RchiOBHm_Chr1g0313031

Clp protease-related protein At4g12060

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0012795
Physical Location & Seq
Reverse (-)
124133 .. 127957
3825 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ54385

Sequence Viewer

Length: 420 bp
ATGGGTGAATTGGAAGCAAGGAAGCTCAAGTATCCCAATACTGGCACGGAAGCCCTTCTGATGGGAATTTTAGTCGAGGGAACAAGTATAGCTGCGAAGTTTCTCAGAGCTAATGGAATCACGCTTTTCAAGGTTCGAGAAGAAACTGTAAAGTTACTTGGAAAGTCAGACATGTACTTTTTCAGCCCCGAGCATCCTCCATTGACTGAGCCAGCTCAGAGGGCCCTTGACTGGGCTGTAGATCAAAAACTGAAGTCAGGAGACGGTGGGGAAATAACAGTAACTCATCTGCTTCTCGGGATTTGGTCTGAAAAAGAGTCAGCAGGTCACAAGATCTTGGTGTCCCTGGGTTTTGATGATGAGAAAGCAAAAGAGCTTTCTGTATCTATGGACAAGGATTATGTTCCTAGCTATAAATAA

Protein Analysis

139

Amino Acids

15.38

Weight (kDa)

5.64

Isoelectric Point (pI)

24.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Clp_N PF02861 5 - 114 1.8e-14 Clp repeat (R) N-terminal domain
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: OG0012795)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G25370
fragaria_vesca FvH4_7g00050
malus_domestica MD00G1055600.v1.1 MD02G1320000.v1.1
prunus_persica Prupe.2G002100_v2.0.a1
pyrus_communis pycom07g00100
rosa_chinensis RchiOBHm_Chr1g0313031 RchiOBHm_Chr1g0313191
rosa_laevigata RLG00000030817
rosa_multiflora Rmu_co8509777.1_g000001
rosa_roxburghii Rroxscaffold_4G00332400
rosa_rugosa RorugPtG0001300.1
rosa_samantha Rh1AG000400 Rh1AG001500 Rh1CG003500 Rh1CG006100 Rh1DG001400
rosa_wichuraiana Rw1G000050

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 314
AcsI RAATTY 1 cut(s) 66
AcuI CTGAAG 1 cut(s) 272
AfaI GTAC 1 cut(s) 176
AfiI CCNNNNNNNGG 4 cut(s) 41, 61, 231, 232
AflIII ACRYGT 1 cut(s) 171
AgsI TTSAA 1 cut(s) 130
AjnI CCWGG 1 cut(s) 345
AluBI AGCT 6 cut(s) 25, 92, 110, 215, 376, 411
AluI AGCT 6 cut(s) 25, 92, 110, 215, 376, 411
Alw26I GTCTC 1 cut(s) 255
Ama87I CYCGRG 2 cut(s) 188, 296
AoxI GGCC 1 cut(s) 222
ApaI GGGCCC 1 cut(s) 226
ApeKI GCWGC 1 cut(s) 92
ApoI RAATTY 1 cut(s) 66
Asp700I GAANNNNTTC 1 cut(s) 54
AspS9I GGNCC 2 cut(s) 222, 223
AsuHPI GGTGA 1 cut(s) 17
AvaI CYCGRG 2 cut(s) 188, 296
BaeGI GKGCMC 1 cut(s) 226
BanII GRGCYC 1 cut(s) 226
BbvI GCAGC 1 cut(s) 79
BccI CCATC 1 cut(s) 55
BciT130I CCWGG 1 cut(s) 347
BciVI GTATCC 1 cut(s) 42
BcoDI GTCTC 1 cut(s) 255
BfaI CTAG 1 cut(s) 408
BfmI CTRYAG 1 cut(s) 237
BfuAI ACCTGC 1 cut(s) 314
BfuI GTATCC 1 cut(s) 42
BglII AGATCT 1 cut(s) 333
BisI GCNGC 1 cut(s) 93
BlsI GCNGC 1 cut(s) 94
Bme1390I CCNGG 1 cut(s) 347
BmeT110I CYCGRG 2 cut(s) 188, 296
BmgT120I GGNCC 2 cut(s) 222, 223
BmiI GGNNCC 1 cut(s) 224
BmrFI CCNGG 1 cut(s) 347
BmrI ACTGGG 1 cut(s) 241
BmsI GCATC 1 cut(s) 202
BmuI ACTGGG 1 cut(s) 241
BpuEI CTTGAG 1 cut(s) 11
BsaJI CCNNGG 2 cut(s) 345, 346
Bsc4I CCNNNNNNNGG 4 cut(s) 41, 61, 231, 232
Bse1I ACTGG 2 cut(s) 46, 236
BseBI CCWGG 1 cut(s) 347
BseDI CCNNGG 2 cut(s) 345, 346
BseGI GGATG 1 cut(s) 193
BseLI CCNNNNNNNGG 4 cut(s) 41, 61, 231, 232
BseMII CTCAG 3 cut(s) 118, 198, 230
BseNI ACTGG 2 cut(s) 46, 236
BseSI GKGCMC 1 cut(s) 226
BseXI GCAGC 1 cut(s) 79
BshFI GGCC 1 cut(s) 224
BsiHKCI CYCGRG 2 cut(s) 188, 296
BslFI GGGAC 1 cut(s) 328
BslI CCNNNNNNNGG 4 cut(s) 41, 61, 231, 232
BsmAI GTCTC 1 cut(s) 255
BsmBI CGTCTC 1 cut(s) 255
BsmFI GGGAC 1 cut(s) 328
BsnI GGCC 1 cut(s) 224
BsoBI CYCGRG 2 cut(s) 188, 296
Bsp120I GGGCCC 1 cut(s) 222
Bsp1286I GDGCHC 1 cut(s) 226
Bsp143I GATC 2 cut(s) 241, 333
BspANI GGCC 1 cut(s) 224
BspCNI CTCAG 3 cut(s) 117, 199, 229
BspLI GGNNCC 1 cut(s) 224
BspMI ACCTGC 1 cut(s) 314
BsrI ACTGG 2 cut(s) 46, 236
BssECI CCNNGG 2 cut(s) 345, 346
BssMI GATC 2 cut(s) 241, 333
Bst2UI CCWGG 1 cut(s) 347
Bst4CI ACNGT 3 cut(s) 148, 266, 280
BstC8I GCNNGC 1 cut(s) 213
BstDEI CTNAG 3 cut(s) 104, 207, 216
BstF5I GGATG 1 cut(s) 193
BstKTI GATC 2 cut(s) 244, 336
BstMAI GTCTC 1 cut(s) 255
BstMBI GATC 2 cut(s) 241, 333
BstMWI GCNNNNNNNGC 1 cut(s) 221
BstNI CCWGG 1 cut(s) 347
BstNSI RCATGY 1 cut(s) 175
BstSCI CCNGG 1 cut(s) 345
BstSFI CTRYAG 1 cut(s) 237
BstSLI GKGCMC 1 cut(s) 226
BstV1I GCAGC 1 cut(s) 79
BstX2I RGATCY 1 cut(s) 333
BstYI RGATCY 1 cut(s) 333
BsuI GTATCC 1 cut(s) 42
BsuRI GGCC 1 cut(s) 224
BtsCI GGATG 1 cut(s) 193
BveI ACCTGC 1 cut(s) 314
Cac8I GCNNGC 1 cut(s) 213
Cfr13I GGNCC 2 cut(s) 222, 223
Csp6I GTAC 1 cut(s) 175
CviAII CATG 1 cut(s) 172
CviQI GTAC 1 cut(s) 175
DdeI CTNAG 3 cut(s) 104, 207, 216
DpnI GATC 2 cut(s) 243, 335
DpnII GATC 2 cut(s) 241, 333
Eco24I GRGCYC 1 cut(s) 226
Eco57I CTGAAG 1 cut(s) 272
Eco88I CYCGRG 2 cut(s) 188, 296
EcoO109I RGGNCCY 2 cut(s) 222, 223
EcoRII CCWGG 1 cut(s) 345
EcoT38I GRGCYC 1 cut(s) 226
Esp3I CGTCTC 1 cut(s) 255
FaeI CATG 1 cut(s) 175
FaiI YATR 5 cut(s) 89, 173, 389, 402, 414
FaqI GGGAC 1 cut(s) 328
FatI CATG 1 cut(s) 171
Fnu4HI GCNGC 1 cut(s) 93
FokI GGATG 1 cut(s) 180
FriOI GRGCYC 1 cut(s) 226
Fsp4HI GCNGC 1 cut(s) 93
FspBI CTAG 1 cut(s) 408
GluI GCNGC 1 cut(s) 93
HaeIII GGCC 1 cut(s) 224
Hin1II CATG 1 cut(s) 175
HinfI GANTC 2 cut(s) 117, 317
HphI GGTGA 1 cut(s) 17
Hpy188I TCNGA 5 cut(s) 60, 107, 169, 219, 310
Hpy188III TCNNGA 3 cut(s) 137, 258, 298
HpyAV CCTTC 1 cut(s) 65
HpyCH4III ACNGT 3 cut(s) 148, 266, 280
HpyF10VI GCNNNNNNNGC 1 cut(s) 221
HpyF3I CTNAG 3 cut(s) 104, 207, 216
Hsp92II CATG 1 cut(s) 175
Kzo9I GATC 2 cut(s) 241, 333
LpnPI CCDG 7 cut(s) 27, 217, 225, 243, 309, 332, 359
Lsp1109I GCAGC 1 cut(s) 79
LweI GCATC 1 cut(s) 202
MaeI CTAG 1 cut(s) 408
MaeIII GTNAC 3 cut(s) 153, 280, 326
MalI GATC 2 cut(s) 243, 335
MboI GATC 2 cut(s) 241, 333
MboII GAAGA 1 cut(s) 152
MflI RGATCY 1 cut(s) 333
MhlI GDGCHC 1 cut(s) 226
MluCI AATT 2 cut(s) 8, 66
MlyI GAGTC 1 cut(s) 326
MnlI CCTC 3 cut(s) 70, 207, 213
MroXI GAANNNNTTC 1 cut(s) 54
MspR9I CCNGG 1 cut(s) 347
MvaI CCWGG 1 cut(s) 347
MwoI GCNNNNNNNGC 1 cut(s) 221
NdeII GATC 2 cut(s) 241, 333
NlaIII CATG 1 cut(s) 175
NlaIV GGNNCC 1 cut(s) 224
NmuCI GTSAC 1 cut(s) 326
NspI RCATGY 1 cut(s) 175
PasI CCCWGGG 1 cut(s) 346
PciI ACATGT 1 cut(s) 171
PdmI GAANNNNTTC 1 cut(s) 54
PfeI GAWTC 1 cut(s) 117
PkrI GCNGC 1 cut(s) 94
PleI GAGTC 1 cut(s) 325
PpsI GAGTC 1 cut(s) 325
PscI ACATGT 1 cut(s) 171
Psp6I CCWGG 1 cut(s) 345
PspGI CCWGG 1 cut(s) 345
PspN4I GGNNCC 1 cut(s) 224
PspOMI GGGCCC 1 cut(s) 222
PspPI GGNCC 2 cut(s) 222, 223
PsuI RGATCY 1 cut(s) 333
RsaI GTAC 1 cut(s) 176
RsaNI GTAC 1 cut(s) 175
SatI GCNGC 1 cut(s) 93
Sau3AI GATC 2 cut(s) 241, 333
Sau96I GGNCC 2 cut(s) 222, 223
SchI GAGTC 1 cut(s) 326
ScrFI CCNGG 1 cut(s) 347
SduI GDGCHC 1 cut(s) 226
SetI ASST 8 cut(s) 27, 94, 112, 135, 217, 328, 378, 413
SfaNI GCATC 1 cut(s) 202
SfcI CTRYAG 1 cut(s) 237
SmlI CTYRAG 1 cut(s) 26
SmoI CTYRAG 1 cut(s) 26
Sse9I AATT 2 cut(s) 8, 66
SspMI CTAG 1 cut(s) 408
StyD4I CCNGG 1 cut(s) 345
TaaI ACNGT 3 cut(s) 148, 266, 280
TaqI TCGA 2 cut(s) 75, 136
TasI AATT 2 cut(s) 8, 66
TatI WGTACW 1 cut(s) 174
TfiI GAWTC 1 cut(s) 117
TseFI GTSAC 1 cut(s) 326
TseI GCWGC 1 cut(s) 92
Tsp45I GTSAC 1 cut(s) 326
TspGWI ACGGA 1 cut(s) 62
XapI RAATTY 1 cut(s) 66
XceI RCATGY 1 cut(s) 175
XmnI GAANNNNTTC 1 cut(s) 54
XspI CTAG 1 cut(s) 408
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.