Rh4AG180400

Rapid ALkalinization Factor (RALF)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4A
OG0014259
Physical Location & Seq
Forward (+)
45072048 .. 45073405
1358 bp
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UTR
Exon/CDS
Intron
Rh4AG180400.1

Sequence Viewer

Length: 465 bp
ATGGCTGATGTCCCAAGCCCCTTTATGAGCCATCCAACTACCCAGAATCCCACTCTCCCAGTCCCAAAAACAAAATCACAAAGAAGCCCCAAAACAGAGAACATCAAAATGTTCAAACTCAGAGACAATCCCATCTTAATCTTGTATCTTGGCCTCCTCTTAATCCTTGCCCATTTCTCAATCTGCAATGGGGCGTCAGTTCTTGACCTCAGTGCACTCAAAGGAAGTGAAATTGATGTCAAGGTTAGGGACTTCATAACAGAGCCAGAGATGGACTCAGAGATAAGTAGAAGAGTGCTAGCAATGCAGAAGAAGTACATAAGCTATGAGACACTGAGGAGGGACTTGGTTCCTTGTGCAAGGCCAGGGGCTTCATACTACAATTGCCATGCTGTGGCCAACCCTTATAATAGAGGCTGTGAGGTTATCACAGGATGTAGAGGTACACATGACATCAAAACTTGA

Protein Analysis

154

Amino Acids

17.25

Weight (kDa)

9.01

Isoelectric Point (pI)

53.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RALF PF05498 88 - 148 7.7e-27 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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Orthologous Genes (Group: OG0014259)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G23805 AT4G13950
fragaria_vesca FvH4_4g13250
malus_domestica MD04G1017300.v1.1 MD13G1281800.v1.1
prunus_persica Prupe.1G165400_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0413501
rosa_laevigata RLG00000008215
rosa_multiflora Rmu_sc0000883.1_g000006
rosa_roxburghii Rroxscaffold_5G00357400
rosa_rugosa Rorug04G0120700
rosa_samantha Rh4AG180400 Rh4BG179700 Rh4CG191500 Rh4DG175700
rosa_wichuraiana Rw4G015030 Rw4G015080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 408
AccB7I CCANNNNNTGG 1 cut(s) 394
AcoI YGGCCR 1 cut(s) 396
AcyI GRCGYC 1 cut(s) 194
AfaI GTAC 2 cut(s) 317, 445
AfiI CCNNNNNNNGG 1 cut(s) 394
AgsI TTSAA 1 cut(s) 115
AjnI CCWGG 1 cut(s) 364
AluBI AGCT 1 cut(s) 324
AluI AGCT 1 cut(s) 324
Alw21I GWGCWC 1 cut(s) 217
Alw26I GTCTC 2 cut(s) 117, 323
Alw44I GTGCAC 1 cut(s) 213
AoxI GGCC 3 cut(s) 151, 362, 396
ApaLI GTGCAC 1 cut(s) 213
AsuNHI GCTAGC 1 cut(s) 298
BaeGI GKGCMC 1 cut(s) 217
BalI TGGCCA 1 cut(s) 398
Bbv12I GWGCWC 1 cut(s) 217
BccI CCATC 3 cut(s) 39, 140, 265
BciT130I CCWGG 1 cut(s) 366
BcoDI GTCTC 2 cut(s) 117, 323
BfaI CTAG 1 cut(s) 299
Bme1390I CCNGG 1 cut(s) 366
BmiI GGNNCC 1 cut(s) 351
BmrFI CCNGG 1 cut(s) 366
BmrI ACTGGG 1 cut(s) 53
BmtI GCTAGC 1 cut(s) 302
BmuI ACTGGG 1 cut(s) 53
BplI GAGNNNNNCTC 2 cut(s) 260, 292
BsaHI GRCGYC 1 cut(s) 194
BsaJI CCNNGG 1 cut(s) 365
Bsc4I CCNNNNNNNGG 1 cut(s) 394
Bse1I ACTGG 1 cut(s) 59
Bse3DI GCAATG 2 cut(s) 193, 309
BseBI CCWGG 1 cut(s) 366
BseDI CCNNGG 1 cut(s) 365
BseGI GGATG 2 cut(s) 31, 440
BseLI CCNNNNNNNGG 1 cut(s) 394
BseMI GCAATG 2 cut(s) 193, 309
BseMII CTCAG 4 cut(s) 133, 223, 291, 326
BseNI ACTGG 1 cut(s) 59
BseRI GAGGAG 2 cut(s) 146, 352
BseSI GKGCMC 1 cut(s) 217
BshFI GGCC 3 cut(s) 153, 364, 398
BsiHKAI GWGCWC 1 cut(s) 217
BslFI GGGAC 3 cut(s) 47, 263, 356
BslI CCNNNNNNNGG 1 cut(s) 394
BsmAI GTCTC 2 cut(s) 117, 323
BsmFI GGGAC 3 cut(s) 47, 263, 356
BsnI GGCC 3 cut(s) 153, 364, 398
Bsp1286I GDGCHC 1 cut(s) 217
BspANI GGCC 3 cut(s) 153, 364, 398
BspCNI CTCAG 4 cut(s) 132, 222, 290, 327
BspLI GGNNCC 1 cut(s) 351
BspOI GCTAGC 1 cut(s) 302
BsrDI GCAATG 2 cut(s) 193, 309
BsrI ACTGG 1 cut(s) 59
BssECI CCNNGG 1 cut(s) 365
BssNI GRCGYC 1 cut(s) 194
Bst2UI CCWGG 1 cut(s) 366
Bst6I CTCTTC 1 cut(s) 286
BstACI GRCGYC 1 cut(s) 194
BstC8I GCNNGC 1 cut(s) 300
BstDEI CTNAG 4 cut(s) 119, 209, 277, 335
BstF5I GGATG 2 cut(s) 31, 440
BstMAI GTCTC 2 cut(s) 117, 323
BstMWI GCNNNNNNNGC 1 cut(s) 304
BstNI CCWGG 1 cut(s) 366
BstSCI CCNGG 1 cut(s) 364
BstSLI GKGCMC 1 cut(s) 217
BsuRI GGCC 3 cut(s) 153, 364, 398
BtsCI GGATG 2 cut(s) 31, 440
BtsIMutI CAGTG 2 cut(s) 217, 332
Cac8I GCNNGC 1 cut(s) 300
CseI GACGC 1 cut(s) 183
Csp6I GTAC 2 cut(s) 316, 444
CviAII CATG 2 cut(s) 389, 449
CviQI GTAC 2 cut(s) 316, 444
DdeI CTNAG 4 cut(s) 119, 209, 277, 335
EaeI YGGCCR 1 cut(s) 396
Eam1104I CTCTTC 1 cut(s) 286
EarI CTCTTC 1 cut(s) 286
EcoRII CCWGG 1 cut(s) 364
FaeI CATG 2 cut(s) 392, 452
FaiI YATR 8 cut(s) 26, 257, 320, 327, 376, 390, 408, 450
FaqI GGGAC 3 cut(s) 47, 263, 356
FatI CATG 2 cut(s) 388, 448
FokI GGATG 2 cut(s) 18, 447
FspBI CTAG 1 cut(s) 299
HaeIII GGCC 3 cut(s) 153, 364, 398
HgaI GACGC 1 cut(s) 183
Hin1I GRCGYC 1 cut(s) 194
Hin1II CATG 2 cut(s) 392, 452
HinfI GANTC 2 cut(s) 46, 275
Hpy166II GTNNAC 2 cut(s) 215, 446
Hpy188I TCNGA 2 cut(s) 122, 280
Hpy188III TCNNGA 1 cut(s) 203
Hpy8I GTNNAC 2 cut(s) 215, 446
HpyCH4V TGCA 4 cut(s) 186, 215, 307, 359
HpyF10VI GCNNNNNNNGC 1 cut(s) 304
HpyF3I CTNAG 4 cut(s) 119, 209, 277, 335
Hsp92I GRCGYC 1 cut(s) 194
Hsp92II CATG 2 cut(s) 392, 452
LpnPI CCDG 6 cut(s) 56, 72, 279, 351, 378, 417
MaeI CTAG 1 cut(s) 299
MboII GAAGA 2 cut(s) 303, 322
MfeI CAATTG 1 cut(s) 382
MhlI GDGCHC 1 cut(s) 217
MlsI TGGCCA 1 cut(s) 398
MluCI AATT 2 cut(s) 231, 382
MluNI TGGCCA 1 cut(s) 398
MlyI GAGTC 1 cut(s) 269
MmeI TCCRAC 1 cut(s) 59
MnlI CCTC 8 cut(s) 164, 167, 218, 330, 333, 407, 415, 434
Mox20I TGGCCA 1 cut(s) 398
MscI TGGCCA 1 cut(s) 398
MseI TTAA 2 cut(s) 137, 161
MslI CAYNNNNRTG 1 cut(s) 107
Msp20I TGGCCA 1 cut(s) 398
MspR9I CCNGG 1 cut(s) 366
MunI CAATTG 1 cut(s) 382
MvaI CCWGG 1 cut(s) 366
MwoI GCNNNNNNNGC 1 cut(s) 304
NheI GCTAGC 1 cut(s) 298
NlaIII CATG 2 cut(s) 392, 452
NlaIV GGNNCC 1 cut(s) 351
PfeI GAWTC 1 cut(s) 46
PflMI CCANNNNNTGG 1 cut(s) 394
PleI GAGTC 1 cut(s) 269
PpsI GAGTC 1 cut(s) 269
PsiI TTATAA 1 cut(s) 408
Psp6I CCWGG 1 cut(s) 364
PspGI CCWGG 1 cut(s) 364
PspN4I GGNNCC 1 cut(s) 351
RsaI GTAC 2 cut(s) 317, 445
RsaNI GTAC 2 cut(s) 316, 444
RseI CAYNNNNRTG 1 cut(s) 107
SaqAI TTAA 2 cut(s) 137, 161
SchI GAGTC 1 cut(s) 269
ScrFI CCNGG 1 cut(s) 366
SduI GDGCHC 1 cut(s) 217
SetI ASST 5 cut(s) 210, 246, 326, 426, 445
SmiMI CAYNNNNRTG 1 cut(s) 107
Sse9I AATT 2 cut(s) 231, 382
SspMI CTAG 1 cut(s) 299
StyD4I CCNGG 1 cut(s) 364
TasI AATT 2 cut(s) 231, 382
TatI WGTACW 1 cut(s) 315
TfiI GAWTC 1 cut(s) 46
Tru1I TTAA 2 cut(s) 137, 161
Tru9I TTAA 2 cut(s) 137, 161
TscAI CASTG 2 cut(s) 217, 339
TspDTI ATGAA 2 cut(s) 244, 363
TspRI CASTG 2 cut(s) 217, 339
Van91I CCANNNNNTGG 1 cut(s) 394
VneI GTGCAC 1 cut(s) 213
XspI CTAG 1 cut(s) 299
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.