Rh5DG183900

Protein ROOT PRIMORDIUM DEFECTIVE

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0003409
Physical Location & Seq
Forward (+)
20380500 .. 20380847
348 bp
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UTR
Exon/CDS
Intron
Rh5DG183900.1

Sequence Viewer

Length: 348 bp
ATGGAAACAATTGAGTTCATTGAATCTAAATTGGATTTGCCGAATGACTTCAAGAAGTCACTGATTCGAAAGTACCCTGACTTTTTAGCAGTTAAAGATGTCAATGGAAGAGCTTATCTTCATTTGGAGAATTGGGACTCTTCACTAGCGGTGGCAGCTGTGGAACGATTGGCTAATGAAGGGTTTGTGGGCTCTGATGGAGTGGGAAAAAAGTTTGAAATCAAAAGATGGGAACTTTCAAGGTCCACAGGCCTTTATAATTATTTGCCTGCTGGTTTTAGGACAAATGCCAGTTACCTTGAGCAATTTGAAAGTAGCAGAAACTGGAATTCCCTTCTCCTTATTTGA
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
PORR

Protein Analysis

115

Amino Acids

13.21

Weight (kDa)

5.84

Isoelectric Point (pI)

39.48

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PORR PF11955 2 - 74 1.8e-12 Plant organelle RNA recognition domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 258
AciI CCGC 1 cut(s) 149
AcsI RAATTY 1 cut(s) 328
AfaI GTAC 1 cut(s) 74
AgsI TTSAA 5 cut(s) 23, 52, 218, 240, 311
AluBI AGCT 2 cut(s) 113, 158
AluI AGCT 2 cut(s) 113, 158
AlwNI CAGNNNCTG 1 cut(s) 324
AoxI GGCC 1 cut(s) 250
ApeKI GCWGC 1 cut(s) 155
ApoI RAATTY 1 cut(s) 328
Asp700I GAANNNNTTC 1 cut(s) 47
AspS9I GGNCC 1 cut(s) 243
AsuII TTCGAA 1 cut(s) 67
AvaII GGWCC 1 cut(s) 243
BanII GRGCYC 1 cut(s) 194
BbvI GCAGC 1 cut(s) 167
BccI CCATC 2 cut(s) 191, 222
BfaI CTAG 1 cut(s) 146
BisI GCNGC 1 cut(s) 156
BlsI GCNGC 1 cut(s) 157
Bme18I GGWCC 1 cut(s) 243
BmgT120I GGNCC 1 cut(s) 243
Bpu14I TTCGAA 1 cut(s) 67
BpuEI CTTGAG 1 cut(s) 320
Bse1I ACTGG 2 cut(s) 291, 329
BseNI ACTGG 2 cut(s) 291, 329
BseXI GCAGC 1 cut(s) 167
BshFI GGCC 1 cut(s) 252
BslFI GGGAC 1 cut(s) 149
BsmFI GGGAC 1 cut(s) 149
BsnI GGCC 1 cut(s) 252
Bsp119I TTCGAA 1 cut(s) 67
Bsp1286I GDGCHC 1 cut(s) 194
BspACI CCGC 1 cut(s) 149
BspANI GGCC 1 cut(s) 252
BspQI GCTCTTC 1 cut(s) 103
BspT104I TTCGAA 1 cut(s) 67
BsrI ACTGG 2 cut(s) 291, 329
Bst6I CTCTTC 2 cut(s) 103, 145
BstBI TTCGAA 1 cut(s) 67
BstC8I GCNNGC 1 cut(s) 270
BstMWI GCNNNNNNNGC 1 cut(s) 155
BstV1I GCAGC 1 cut(s) 167
BsuRI GGCC 1 cut(s) 252
BtsIMutI CAGTG 1 cut(s) 59
Cac8I GCNNGC 1 cut(s) 270
CaiI CAGNNNCTG 1 cut(s) 324
Cfr13I GGNCC 1 cut(s) 243
Csp6I GTAC 1 cut(s) 73
CviJI RGCY 5 cut(s) 113, 158, 173, 192, 252
CviKI_1 RGCY 5 cut(s) 113, 158, 173, 192, 252
CviQI GTAC 1 cut(s) 73
Eam1104I CTCTTC 2 cut(s) 103, 145
EarI CTCTTC 2 cut(s) 103, 145
Eco147I AGGCCT 1 cut(s) 252
Eco24I GRGCYC 1 cut(s) 194
Eco47I GGWCC 1 cut(s) 243
EcoRI GAATTC 1 cut(s) 328
EcoT38I GRGCYC 1 cut(s) 194
FaiI YATR 1 cut(s) 258
FaqI GGGAC 1 cut(s) 149
Fnu4HI GCNGC 1 cut(s) 156
FriOI GRGCYC 1 cut(s) 194
Fsp4HI GCNGC 1 cut(s) 156
FspBI CTAG 1 cut(s) 146
GluI GCNGC 1 cut(s) 156
HaeIII GGCC 1 cut(s) 252
HinfI GANTC 3 cut(s) 23, 64, 137
Hpy166II GTNNAC 1 cut(s) 246
Hpy188I TCNGA 1 cut(s) 196
Hpy188III TCNNGA 1 cut(s) 52
Hpy8I GTNNAC 1 cut(s) 246
HpyAV CCTTC 2 cut(s) 173, 344
HpyF10VI GCNNNNNNNGC 1 cut(s) 155
LguI GCTCTTC 1 cut(s) 103
LpnPI CCDG 6 cut(s) 90, 234, 258, 282, 304, 310
Lsp1109I GCAGC 1 cut(s) 167
MaeI CTAG 1 cut(s) 146
MaeIII GTNAC 2 cut(s) 57, 293
MboII GAAGA 3 cut(s) 110, 120, 132
MfeI CAATTG 1 cut(s) 9
MhlI GDGCHC 1 cut(s) 194
MluCI AATT 6 cut(s) 9, 29, 130, 259, 305, 328
MlyI GAGTC 1 cut(s) 131
MroXI GAANNNNTTC 1 cut(s) 47
MseI TTAA 1 cut(s) 93
MspA1I CMGCKG 1 cut(s) 158
MunI CAATTG 1 cut(s) 9
MwoI GCNNNNNNNGC 1 cut(s) 155
NmuCI GTSAC 1 cut(s) 57
NspV TTCGAA 1 cut(s) 67
PceI AGGCCT 1 cut(s) 252
PciSI GCTCTTC 1 cut(s) 103
PdmI GAANNNNTTC 1 cut(s) 47
PfeI GAWTC 2 cut(s) 23, 64
PkrI GCNGC 1 cut(s) 157
PleI GAGTC 1 cut(s) 131
PpsI GAGTC 1 cut(s) 131
PsiI TTATAA 1 cut(s) 258
PspPI GGNCC 1 cut(s) 243
PstNI CAGNNNCTG 1 cut(s) 324
PvuII CAGCTG 1 cut(s) 158
RsaI GTAC 1 cut(s) 74
RsaNI GTAC 1 cut(s) 73
SapI GCTCTTC 1 cut(s) 103
SaqAI TTAA 1 cut(s) 93
SatI GCNGC 1 cut(s) 156
Sau96I GGNCC 1 cut(s) 243
SchI GAGTC 1 cut(s) 131
SduI GDGCHC 1 cut(s) 194
SetI ASST 4 cut(s) 115, 160, 245, 300
SfuI TTCGAA 1 cut(s) 67
SinI GGWCC 1 cut(s) 243
SmlI CTYRAG 1 cut(s) 299
SmoI CTYRAG 1 cut(s) 299
Sse9I AATT 6 cut(s) 9, 29, 130, 259, 305, 328
SseBI AGGCCT 1 cut(s) 252
SsiI CCGC 1 cut(s) 149
SspMI CTAG 1 cut(s) 146
StuI AGGCCT 1 cut(s) 252
TaqI TCGA 1 cut(s) 67
TasI AATT 6 cut(s) 9, 29, 130, 259, 305, 328
TfiI GAWTC 2 cut(s) 23, 64
Tru1I TTAA 1 cut(s) 93
Tru9I TTAA 1 cut(s) 93
TscAI CASTG 1 cut(s) 66
TseFI GTSAC 1 cut(s) 57
TseI GCWGC 1 cut(s) 155
Tsp45I GTSAC 1 cut(s) 57
TspDTI ATGAA 3 cut(s) 7, 110, 192
TspRI CASTG 1 cut(s) 66
VpaK11BI GGWCC 1 cut(s) 243
XapI RAATTY 1 cut(s) 328
XmnI GAANNNNTTC 1 cut(s) 47
XspI CTAG 1 cut(s) 146
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.