Rroxscaffold_5G00357590

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0009810
Physical Location & Seq
Reverse (-)
37272518 .. 37274478
1961 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00357590.1

Sequence Viewer

Length: 417 bp
ATGAGTTTCGTGTGTTGTGCTGGTGTAGGCTCTTCAAAGATCCAAGAACAATCCACTTTCCAGATGGCTTTCTATAACAAGGTTGGGAGCCTTTTGAGACAAGGCATTTCCCAGAATGGACAAGCACCAATGTCATCTATGTTTAATTCTGCTCGTTACATGTCCTCCAAGCTTTTTGTTGGAGGTCTTTCGTTTTCCACTGATGACTCTTCTCTCAAAGATGCTTTTTCCGGTTTTGGTGATGTGACTGATGCAAAGGTCATCATGGATAGAGATACTGGGAGGTCGAGGGGATTTGGATTTGTTAACTTTGCCAGCGAAGATGCTGCCAATTCAGCCCTCACCGCTATGGATGGCCAGGAGTTAAATGGCCGAAGCATTCGTGTGAGTGTCGCTACCCGAACGAACTGGTCCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000166 GO:0000959 GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003723 GO:0005488 GO:0005507 GO:0005524 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006355 GO:0006725 GO:0006807 GO:0006950 GO:0006970 GO:0007275 GO:0008144 GO:0008150 GO:0008152 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009451 GO:0009628 GO:0009631 GO:0009651 GO:0009791 GO:0009845 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010035 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0016070 GO:0017076 GO:0019219 GO:0019222 GO:0030554 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031554 GO:0032501 GO:0032502 GO:0032553 GO:0032555 GO:0032559 GO:0034336 GO:0034641 GO:0035639 GO:0036094 GO:0042221 GO:0043167 GO:0043168 GO:0043169 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043242 GO:0043244 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0045892 GO:0045934 GO:0046483 GO:0046872 GO:0046914 GO:0048519 GO:0048523 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051129 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0060567 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090351 GO:0097159 GO:0097367 GO:1900864 GO:1901265 GO:1901360 GO:1901363 GO:1901700 GO:1902679 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RRM_1

Protein Analysis

138

Amino Acids

14.79

Weight (kDa)

7.76

Isoelectric Point (pI)

44.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 58 - 128 7.2e-24 RNA recognition motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 345
AclWI GGATC 1 cut(s) 34
AcoI YGGCCR 2 cut(s) 355, 370
AflIII ACRYGT 1 cut(s) 159
AgsI TTSAA 1 cut(s) 36
AjnI CCWGG 1 cut(s) 357
AluBI AGCT 1 cut(s) 172
AluI AGCT 1 cut(s) 172
Alw26I GTCTC 1 cut(s) 91
AlwI GGATC 1 cut(s) 34
AoxI GGCC 2 cut(s) 355, 370
ApeKI GCWGC 1 cut(s) 326
AspS9I GGNCC 1 cut(s) 411
AsuHPI GGTGA 2 cut(s) 251, 334
AvaII GGWCC 1 cut(s) 411
BalI TGGCCA 1 cut(s) 357
BbvI GCAGC 1 cut(s) 313
BccI CCATC 2 cut(s) 58, 347
BcgI CGANNNNNNTGC 2 cut(s) 308, 342
BciT130I CCWGG 1 cut(s) 359
BcoDI GTCTC 1 cut(s) 91
BfaI CTAG 1 cut(s) 415
BisI GCNGC 1 cut(s) 327
BlsI GCNGC 1 cut(s) 328
Bme1390I CCNGG 1 cut(s) 359
Bme18I GGWCC 1 cut(s) 411
BmgT120I GGNCC 1 cut(s) 411
BmiI GGNNCC 1 cut(s) 89
BmrFI CCNGG 1 cut(s) 359
BmrI ACTGGG 1 cut(s) 288
BmsI GCATC 3 cut(s) 211, 241, 313
BmuI ACTGGG 1 cut(s) 288
BsaWI WCCGGW 1 cut(s) 230
BsaXI ACNNNNNCTCC 2 cut(s) 149, 179
Bse1I ACTGG 2 cut(s) 283, 413
BseBI CCWGG 1 cut(s) 359
BseGI GGATG 1 cut(s) 358
BseNI ACTGG 2 cut(s) 283, 413
BseXI GCAGC 1 cut(s) 313
BshFI GGCC 2 cut(s) 357, 372
BsiSI CCGG 1 cut(s) 231
BsmAI GTCTC 1 cut(s) 91
BsmI GAATGC 1 cut(s) 378
BsnI GGCC 2 cut(s) 357, 372
Bsp143I GATC 1 cut(s) 39
BspACI CCGC 1 cut(s) 345
BspANI GGCC 2 cut(s) 357, 372
BspLI GGNNCC 1 cut(s) 89
BspPI GGATC 1 cut(s) 34
BspQI GCTCTTC 1 cut(s) 37
BsrI ACTGG 2 cut(s) 283, 413
BssMI GATC 1 cut(s) 39
Bst2UI CCWGG 1 cut(s) 359
Bst6I CTCTTC 2 cut(s) 37, 214
BstC8I GCNNGC 1 cut(s) 316
BstF5I GGATG 1 cut(s) 358
BstKTI GATC 1 cut(s) 42
BstMAI GTCTC 1 cut(s) 91
BstMBI GATC 1 cut(s) 39
BstMWI GCNNNNNNNGC 2 cut(s) 335, 344
BstNI CCWGG 1 cut(s) 359
BstNSI RCATGY 1 cut(s) 163
BstSCI CCNGG 1 cut(s) 357
BstV1I GCAGC 1 cut(s) 313
BstX2I RGATCY 1 cut(s) 39
BstYI RGATCY 1 cut(s) 39
BsuRI GGCC 2 cut(s) 357, 372
BtsCI GGATG 1 cut(s) 358
BtsIMutI CAGTG 1 cut(s) 198
Cac8I GCNNGC 1 cut(s) 316
Cfr13I GGNCC 1 cut(s) 411
CviAII CATG 2 cut(s) 160, 265
CviJI RGCY 7 cut(s) 30, 68, 90, 172, 338, 357, 372
CviKI_1 RGCY 7 cut(s) 30, 68, 90, 172, 338, 357, 372
DpnI GATC 1 cut(s) 41
DpnII GATC 1 cut(s) 39
EaeI YGGCCR 2 cut(s) 355, 370
Eam1104I CTCTTC 2 cut(s) 37, 214
EarI CTCTTC 2 cut(s) 37, 214
Eco47I GGWCC 1 cut(s) 411
EcoRII CCWGG 1 cut(s) 357
FaeI CATG 2 cut(s) 163, 268
FaiI YATR 5 cut(s) 75, 140, 161, 266, 350
FatI CATG 2 cut(s) 159, 264
Fnu4HI GCNGC 1 cut(s) 327
FokI GGATG 1 cut(s) 365
Fsp4HI GCNGC 1 cut(s) 327
FspBI CTAG 1 cut(s) 415
GluI GCNGC 1 cut(s) 327
HaeIII GGCC 2 cut(s) 357, 372
HapII CCGG 1 cut(s) 231
Hin1II CATG 2 cut(s) 163, 268
HincII GTYRAC 1 cut(s) 307
HindII GTYRAC 1 cut(s) 307
HindIII AAGCTT 1 cut(s) 170
HinfI GANTC 1 cut(s) 206
HpaI GTTAAC 1 cut(s) 307
HpaII CCGG 1 cut(s) 231
HphI GGTGA 2 cut(s) 251, 334
Hpy166II GTNNAC 1 cut(s) 307
Hpy188III TCNNGA 1 cut(s) 61
Hpy8I GTNNAC 1 cut(s) 307
HpyCH4V TGCA 1 cut(s) 254
HpyF10VI GCNNNNNNNGC 2 cut(s) 335, 344
Hsp92II CATG 2 cut(s) 163, 268
KspAI GTTAAC 1 cut(s) 307
Kzo9I GATC 1 cut(s) 39
LguI GCTCTTC 1 cut(s) 37
LmnI GCTCC 1 cut(s) 87
LpnPI CCDG 9 cut(s) 6, 74, 125, 244, 264, 328, 344, 371, 394
Lsp1109I GCAGC 1 cut(s) 313
LweI GCATC 3 cut(s) 211, 241, 313
MaeI CTAG 1 cut(s) 415
MaeIII GTNAC 2 cut(s) 155, 244
MalI GATC 1 cut(s) 41
MboI GATC 1 cut(s) 39
MboII GAAGA 3 cut(s) 24, 201, 332
MflI RGATCY 1 cut(s) 39
MlsI TGGCCA 1 cut(s) 357
MluCI AATT 2 cut(s) 145, 331
MluNI TGGCCA 1 cut(s) 357
MlyI GAGTC 1 cut(s) 200
MmeI TCCRAC 1 cut(s) 160
MnlI CCTC 5 cut(s) 175, 176, 276, 282, 350
Mox20I TGGCCA 1 cut(s) 357
MscI TGGCCA 1 cut(s) 357
MseI TTAA 3 cut(s) 144, 306, 365
MslI CAYNNNNRTG 2 cut(s) 347, 383
Msp20I TGGCCA 1 cut(s) 357
MspI CCGG 1 cut(s) 231
MspR9I CCNGG 1 cut(s) 359
Mva1269I GAATGC 1 cut(s) 378
MvaI CCWGG 1 cut(s) 359
MwoI GCNNNNNNNGC 2 cut(s) 335, 344
NdeII GATC 1 cut(s) 39
NlaIII CATG 2 cut(s) 163, 268
NlaIV GGNNCC 1 cut(s) 89
NmuCI GTSAC 1 cut(s) 244
NspI RCATGY 1 cut(s) 163
PciI ACATGT 1 cut(s) 159
PciSI GCTCTTC 1 cut(s) 37
PctI GAATGC 1 cut(s) 378
PkrI GCNGC 1 cut(s) 328
PleI GAGTC 1 cut(s) 200
PpsI GAGTC 1 cut(s) 200
PscI ACATGT 1 cut(s) 159
Psp6I CCWGG 1 cut(s) 357
PspGI CCWGG 1 cut(s) 357
PspN4I GGNNCC 1 cut(s) 89
PspPI GGNCC 1 cut(s) 411
PsuI RGATCY 1 cut(s) 39
RseI CAYNNNNRTG 2 cut(s) 347, 383
SapI GCTCTTC 1 cut(s) 37
SaqAI TTAA 3 cut(s) 144, 306, 365
SatI GCNGC 1 cut(s) 327
Sau3AI GATC 1 cut(s) 39
Sau96I GGNCC 1 cut(s) 411
SchI GAGTC 1 cut(s) 200
ScrFI CCNGG 1 cut(s) 359
SetI ASST 5 cut(s) 84, 174, 187, 261, 287
SfaNI GCATC 3 cut(s) 211, 241, 313
SinI GGWCC 1 cut(s) 411
SmiMI CAYNNNNRTG 2 cut(s) 347, 383
Sse9I AATT 2 cut(s) 145, 331
SsiI CCGC 1 cut(s) 345
SspMI CTAG 1 cut(s) 415
StyD4I CCNGG 1 cut(s) 357
TaqI TCGA 1 cut(s) 287
TasI AATT 2 cut(s) 145, 331
Tru1I TTAA 3 cut(s) 144, 306, 365
Tru9I TTAA 3 cut(s) 144, 306, 365
TscAI CASTG 1 cut(s) 205
TseFI GTSAC 1 cut(s) 244
TseI GCWGC 1 cut(s) 326
Tsp45I GTSAC 1 cut(s) 244
TspRI CASTG 1 cut(s) 205
VpaK11BI GGWCC 1 cut(s) 411
XceI RCATGY 1 cut(s) 163
XcmI CCANNNNNNNNNTGG 2 cut(s) 61, 365
XspI CTAG 1 cut(s) 415
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.