1 cut(s) 991
Psp124BI GAGCTC 1 cut(s) 127
Psp5II RGGWCCY 1 cut(s) 991
Psp6I CCWGG 1 cut(s) 1278
PspGI CCWGG 1 cut(s) 1278
PspN4I GGNNCC 4 cut(s) 26, 921, 993, 1154
PspOMI GGGCCC 1 cut(s) 919
PspPI GGNCC 3 cut(s) 919, 920, 991
PspPPI RGGWCCY 1 cut(s) 991
PstI CTGCAG 3 cut(s) 472, 957, 1305
PsuI RGATCY 1 cut(s) 948
RsaI GTAC 1 cut(s) 883
RsaNI GTAC 1 cut(s) 882
SacI GAGCTC 1 cut(s) 127
SaqAI TTAA 2 cut(s) 459, 689
SatI GCNGC 7 cut(s) 114, 288, 351, 471, 483, 1301, 1304
Sau3AI GATC 6 cut(s) 73, 948, 985, 1195, 1206, 1392
Sau96I GGNCC 3 cut(s) 919, 920, 991
SchI GAGTC 1 cut(s) 797
ScrFI CCNGG 2 cut(s) 90, 1280
SduI GDGCHC 5 cut(s) 127, 444, 625, 862, 923
SfaNI GCATC 6 cut(s) 643, 724, 799, 805, 1045, 1309
SfcI CTRYAG 4 cut(s) 468, 738, 953, 1301
SinI GGWCC 1 cut(s) 991
SmlI CTYRAG 1 cut(s) 1047
SmoI CTYRAG 1 cut(s) 1047
Sse9I AATT 4 cut(s) 33, 198, 1059, 1072
SsiI CCGC 4 cut(s) 9, 539, 1228, 1384
SspMI CTAG 3 cut(s) 56, 428, 437
SstI GAGCTC 1 cut(s) 127
StyD4I CCNGG 2 cut(s) 88, 1278
StyI CCWWGG 1 cut(s) 135
TaaI ACNGT 4 cut(s) 805, 830, 857, 886
TaiI ACGT 1 cut(s) 712
TaqI TCGA 3 cut(s) 259, 305, 617
TasI AATT 4 cut(s) 33, 198, 1059, 1072
TfiI GAWTC 8 cut(s) 302, 385, 415, 608, 758, 902, 1186, 1399
Tru1I TTAA 2 cut(s) 459, 689
Tru9I TTAA 2 cut(s) 459, 689
TscAI CASTG 4 cut(s) 667, 810, 862, 949
TseFI GTSAC 1 cut(s) 799
TseI GCWGC 7 cut(s) 113, 287, 350, 470, 482, 1300, 1303
Tsp45I GTSAC 1 cut(s) 799
TspDTI ATGAA 4 cut(s) 167, 984, 1103, 1263
TspGWI ACGGA 1 cut(s) 378
TspRI CASTG 4 cut(s) 667, 810, 862, 949
Van91I CCANNNNNTGG 1 cut(s) 1162
VpaK11BI GGWCC 1 cut(s) 991
XmiI GTMKAC 1 cut(s) 741
XspI CTAG 3 cut(s) 56, 428, 437
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.