MD04G1201100.v1.1

Rapid ALkalinization Factor (RALF)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr04
OG0004612
Physical Location & Seq
Reverse (-)
28733454 .. 28733966
513 bp
Loading structure...
UTR
Exon/CDS
Intron
MD04G1201100.v1.1.491

Sequence Viewer

Length: 402 bp
ATGGCTAGTCTGCACAGCTTCTCACTCCTCCTCCTGATCTGCGCCTCAATCTTGGTGGTGGGTTCGTCAAATGGGGACCAGCACCACCTCTCCTGGATGCCCACCGCCGACGCCAAGTCAGCCTCCTGCAAGGGCTCCATAGCCGAGTGCGCCTTGGCTGCCGGGGATGATGAGGAGTTTGACATGGACTCGGAGATCAGCCGTCGCATCTTAGCCACCACCAAGTACATCAGCTACGGTGCGCTGCAGAGGAACACCGTGCCTTGCTCCAGGCGCGGCGCCTCCTACTACAATTGCAAGCCCGGGGCCCAGGCCAACCCCTACAACCGCGGCTGCAGCGCCATCACAAGAGAAAGTTGGGGTTTGGATTTGGAGGTGATGTGTCATTGTTTTTGTTGTTAA
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
RALF

Protein Analysis

134

Amino Acids

14.39

Weight (kDa)

6.03

Isoelectric Point (pI)

45.06

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RALF PF05498 58 - 117 1.3e-28 Rapid ALkalinization Factor (RALF)
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 278
AccII CGCG 2 cut(s) 276, 330
AciI CCGC 4 cut(s) 105, 276, 328, 330
AcyI GRCGYC 2 cut(s) 111, 279
AfaI GTAC 1 cut(s) 227
AhdI GACNNNNNGTC 1 cut(s) 115
AjnI CCWGG 3 cut(s) 92, 269, 309
AluBI AGCT 2 cut(s) 18, 234
AluI AGCT 2 cut(s) 18, 234
Ama87I CYCGRG 1 cut(s) 302
AoxI GGCC 2 cut(s) 306, 312
ApaI GGGCCC 1 cut(s) 310
ApeKI GCWGC 4 cut(s) 158, 244, 333, 336
AspLEI GCGC 6 cut(s) 44, 152, 244, 276, 281, 341
AspS9I GGNCC 3 cut(s) 76, 306, 307
AsuC2I CCSGG 3 cut(s) 163, 303, 304
AsuHPI GGTGA 1 cut(s) 388
AvaI CYCGRG 1 cut(s) 302
AvaII GGWCC 1 cut(s) 76
BaeGI GKGCMC 1 cut(s) 310
BanI GGYRCC 1 cut(s) 278
BanII GRGCYC 2 cut(s) 137, 310
BbvI GCAGC 4 cut(s) 145, 231, 320, 348
BccI CCATC 1 cut(s) 350
BceAI ACGGC 1 cut(s) 186
BciT130I CCWGG 3 cut(s) 94, 271, 311
BcnI CCSGG 3 cut(s) 163, 303, 304
BfaI CTAG 1 cut(s) 6
BfmI CTRYAG 2 cut(s) 245, 334
BfoI RGCGCY 2 cut(s) 282, 342
BisI GCNGC 6 cut(s) 159, 245, 277, 331, 334, 337
BlsI GCNGC 6 cut(s) 160, 246, 278, 332, 335, 338
Bme1390I CCNGG 6 cut(s) 94, 163, 271, 303, 304, 311
Bme18I GGWCC 1 cut(s) 76
BmeRI GACNNNNNGTC 1 cut(s) 115
BmeT110I CYCGRG 1 cut(s) 302
BmgT120I GGNCC 3 cut(s) 76, 306, 307
BmiI GGNNCC 5 cut(s) 77, 136, 280, 307, 308
BmrFI CCNGG 6 cut(s) 94, 163, 271, 303, 304, 311
BmsI GCATC 2 cut(s) 87, 216
BpmI CTGGAG 1 cut(s) 253
BpuMI CCSGG 3 cut(s) 163, 303, 304
BsaHI GRCGYC 2 cut(s) 111, 279
BsaJI CCNNGG 6 cut(s) 153, 162, 302, 303, 309, 328
BsaXI ACNNNNNCTCC 6 cut(s) 15, 45, 74, 104, 365, 395
BseBI CCWGG 3 cut(s) 94, 271, 311
BseDI CCNNGG 6 cut(s) 153, 162, 302, 303, 309, 328
BseGI GGATG 2 cut(s) 102, 172
BseRI GAGGAG 3 cut(s) 17, 20, 188
BseSI GKGCMC 1 cut(s) 310
BseXI GCAGC 4 cut(s) 145, 231, 320, 348
Bsh1236I CGCG 2 cut(s) 276, 330
BshFI GGCC 2 cut(s) 308, 314
BshNI GGYRCC 1 cut(s) 278
BsiHKCI CYCGRG 1 cut(s) 302
BsiSI CCGG 2 cut(s) 162, 303
BslFI GGGAC 1 cut(s) 89
BsmFI GGGAC 1 cut(s) 89
BsnI GGCC 2 cut(s) 308, 314
BsoBI CYCGRG 1 cut(s) 302
Bsp120I GGGCCC 1 cut(s) 306
Bsp1286I GDGCHC 2 cut(s) 137, 310
Bsp143I GATC 2 cut(s) 36, 195
BspACI CCGC 4 cut(s) 105, 276, 328, 330
BspANI GGCC 2 cut(s) 308, 314
BspFNI CGCG 2 cut(s) 276, 330
BspLI GGNNCC 5 cut(s) 77, 136, 280, 307, 308
BspMAI CTGCAG 2 cut(s) 249, 338
BspT107I GGYRCC 1 cut(s) 278
BssECI CCNNGG 6 cut(s) 153, 162, 302, 303, 309, 328
BssMI GATC 2 cut(s) 36, 195
BssNI GRCGYC 2 cut(s) 111, 279
BssT1I CCWWGG 1 cut(s) 153
Bst2UI CCWGG 3 cut(s) 94, 271, 311
Bst4CI ACNGT 2 cut(s) 239, 259
BstACI GRCGYC 2 cut(s) 111, 279
BstC8I GCNNGC 1 cut(s) 299
BstDEI CTNAG 1 cut(s) 211
BstDSI CCRYGG 1 cut(s) 328
BstF5I GGATG 2 cut(s) 102, 172
BstFNI CGCG 2 cut(s) 276, 330
BstH2I RGCGCY 2 cut(s) 282, 342
BstHHI GCGC 6 cut(s) 44, 152, 244, 276, 281, 341
BstKTI GATC 2 cut(s) 39, 198
BstMBI GATC 2 cut(s) 36, 195
BstMWI GCNNNNNNNGC 5 cut(s) 119, 149, 158, 273, 336
BstNI CCWGG 3 cut(s) 94, 271, 311
BstSCI CCNGG 6 cut(s) 92, 161, 269, 301, 302, 309
BstSFI CTRYAG 2 cut(s) 245, 334
BstSLI GKGCMC 1 cut(s) 310
BstUI CGCG 2 cut(s) 276, 330
BstV1I GCAGC 4 cut(s) 145, 231, 320, 348
BsuRI GGCC 2 cut(s) 308, 314
BtgI CCRYGG 1 cut(s) 328
BtsCI GGATG 2 cut(s) 102, 172
Cac8I GCNNGC 1 cut(s) 299
CfoI GCGC 6 cut(s) 44, 152, 244, 276, 281, 341
Cfr13I GGNCC 3 cut(s) 76, 306, 307
Cfr42I CCGCGG 1 cut(s) 331
Cfr9I CCCGGG 1 cut(s) 302
CseI GACGC 1 cut(s) 119
Csp6I GTAC 1 cut(s) 226
CspCI CAANNNNNGTGG 2 cut(s) 36, 71
CviAII CATG 1 cut(s) 184
CviQI GTAC 1 cut(s) 226
DdeI CTNAG 1 cut(s) 211
DinI GGCGCC 1 cut(s) 280
DpnI GATC 2 cut(s) 38, 197
DpnII GATC 2 cut(s) 36, 195
DriI GACNNNNNGTC 1 cut(s) 115
Eam1105I GACNNNNNGTC 1 cut(s) 115
Eco130I CCWWGG 1 cut(s) 153
Eco24I GRGCYC 2 cut(s) 137, 310
Eco47I GGWCC 1 cut(s) 76
Eco88I CYCGRG 1 cut(s) 302
EcoO109I RGGNCCY 1 cut(s) 306
EcoRII CCWGG 3 cut(s) 92, 269, 309
EcoT14I CCWWGG 1 cut(s) 153
EcoT38I GRGCYC 2 cut(s) 137, 310
EgeI GGCGCC 1 cut(s) 280
EheI GGCGCC 1 cut(s) 280
ErhI CCWWGG 1 cut(s) 153
FaeI CATG 1 cut(s) 187
FaiI YATR 2 cut(s) 140, 185
FaqI GGGAC 1 cut(s) 89
FatI CATG 1 cut(s) 183
Fnu4HI GCNGC 6 cut(s) 159, 245, 277, 331, 334, 337
FokI GGATG 2 cut(s) 109, 179
FriOI GRGCYC 2 cut(s) 137, 310
Fsp4HI GCNGC 6 cut(s) 159, 245, 277, 331, 334, 337
FspBI CTAG 1 cut(s) 6
GlaI GCGC 6 cut(s) 43, 151, 243, 275, 280, 340
GluI GCNGC 6 cut(s) 159, 245, 277, 331, 334, 337
GsuI CTGGAG 1 cut(s) 253
HaeII RGCGCY 2 cut(s) 282, 342
HaeIII GGCC 2 cut(s) 308, 314
HapII CCGG 2 cut(s) 162, 303
HgaI GACGC 1 cut(s) 119
HhaI GCGC 6 cut(s) 44, 152, 244, 276, 281, 341
Hin1I GRCGYC 2 cut(s) 111, 279
Hin1II CATG 1 cut(s) 187
Hin6I GCGC 6 cut(s) 42, 150, 242, 274, 279, 339
HinP1I GCGC 6 cut(s) 42, 150, 242, 274, 279, 339
HinfI GANTC 1 cut(s) 188
HpaII CCGG 2 cut(s) 162, 303
HphI GGTGA 1 cut(s) 388
Hpy188I TCNGA 1 cut(s) 193
Hpy188III TCNNGA 1 cut(s) 34
Hpy99I CGWCG 2 cut(s) 113, 207
HpyCH4III ACNGT 2 cut(s) 239, 259
HpyCH4V TGCA 5 cut(s) 13, 129, 247, 297, 336
HpyF10VI GCNNNNNNNGC 5 cut(s) 119, 149, 158, 273, 336
HpyF3I CTNAG 1 cut(s) 211
Hsp92I GRCGYC 2 cut(s) 111, 279
Hsp92II CATG 1 cut(s) 187
HspAI GCGC 6 cut(s) 42, 150, 242, 274, 279, 339
KasI GGCGCC 1 cut(s) 278
KspI CCGCGG 1 cut(s) 331
Kzo9I GATC 2 cut(s) 36, 195
LmnI GCTCC 2 cut(s) 140, 272
Lsp1109I GCAGC 4 cut(s) 145, 231, 320, 348
LweI GCATC 2 cut(s) 87, 216
MaeI CTAG 1 cut(s) 6
MalI GATC 2 cut(s) 38, 197
MboI GATC 2 cut(s) 36, 195
MfeI CAATTG 1 cut(s) 292
MhlI GDGCHC 2 cut(s) 137, 310
MluCI AATT 1 cut(s) 292
Mly113I GGCGCC 1 cut(s) 279
MlyI GAGTC 1 cut(s) 182
MnlI CCTC 9 cut(s) 38, 41, 55, 98, 133, 166, 243, 292, 367
MseI TTAA 1 cut(s) 400
MspA1I CMGCKG 1 cut(s) 330
MspI CCGG 2 cut(s) 162, 303
MspR9I CCNGG 6 cut(s) 94, 163, 271, 303, 304, 311
MteI GCGCNGCGC 1 cut(s) 277
MunI CAATTG 1 cut(s) 292
MvaI CCWGG 3 cut(s) 94, 271, 311
MvnI CGCG 2 cut(s) 276, 330
MwoI GCNNNNNNNGC 5 cut(s) 119, 149, 158, 273, 336
NarI GGCGCC 1 cut(s) 279
NciI CCSGG 3 cut(s) 163, 303, 304
NdeII GATC 2 cut(s) 36, 195
NlaIII CATG 1 cut(s) 187
NlaIV GGNNCC 5 cut(s) 77, 136, 280, 307, 308
NmeAIII GCCGAG 1 cut(s) 169
PfoI TCCNGGA 1 cut(s) 92
PkrI GCNGC 6 cut(s) 160, 246, 278, 332, 335, 338
PleI GAGTC 1 cut(s) 182
PluTI GGCGCC 1 cut(s) 282
PpsI GAGTC 1 cut(s) 182
Psp6I CCWGG 3 cut(s) 92, 269, 309
PspGI CCWGG 3 cut(s) 92, 269, 309
PspN4I GGNNCC 5 cut(s) 77, 136, 280, 307, 308
PspOMI GGGCCC 1 cut(s) 306
PspPI GGNCC 3 cut(s) 76, 306, 307
PstI CTGCAG 2 cut(s) 249, 338
RsaI GTAC 1 cut(s) 227
RsaNI GTAC 1 cut(s) 226
SacII CCGCGG 1 cut(s) 331
SaqAI TTAA 1 cut(s) 400
SatI GCNGC 6 cut(s) 159, 245, 277, 331, 334, 337
Sau3AI GATC 2 cut(s) 36, 195
Sau96I GGNCC 3 cut(s) 76, 306, 307
SchI GAGTC 1 cut(s) 182
ScrFI CCNGG 6 cut(s) 94, 163, 271, 303, 304, 311
SduI GDGCHC 2 cut(s) 137, 310
SetI ASST 4 cut(s) 20, 90, 236, 378
SfaNI GCATC 2 cut(s) 87, 216
SfcI CTRYAG 2 cut(s) 245, 334
SfoI GGCGCC 1 cut(s) 280
Sfr303I CCGCGG 1 cut(s) 331
SgrBI CCGCGG 1 cut(s) 331
SinI GGWCC 1 cut(s) 76
SmaI CCCGGG 1 cut(s) 304
Sse9I AATT 1 cut(s) 292
SsiI CCGC 4 cut(s) 105, 276, 328, 330
SspDI GGCGCC 1 cut(s) 278
SspMI CTAG 1 cut(s) 6
StyD4I CCNGG 6 cut(s) 92, 161, 269, 301, 302, 309
StyI CCWWGG 1 cut(s) 153
TaaI ACNGT 2 cut(s) 239, 259
TasI AATT 1 cut(s) 292
TatI WGTACW 1 cut(s) 225
TauI GCSGC 2 cut(s) 279, 333
Tru1I TTAA 1 cut(s) 400
Tru9I TTAA 1 cut(s) 400
TseI GCWGC 4 cut(s) 158, 244, 333, 336
TspMI CCCGGG 1 cut(s) 302
VpaK11BI GGWCC 1 cut(s) 76
XmaI CCCGGG 1 cut(s) 302
XspI CTAG 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.