MD14G1060600.v1.1

CDK5RAP3-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr14
OG0014295
Physical Location & Seq
Reverse (-)
6389688 .. 6393463
3776 bp
Loading structure...
UTR
Exon/CDS
Intron
MD14G1060600.v1.1.491

Sequence Viewer

Length: 1668 bp
ATGCCGACGCCCGACGACATTGGAAAGCTCCCAATCGACATCACCTTTTCTCGTCTCGGAGAATGGCTGGTTGATCGGAAGAGAATACCGGGAGATTGGAGGAAACGATTGGCGGCAGTGAGAGCTCGAATTTCAAAGGAATTCGCTTGTCTTCCCAAAGATATCAATCCCTATTTCCATAGCTTGGAATCTGATGGAATTGGTTACTTAGAGGCCAAACAAATATATGATATTCTTGTGAAGTCAGCTCCAGAAAGTCGGAATATTTTCGGCCGGCTATCGGGTGCTGCTGGTGCTTGGGAATCGATTGTACGTTCATTTGAGAAGGATTATGTATATCTCGGCGAGGCTGCTCAGATAATGGTGCAAAATGTGAACTATGAGATTCCGTATCAGAAAAAGCAGGTGCAAAAGATTCAGCAACAATTAGCAGAACTAGACCACAAGGAAGCTGATATTAAGAGAAGTGCAGCTCTATCGGCTGCTAAGTATGTAGAGGCTTGCCAAGAGCTTGGACTACAGGGAAAAAACGTGAGGTCAGAGCTTTTAGAAACTGCAAAATCACTTCCAAGCACATTTAGCAAGATTTTGGGAGTGTTAAATGGTGATTCTATGTCAAAGGCTCTGGAGTATTATTCTAACTTTGTCAGAGATGCTCACACAGAAAAGGATAAATATTTGAATGTGTTGACAAACTTGAAAGATGTACGTGAACATCCCCCATCATTGAATGTCCCTGTGGGCTCAGAGGTGGTTGATTCCGGGAATGTTCAATCAAGCAACAATGAGATAAACAATGCAGCAGTCGAAATAAATGAAGATAGTATAGATTGGGATTTTTCTGTGGAAAGTTCCCAGATTGATTGGGATATTGGTACGGTGGAGGAAACAGATGATACTGGTAATGGTTTGGGTCCGTACGAAATGGTTAATGCGAGTGAGGTGCAGAGTTCTGCAAATGAACATGTGAAGTCTGATCCGACCCCAGAGGTCTCTGTATCAGAGATATCTTGGGATATTAGTGTTGAAACTCCCCAGGTTGACATGATTGATGATATCAATTTGTCAAATGTAATCATGGACAATCAAACATCTGCTCTTGATACTTCAACTCAAACAACTGAAATCAAGGAAGGTAGGAGCCAACTTTTGGAGACAGAGTACAGGAACAAGATTCTTGATGATCTGAATGAGGTCAAAGCTTTTTTAAATCAGCGGTTAGTTGAGTTAAAGAATGAGGATACTTTGTCCTTGCAACATCAAGTTCAGGCTGCTGCTCCCTTTGTGCTGCAGCAATATGCTCATGATGCCATCGAAACAATGCTGTCTGATGTGTCCTTGGCTATTTCATTGCTGACAAACAGGAAGACACGGGACTTGATTATGATTCTCAACTCCAAAAGGTTTCTAGACAGATTGGTGAGCTCATTGGAAGAAAAGAAGCACCATGAAGTTAAGTTGAAAGAGAGTCTGAATGGCATAGCTGGCAAACGCATGGAATTGCAGAATTCATTATCTTCTTCCTGGCCTAAGCAGGAAGCTGCTCTTACAAAAACCCGTGAACTGAAGAAACTGTGTGAAAGCACCCTTTCATCGATGTTTGATGGAAGACCTGTTAACATAATTGGGGAGATCAATACTCTTTTGACGAGTGGCCTTACTGCATAA

Protein Analysis

556

Amino Acids

62.1

Weight (kDa)

4.92

Isoelectric Point (pI)

40.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CDK5RAP3 PF05600 9 - 543 3.5e-171 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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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
Acc36I ACCTGC 1 cut(s) 394
AccB7I CCANNNNNTGG 2 cut(s) 184, 1150
AciI CCGC 2 cut(s) 113, 1216
AclWI GGATC 1 cut(s) 971
AcoI YGGCCR 1 cut(s) 271
AcsI RAATTY 3 cut(s) 129, 140, 1507
AcuI CTGAAG 1 cut(s) 1586
AcyI GRCGYC 1 cut(s) 8
AfaI GTAC 5 cut(s) 312, 708, 877, 920, 1163
AfiI CCNNNNNNNGG 3 cut(s) 184, 280, 1150
AflIII ACRYGT 1 cut(s) 964
AgsI TTSAA 8 cut(s) 135, 682, 700, 730, 773, 1028, 1110, 1462
AjnI CCWGG 2 cut(s) 1035, 1523
Alw21I GWGCWC 2 cut(s) 127, 1427
Alw26I GTCTC 3 cut(s) 59, 997, 1148
AlwI GGATC 1 cut(s) 971
AoxI GGCC 4 cut(s) 213, 271, 1526, 1654
ApoI RAATTY 3 cut(s) 129, 140, 1507
Asp700I GAANNNNTTC 1 cut(s) 266
AspS9I GGNCC 1 cut(s) 914
AsuC2I CCSGG 2 cut(s) 90, 763
AsuHPI GGTGA 3 cut(s) 34, 617, 1432
AvaII GGWCC 1 cut(s) 914
BanII GRGCYC 3 cut(s) 127, 746, 1427
BbsI GAAGAC 3 cut(s) 143, 1373, 1615
Bbv12I GWGCWC 2 cut(s) 127, 1427
BccI CCATC 4 cut(s) 188, 730, 1319, 1598
BcgI CGANNNNNNTGC 4 cut(s) 459, 493, 925, 959
BciT130I CCWGG 2 cut(s) 1037, 1525
BciVI GTATCC 1 cut(s) 1234
BcnI CCSGG 2 cut(s) 90, 763
BcoDI GTCTC 3 cut(s) 59, 997, 1148
BfaI CTAG 2 cut(s) 437, 1409
BfmI CTRYAG 2 cut(s) 518, 1289
BfuAI ACCTGC 1 cut(s) 394
BfuI GTATCC 1 cut(s) 1234
Bme1390I CCNGG 4 cut(s) 90, 763, 1037, 1525
Bme18I GGWCC 1 cut(s) 914
BmgT120I GGNCC 1 cut(s) 914
BmiI GGNNCC 2 cut(s) 915, 1142
BmrFI CCNGG 4 cut(s) 90, 763, 1037, 1525
BmsI GCATC 2 cut(s) 643, 1297
BpiI GAAGAC 3 cut(s) 143, 1373, 1615
BpmI CTGGAG 2 cut(s) 234, 647
Bpu10I CCTNAGC 1 cut(s) 1530
BpuMI CCSGG 2 cut(s) 90, 763
Bsa29I ATCGAT 2 cut(s) 305, 1595
BsaAI YACGTR 1 cut(s) 710
BsaBI GATNNNNATC 1 cut(s) 165
BsaHI GRCGYC 1 cut(s) 8
BsaI GGTCTC 1 cut(s) 997
BsaJI CCNNGG 2 cut(s) 1035, 1338
BsaXI ACNNNNNCTCC 2 cut(s) 1145, 1175
Bsc4I CCNNNNNNNGG 3 cut(s) 184, 280, 1150
Bse118I RCCGGY 1 cut(s) 273
Bse1I ACTGG 1 cut(s) 904
Bse3DI GCAATG 1 cut(s) 1349
Bse8I GATNNNNATC 1 cut(s) 165
BseBI CCWGG 2 cut(s) 1037, 1525
BseCI ATCGAT 2 cut(s) 305, 1595
BseDI CCNNGG 2 cut(s) 1035, 1338
BseGI GGATG 1 cut(s) 715
BseJI GATNNNNATC 1 cut(s) 165
BseLI CCNNNNNNNGG 3 cut(s) 184, 280, 1150
BseMI GCAATG 1 cut(s) 1349
BseMII CTCAG 2 cut(s) 368, 759
BseNI ACTGG 1 cut(s) 904
BseX3I CGGCCG 1 cut(s) 271
BsgI GTGCAG 2 cut(s) 489, 965
Bsh1285I CGRYCG 1 cut(s) 274
BshFI GGCC 4 cut(s) 215, 273, 1528, 1656
BshVI ATCGAT 2 cut(s) 305, 1595
BsiEI CGRYCG 1 cut(s) 274
BsiHKAI GWGCWC 2 cut(s) 127, 1427
BsiSI CCGG 3 cut(s) 89, 274, 762
BsiWI CGTACG 1 cut(s) 918
BslFI GGGAC 2 cut(s) 719, 1388
BslI CCNNNNNNNGG 3 cut(s) 184, 280, 1150
BsmAI GTCTC 3 cut(s) 59, 997, 1148
BsmBI CGTCTC 1 cut(s) 59
BsmFI GGGAC 2 cut(s) 719, 1388
BsnI GGCC 4 cut(s) 215, 273, 1528, 1656
Bso31I GGTCTC 1 cut(s) 997
Bsp1286I GDGCHC 3 cut(s) 127, 746, 1427
Bsp143I GATC 4 cut(s) 73, 976, 1183, 1632
BspACI CCGC 2 cut(s) 113, 1216
BspANI GGCC 4 cut(s) 215, 273, 1528, 1656
BspCNI CTCAG 2 cut(s) 367, 758
BspDI ATCGAT 2 cut(s) 305, 1595
BspHI TCATGA 1 cut(s) 1303
BspLI GGNNCC 2 cut(s) 915, 1142
BspMAI CTGCAG 1 cut(s) 1293
BspMI ACCTGC 1 cut(s) 394
BspPI GGATC 1 cut(s) 971
BspTNI GGTCTC 1 cut(s) 997
BsrDI GCAATG 1 cut(s) 1349
BsrFI RCCGGY 1 cut(s) 273
BsrI ACTGG 1 cut(s) 904
BssAI RCCGGY 1 cut(s) 273
BssECI CCNNGG 2 cut(s) 1035, 1338
BssMI GATC 4 cut(s) 73, 976, 1183, 1632
BssNI GRCGYC 1 cut(s) 8
BssT1I CCWWGG 1 cut(s) 1338
Bst2UI CCWGG 2 cut(s) 1037, 1525
Bst4CI ACNGT 2 cut(s) 880, 1575
Bst6I CTCTTC 1 cut(s) 74
BstACI GRCGYC 1 cut(s) 8
BstBAI YACGTR 1 cut(s) 710
BstC8I GCNNGC 3 cut(s) 275, 502, 1486
BstDEI CTNAG 5 cut(s) 208, 354, 486, 745, 1530
BstF5I GGATG 1 cut(s) 715
BstKTI GATC 4 cut(s) 76, 979, 1186, 1635
BstMAI GTCTC 3 cut(s) 59, 997, 1148
BstMBI GATC 4 cut(s) 73, 976, 1183, 1632
BstMCI CGRYCG 1 cut(s) 274
BstMWI GCNNNNNNNGC 6 cut(s) 122, 293, 479, 579, 1307, 1485
BstNI CCWGG 2 cut(s) 1037, 1525
BstNSI RCATGY 1 cut(s) 968
BstSCI CCNGG 4 cut(s) 88, 761, 1035, 1523
BstSFI CTRYAG 2 cut(s) 518, 1289
BstV2I GAAGAC 3 cut(s) 143, 1373, 1615
BstXI CCANNNNNNTGG 1 cut(s) 512
BstZI CGGCCG 1 cut(s) 271
Bsu15I ATCGAT 2 cut(s) 305, 1595
BsuI GTATCC 1 cut(s) 1234
BsuRI GGCC 4 cut(s) 215, 273, 1528, 1656
BsuTUI ATCGAT 2 cut(s) 305, 1595
BtsCI GGATG 1 cut(s) 715
BtsI GCAGTG 1 cut(s) 123
BtsIMutI CAGTG 1 cut(s) 123
BveI ACCTGC 1 cut(s) 394
Cac8I GCNNGC 3 cut(s) 275, 502, 1486
CciI TCATGA 1 cut(s) 1303
Cfr10I RCCGGY 1 cut(s) 273
Cfr13I GGNCC 1 cut(s) 914
ClaI ATCGAT 2 cut(s) 305, 1595
CseI GACGC 1 cut(s) 16
Csp6I GTAC 5 cut(s) 311, 707, 876, 919, 1162
CviAII CATG 6 cut(s) 965, 1045, 1078, 1304, 1448, 1495
CviQI GTAC 5 cut(s) 311, 707, 876, 919, 1162
DdeI CTNAG 5 cut(s) 208, 354, 486, 745, 1530
DpnI GATC 4 cut(s) 75, 978, 1185, 1634
DpnII GATC 4 cut(s) 73, 976, 1183, 1632
DraI TTTAAA 1 cut(s) 1209
EaeI YGGCCR 1 cut(s) 271
EagI CGGCCG 1 cut(s) 271
Eam1104I CTCTTC 1 cut(s) 74
EarI CTCTTC 1 cut(s) 74
Ecl136II GAGCTC 2 cut(s) 125, 1425
EclXI CGGCCG 1 cut(s) 271
Eco130I CCWWGG 1 cut(s) 1338
Eco24I GRGCYC 3 cut(s) 127, 746, 1427
Eco31I GGTCTC 1 cut(s) 997
Eco32I GATATC 3 cut(s) 163, 1008, 1057
Eco47I GGWCC 1 cut(s) 914
Eco52I CGGCCG 1 cut(s) 271
Eco53kI GAGCTC 2 cut(s) 125, 1425
Eco57I CTGAAG 1 cut(s) 1586
EcoICRI GAGCTC 2 cut(s) 125, 1425
EcoRI GAATTC 2 cut(s) 140, 1507
EcoRII CCWGG 2 cut(s) 1035, 1523
EcoRV GATATC 3 cut(s) 163, 1008, 1057
EcoT14I CCWWGG 1 cut(s) 1338
EcoT38I GRGCYC 3 cut(s) 127, 746, 1427
ErhI CCWWGG 1 cut(s) 1338
Esp3I CGTCTC 1 cut(s) 59
FaeI CATG 6 cut(s) 968, 1048, 1081, 1307, 1451, 1498
FalI AAGNNNNNCTT 2 cut(s) 1530, 1562
FaqI GGGAC 2 cut(s) 719, 1388
FatI CATG 6 cut(s) 964, 1044, 1077, 1303, 1447, 1494
FokI GGATG 1 cut(s) 702
FriOI GRGCYC 3 cut(s) 127, 746, 1427
FspBI CTAG 2 cut(s) 437, 1409
GsuI CTGGAG 2 cut(s) 234, 647
HaeIII GGCC 4 cut(s) 215, 273, 1528, 1656
HapII CCGG 3 cut(s) 89, 274, 762
HgaI GACGC 1 cut(s) 16
Hin1I GRCGYC 1 cut(s) 8
Hin1II CATG 6 cut(s) 968, 1048, 1081, 1307, 1451, 1498
HincII GTYRAC 3 cut(s) 690, 1042, 1618
HindII GTYRAC 3 cut(s) 690, 1042, 1618
HindIII AAGCTT 1 cut(s) 1200
HinfI GANTC 9 cut(s) 188, 302, 385, 415, 608, 758, 1174, 1387, 1468
HpaI GTTAAC 1 cut(s) 1618
HpaII CCGG 3 cut(s) 89, 274, 762
HphI GGTGA 3 cut(s) 34, 617, 1432
Hpy166II GTNNAC 6 cut(s) 376, 690, 713, 1042, 1562, 1618
Hpy188III TCNNGA 6 cut(s) 251, 626, 1100, 1178, 1304, 1409
Hpy8I GTNNAC 6 cut(s) 376, 690, 713, 1042, 1562, 1618
Hpy99I CGWCG 2 cut(s) 10, 17
HpyAV CCTTC 2 cut(s) 319, 1127
HpyCH4III ACNGT 2 cut(s) 880, 1575
HpyCH4IV ACGT 3 cut(s) 313, 531, 709
HpyF10VI GCNNNNNNNGC 6 cut(s) 122, 293, 479, 579, 1307, 1485
HpyF3I CTNAG 5 cut(s) 208, 354, 486, 745, 1530
HpySE526I ACGT 3 cut(s) 313, 531, 709
Hsp92I GRCGYC 1 cut(s) 8
Hsp92II CATG 6 cut(s) 968, 1048, 1081, 1307, 1451, 1498
KroI GCCGGC 1 cut(s) 273
KroNI GCCGGC 1 cut(s) 275
KspAI GTTAAC 1 cut(s) 1618
Kzo9I GATC 4 cut(s) 73, 976, 1183, 1632
LmnI GCTCC 4 cut(s) 33, 253, 1140, 1282
LweI GCATC 2 cut(s) 643, 1297
MaeI CTAG 2 cut(s) 437, 1409
MaeII ACGT 3 cut(s) 313, 531, 709
MaeIII GTNAC 1 cut(s) 203
MalI GATC 4 cut(s) 75, 978, 1185, 1634
MboI GATC 4 cut(s) 73, 976, 1183, 1632
MboII GAAGA 9 cut(s) 91, 143, 830, 1378, 1445, 1509, 1512, 1579, 1620
MhlI GDGCHC 3 cut(s) 127, 746, 1427
MluCI AATT 8 cut(s) 129, 140, 198, 425, 1060, 1499, 1507, 1623
MlyI GAGTC 1 cut(s) 1477
MmeI TCCRAC 2 cut(s) 239, 1004
MroNI GCCGGC 1 cut(s) 273
MroXI GAANNNNTTC 1 cut(s) 266
MseI TTAA 7 cut(s) 459, 599, 930, 1208, 1229, 1455, 1617
MspA1I CMGCKG 1 cut(s) 1216
MspI CCGG 3 cut(s) 89, 274, 762
MspR9I CCNGG 4 cut(s) 90, 763, 1037, 1525
MvaI CCWGG 2 cut(s) 1037, 1525
MwoI GCNNNNNNNGC 6 cut(s) 122, 293, 479, 579, 1307, 1485
NaeI GCCGGC 1 cut(s) 275
NciI CCSGG 2 cut(s) 90, 763
NdeII GATC 4 cut(s) 73, 976, 1183, 1632
NgoMIV GCCGGC 1 cut(s) 273
NlaIII CATG 6 cut(s) 968, 1048, 1081, 1307, 1451, 1498
NlaIV GGNNCC 2 cut(s) 915, 1142
NmeAIII GCCGAG 1 cut(s) 321
NspI RCATGY 1 cut(s) 968
PagI TCATGA 1 cut(s) 1303
PaqCI CACCTGC 1 cut(s) 394
PciI ACATGT 1 cut(s) 964
PdiI GCCGGC 1 cut(s) 275
PdmI GAANNNNTTC 1 cut(s) 266
PfeI GAWTC 8 cut(s) 188, 302, 385, 415, 608, 758, 1174, 1387
Pfl23II CGTACG 1 cut(s) 918
PflMI CCANNNNNTGG 2 cut(s) 184, 1150
PfoI TCCNGGA 1 cut(s) 761
PleI GAGTC 1 cut(s) 1476
PpsI GAGTC 1 cut(s) 1476
Ppu21I YACGTR 1 cut(s) 710
PscI ACATGT 1 cut(s) 964
Psp124BI GAGCTC 2 cut(s) 127, 1427
Psp6I CCWGG 2 cut(s) 1035, 1523
PspGI CCWGG 2 cut(s) 1035, 1523
PspLI CGTACG 1 cut(s) 918
PspN4I GGNNCC 2 cut(s) 915, 1142
PspPI GGNCC 1 cut(s) 914
PstI CTGCAG 1 cut(s) 1293
RsaI GTAC 5 cut(s) 312, 708, 877, 920, 1163
RsaNI GTAC 5 cut(s) 311, 707, 876, 919, 1162
SacI GAGCTC 2 cut(s) 127, 1427
SaqAI TTAA 7 cut(s) 459, 599, 930, 1208, 1229, 1455, 1617
Sau3AI GATC 4 cut(s) 73, 976, 1183, 1632
Sau96I GGNCC 1 cut(s) 914
SchI GAGTC 1 cut(s) 1477
ScrFI CCNGG 4 cut(s) 90, 763, 1037, 1525
SduI GDGCHC 3 cut(s) 127, 746, 1427
SfaNI GCATC 2 cut(s) 643, 1297
SfcI CTRYAG 2 cut(s) 518, 1289
SinI GGWCC 1 cut(s) 914
Sse9I AATT 8 cut(s) 129, 140, 198, 425, 1060, 1499, 1507, 1623
SsiI CCGC 2 cut(s) 113, 1216
SspI AATATT 2 cut(s) 265, 677
SspMI CTAG 2 cut(s) 437, 1409
SstI GAGCTC 2 cut(s) 127, 1427
StyD4I CCNGG 4 cut(s) 88, 761, 1035, 1523
StyI CCWWGG 1 cut(s) 1338
TaaI ACNGT 2 cut(s) 880, 1575
TaiI ACGT 3 cut(s) 316, 534, 712
TaqI TCGA 6 cut(s) 36, 127, 305, 807, 1314, 1595
TasI AATT 8 cut(s) 129, 140, 198, 425, 1060, 1499, 1507, 1623
TatI WGTACW 1 cut(s) 1161
TauI GCSGC 1 cut(s) 116
TfiI GAWTC 8 cut(s) 188, 302, 385, 415, 608, 758, 1174, 1387
Tru1I TTAA 7 cut(s) 459, 599, 930, 1208, 1229, 1455, 1617
Tru9I TTAA 7 cut(s) 459, 599, 930, 1208, 1229, 1455, 1617
TscAI CASTG 1 cut(s) 123
TspDTI ATGAA 7 cut(s) 306, 831, 975, 1338, 1464, 1500, 1581
TspGWI ACGGA 2 cut(s) 378, 906
TspRI CASTG 1 cut(s) 123
Van91I CCANNNNNTGG 2 cut(s) 184, 1150
VpaK11BI GGWCC 1 cut(s) 914
XapI RAATTY 3 cut(s) 129, 140, 1507
XbaI TCTAGA 1 cut(s) 1408
XceI RCATGY 1 cut(s) 968
XmnI GAANNNNTTC 1 cut(s) 266
XspI CTAG 2 cut(s) 437, 1409
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.