Rroxscaffold_2G00102300

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0008567
Physical Location & Seq
Forward (+)
24345598 .. 24351299
5702 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00102300.1

Sequence Viewer

Length: 837 bp
ATGGCTCATCCGCCCTACGACCCCTACTACCTGCCGCAACCACAGCAACCGCCGCCACTACCGGATTACAGCGACCGGAGCGTGATTAACACGCTTTTCGTCTCGGGCCTCCCCGACGACGTCAAGGCGCGTGAAATTCACAACCTCTTCCGCCGGCGACCTGGCTTCGACTCTTGCCAGCTCAAGTACACCGGCCGCGGCAACCAGGTCGTTGCTTTTGCTACGTTTTTCAATCACCAATCGGCAATTGCAGCTCTACATGCGTTAAATGGTGTCAAATTTGATCCTCAAACTGGGTCCTTGCTGCATATTGAACTTGCTAGATCAAACTCGAGAAGGAAGCGTAAACCAGGTAGTGGAGCCTATGTGGTTATAGATAAAAGGAGTAAAAAAGAGGATGATAACCAAGGAACGTCAAGCGATGATGACAGTGAATCTGAAGAACCATCTGAAACTGACAATCATGATTCTGGCGAGAAGAGTGATTTAGCAAACACAAAGAGTAGTGAGGCAGTGGTGGATTCTGATATTGCTGTAGCTGCCGTAAATGAGCAATCCGAAAAGCATGTTGATGGAGGACAATGTTCCACTCTGTTCATTGCAAATCTAGGTCCTAATTGCACCGAAGATGAACTGAAGCAAGTTTTGTCTCAGTATCCCGGATTTAATGTGATCAAATTGCGTGCTAAAGGTGGGATGCCAGTTGCATTTGCTGATTTTGAGGAAATTGAACAAGCTAATAAAGCCATGGATGAACTTCGTGGCACCATGTTACCATCTTCAGACCGGGGTGGCATGCATATAGAATATGCAAGGTCTAAAATGAGGAAGTCGTAG
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
RRM_1

Protein Analysis

278

Amino Acids

30.67

Weight (kDa)

5.53

Isoelectric Point (pI)

70.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 32 - 95 1.3e-08 RNA recognition motif
RRM_1 PF00076 198 - 260 4.2e-12 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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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 123
Acc36I ACCTGC 1 cut(s) 39
AccB1I GGYRCC 1 cut(s) 764
AccB7I CCANNNNNTGG 1 cut(s) 356
AccII CGCG 2 cut(s) 130, 198
AciI CCGC 7 cut(s) 11, 35, 50, 53, 151, 196, 198
AclWI GGATC 1 cut(s) 278
AcoI YGGCCR 1 cut(s) 193
AcsI RAATTY 2 cut(s) 135, 278
AcuI CTGAAG 3 cut(s) 459, 656, 765
AcyI GRCGYC 1 cut(s) 120
AfaI GTAC 1 cut(s) 188
AfiI CCNNNNNNNGG 2 cut(s) 293, 356
AgsI TTSAA 3 cut(s) 232, 314, 731
AjnI CCWGG 3 cut(s) 160, 204, 349
AluBI AGCT 4 cut(s) 181, 254, 539, 737
AluI AGCT 4 cut(s) 181, 254, 539, 737
Alw26I GTCTC 2 cut(s) 106, 654
AlwI GGATC 1 cut(s) 278
Ama87I CYCGRG 2 cut(s) 103, 331
AoxI GGCC 2 cut(s) 106, 193
ApeKI GCWGC 3 cut(s) 251, 304, 539
ApoI RAATTY 2 cut(s) 135, 278
AspLEI GCGC 1 cut(s) 130
AspS9I GGNCC 3 cut(s) 106, 297, 611
AsuC2I CCSGG 2 cut(s) 660, 788
AsuHPI GGTGA 1 cut(s) 227
AvaI CYCGRG 2 cut(s) 103, 331
AvaII GGWCC 2 cut(s) 297, 611
BanI GGYRCC 1 cut(s) 764
BbvI GCAGC 3 cut(s) 263, 291, 526
BccI CCATC 3 cut(s) 454, 566, 784
BceAI ACGGC 1 cut(s) 527
BcgI CGANNNNNNTGC 2 cut(s) 190, 224
BciT130I CCWGG 3 cut(s) 162, 206, 351
BciVI GTATCC 1 cut(s) 666
BclI TGATCA 1 cut(s) 672
BcnI CCSGG 2 cut(s) 660, 788
BcoDI GTCTC 2 cut(s) 106, 654
BfaI CTAG 2 cut(s) 321, 608
BfmI CTRYAG 1 cut(s) 534
BfuAI ACCTGC 1 cut(s) 39
BfuI GTATCC 1 cut(s) 666
BisI GCNGC 7 cut(s) 35, 53, 196, 199, 252, 305, 540
BlsI GCNGC 7 cut(s) 36, 54, 197, 200, 253, 306, 541
Bme1390I CCNGG 5 cut(s) 162, 206, 351, 660, 788
Bme18I GGWCC 2 cut(s) 297, 611
BmeT110I CYCGRG 2 cut(s) 103, 331
BmgT120I GGNCC 3 cut(s) 106, 297, 611
BmiI GGNNCC 3 cut(s) 298, 361, 766
BmrFI CCNGG 5 cut(s) 162, 206, 351, 660, 788
BmrI ACTGGG 1 cut(s) 303
BmsI GCATC 1 cut(s) 687
BmuI ACTGGG 1 cut(s) 303
BpuEI CTTGAG 1 cut(s) 167
BpuMI CCSGG 2 cut(s) 660, 788
BsaHI GRCGYC 1 cut(s) 120
BsaJI CCNNGG 4 cut(s) 196, 406, 747, 787
BsaWI WCCGGW 2 cut(s) 61, 75
BsaXI ACNNNNNCTCC 2 cut(s) 351, 381
Bsc4I CCNNNNNNNGG 2 cut(s) 293, 356
Bse118I RCCGGY 2 cut(s) 153, 191
Bse1I ACTGG 2 cut(s) 298, 701
Bse3DI GCAATG 1 cut(s) 597
BseBI CCWGG 3 cut(s) 162, 206, 351
BseDI CCNNGG 4 cut(s) 196, 406, 747, 787
BseGI GGATG 4 cut(s) 7, 403, 702, 757
BseLI CCNNNNNNNGG 2 cut(s) 293, 356
BseMI GCAATG 1 cut(s) 597
BseMII CTCAG 1 cut(s) 665
BseNI ACTGG 2 cut(s) 298, 701
BseX3I CGGCCG 1 cut(s) 193
BseXI GCAGC 3 cut(s) 263, 291, 526
Bsh1236I CGCG 2 cut(s) 130, 198
Bsh1285I CGRYCG 2 cut(s) 76, 196
BshFI GGCC 2 cut(s) 108, 195
BshNI GGYRCC 1 cut(s) 764
BsiEI CGRYCG 2 cut(s) 76, 196
BsiHKCI CYCGRG 2 cut(s) 103, 331
BsiSI CCGG 6 cut(s) 62, 76, 154, 192, 660, 787
BslI CCNNNNNNNGG 2 cut(s) 293, 356
BsmAI GTCTC 2 cut(s) 106, 654
BsmBI CGTCTC 1 cut(s) 106
BsnI GGCC 2 cut(s) 108, 195
BsoBI CYCGRG 2 cut(s) 103, 331
Bsp143I GATC 3 cut(s) 283, 323, 672
Bsp19I CCATGG 1 cut(s) 747
BspACI CCGC 7 cut(s) 11, 35, 50, 53, 151, 196, 198
BspANI GGCC 2 cut(s) 108, 195
BspCNI CTCAG 1 cut(s) 664
BspFNI CGCG 2 cut(s) 130, 198
BspHI TCATGA 1 cut(s) 463
BspLI GGNNCC 3 cut(s) 298, 361, 766
BspMI ACCTGC 1 cut(s) 39
BspPI GGATC 1 cut(s) 278
BspT107I GGYRCC 1 cut(s) 764
BsrDI GCAATG 1 cut(s) 597
BsrFI RCCGGY 2 cut(s) 153, 191
BsrI ACTGG 2 cut(s) 298, 701
BssAI RCCGGY 2 cut(s) 153, 191
BssECI CCNNGG 4 cut(s) 196, 406, 747, 787
BssMI GATC 3 cut(s) 283, 323, 672
BssNI GRCGYC 1 cut(s) 120
BssT1I CCWWGG 2 cut(s) 406, 747
Bst2UI CCWGG 3 cut(s) 162, 206, 351
Bst4CI ACNGT 1 cut(s) 431
Bst6I CTCTTC 2 cut(s) 152, 473
BstACI GRCGYC 1 cut(s) 120
BstC8I GCNNGC 4 cut(s) 155, 179, 684, 797
BstDEI CTNAG 1 cut(s) 651
BstDSI CCRYGG 2 cut(s) 196, 747
BstF5I GGATG 4 cut(s) 7, 403, 702, 757
BstFNI CGCG 2 cut(s) 130, 198
BstHHI GCGC 1 cut(s) 130
BstKTI GATC 3 cut(s) 286, 326, 675
BstMAI GTCTC 2 cut(s) 106, 654
BstMBI GATC 3 cut(s) 283, 323, 672
BstMCI CGRYCG 2 cut(s) 76, 196
BstMWI GCNNNNNNNGC 7 cut(s) 43, 52, 78, 251, 260, 539, 743
BstNI CCWGG 3 cut(s) 162, 206, 351
BstNSI RCATGY 3 cut(s) 263, 569, 799
BstSCI CCNGG 5 cut(s) 160, 204, 349, 658, 786
BstSFI CTRYAG 1 cut(s) 534
BstUI CGCG 2 cut(s) 130, 198
BstV1I GCAGC 3 cut(s) 263, 291, 526
BstZI CGGCCG 1 cut(s) 193
BsuI GTATCC 1 cut(s) 666
BsuRI GGCC 2 cut(s) 108, 195
BtgI CCRYGG 2 cut(s) 196, 747
BtgZI GCGATG 1 cut(s) 435
BtsCI GGATG 4 cut(s) 7, 403, 702, 757
BtsI GCAGTG 1 cut(s) 519
BtsIMutI CAGTG 2 cut(s) 436, 519
BveI ACCTGC 1 cut(s) 39
Cac8I GCNNGC 4 cut(s) 155, 179, 684, 797
CciI TCATGA 1 cut(s) 463
CfoI GCGC 1 cut(s) 130
Cfr10I RCCGGY 2 cut(s) 153, 191
Cfr13I GGNCC 3 cut(s) 106, 297, 611
Cfr42I CCGCGG 1 cut(s) 199
CsiI ACCWGGT 2 cut(s) 204, 349
Csp6I GTAC 1 cut(s) 187
CviAII CATG 6 cut(s) 260, 464, 566, 748, 769, 796
CviQI GTAC 1 cut(s) 187
DdeI CTNAG 1 cut(s) 651
DpnI GATC 3 cut(s) 285, 325, 674
DpnII GATC 3 cut(s) 283, 323, 672
EaeI YGGCCR 1 cut(s) 193
EagI CGGCCG 1 cut(s) 193
Eam1104I CTCTTC 2 cut(s) 152, 473
EarI CTCTTC 2 cut(s) 152, 473
EciI GGCGGA 1 cut(s) 140
EclXI CGGCCG 1 cut(s) 193
Eco130I CCWWGG 2 cut(s) 406, 747
Eco47I GGWCC 2 cut(s) 297, 611
Eco52I CGGCCG 1 cut(s) 193
Eco57I CTGAAG 3 cut(s) 459, 656, 765
Eco88I CYCGRG 2 cut(s) 103, 331
EcoO109I RGGNCCY 2 cut(s) 297, 611
EcoRII CCWGG 3 cut(s) 160, 204, 349
EcoT14I CCWWGG 2 cut(s) 406, 747
EcoT22I ATGCAT 1 cut(s) 801
ErhI CCWWGG 2 cut(s) 406, 747
Esp3I CGTCTC 1 cut(s) 106
FaeI CATG 6 cut(s) 263, 467, 569, 751, 772, 799
FatI CATG 6 cut(s) 259, 463, 565, 747, 768, 795
FbaI TGATCA 1 cut(s) 672
Fnu4HI GCNGC 7 cut(s) 35, 53, 196, 199, 252, 305, 540
FokI GGATG 3 cut(s) 410, 709, 764
Fsp4HI GCNGC 7 cut(s) 35, 53, 196, 199, 252, 305, 540
FspBI CTAG 2 cut(s) 321, 608
GlaI GCGC 1 cut(s) 129
GluI GCNGC 7 cut(s) 35, 53, 196, 199, 252, 305, 540
HaeIII GGCC 2 cut(s) 108, 195
HapII CCGG 6 cut(s) 62, 76, 154, 192, 660, 787
HhaI GCGC 1 cut(s) 130
Hin1I GRCGYC 1 cut(s) 120
Hin1II CATG 6 cut(s) 263, 467, 569, 751, 772, 799
Hin6I GCGC 1 cut(s) 128
HinP1I GCGC 1 cut(s) 128
HinfI GANTC 4 cut(s) 170, 434, 467, 521
HpaII CCGG 6 cut(s) 62, 76, 154, 192, 660, 787
HphI GGTGA 1 cut(s) 227
Hpy166II GTNNAC 2 cut(s) 189, 347
Hpy188I TCNGA 5 cut(s) 439, 451, 526, 559, 784
Hpy188III TCNNGA 2 cut(s) 333, 464
Hpy8I GTNNAC 2 cut(s) 189, 347
Hpy99I CGWCG 2 cut(s) 119, 122
HpyAV CCTTC 1 cut(s) 330
HpyCH4III ACNGT 1 cut(s) 431
HpyCH4IV ACGT 3 cut(s) 120, 224, 413
HpyCH4V TGCA 7 cut(s) 251, 307, 602, 621, 707, 799, 812
HpyF10VI GCNNNNNNNGC 7 cut(s) 43, 52, 78, 251, 260, 539, 743
HpyF3I CTNAG 1 cut(s) 651
HpySE526I ACGT 3 cut(s) 120, 224, 413
Hsp92I GRCGYC 1 cut(s) 120
Hsp92II CATG 6 cut(s) 263, 467, 569, 751, 772, 799
HspAI GCGC 1 cut(s) 128
KroI GCCGGC 1 cut(s) 153
KroNI GCCGGC 1 cut(s) 155
Ksp22I TGATCA 1 cut(s) 672
KspI CCGCGG 1 cut(s) 199
Kzo9I GATC 3 cut(s) 283, 323, 672
LmnI GCTCC 2 cut(s) 78, 359
Lsp1109I GCAGC 3 cut(s) 263, 291, 526
LweI GCATC 1 cut(s) 687
MabI ACCWGGT 2 cut(s) 204, 349
MaeI CTAG 2 cut(s) 321, 608
MaeII ACGT 3 cut(s) 120, 224, 413
MaeIII GTNAC 1 cut(s) 771
MalI GATC 3 cut(s) 285, 325, 674
MboI GATC 3 cut(s) 283, 323, 672
MboII GAAGA 5 cut(s) 139, 452, 490, 638, 771
MfeI CAATTG 1 cut(s) 246
MluCI AATT 6 cut(s) 135, 246, 278, 616, 677, 726
MlyI GAGTC 1 cut(s) 164
MnlI CCTC 8 cut(s) 119, 155, 297, 388, 502, 569, 715, 819
Mph1103I ATGCAT 1 cut(s) 801
MreI CGCCGGCG 1 cut(s) 153
MroNI GCCGGC 1 cut(s) 153
MseI TTAA 3 cut(s) 87, 266, 666
MslI CAYNNNNRTG 1 cut(s) 570
MspA1I CMGCKG 1 cut(s) 198
MspI CCGG 6 cut(s) 62, 76, 154, 192, 660, 787
MspR9I CCNGG 5 cut(s) 162, 206, 351, 660, 788
MunI CAATTG 1 cut(s) 246
MvaI CCWGG 3 cut(s) 162, 206, 351
MvnI CGCG 2 cut(s) 130, 198
MwoI GCNNNNNNNGC 7 cut(s) 43, 52, 78, 251, 260, 539, 743
NaeI GCCGGC 1 cut(s) 155
NciI CCSGG 2 cut(s) 660, 788
NcoI CCATGG 1 cut(s) 747
NdeII GATC 3 cut(s) 283, 323, 672
NgoMIV GCCGGC 1 cut(s) 153
NlaIII CATG 6 cut(s) 263, 467, 569, 751, 772, 799
NlaIV GGNNCC 3 cut(s) 298, 361, 766
NsiI ATGCAT 1 cut(s) 801
NspI RCATGY 3 cut(s) 263, 569, 799
PaeI GCATGC 1 cut(s) 799
PaeR7I CTCGAG 1 cut(s) 331
PagI TCATGA 1 cut(s) 463
PdiI GCCGGC 1 cut(s) 155
PfeI GAWTC 3 cut(s) 434, 467, 521
PflFI GACNNNGTC 1 cut(s) 119
PflMI CCANNNNNTGG 1 cut(s) 356
PfoI TCCNGGA 1 cut(s) 658
PkrI GCNGC 7 cut(s) 36, 54, 197, 200, 253, 306, 541
PleI GAGTC 1 cut(s) 164
PpsI GAGTC 1 cut(s) 164
PpuMI RGGWCCY 2 cut(s) 297, 611
Psp5II RGGWCCY 2 cut(s) 297, 611
Psp6I CCWGG 3 cut(s) 160, 204, 349
PspGI CCWGG 3 cut(s) 160, 204, 349
PspN4I GGNNCC 3 cut(s) 298, 361, 766
PspPI GGNCC 3 cut(s) 106, 297, 611
PspPPI RGGWCCY 2 cut(s) 297, 611
PsyI GACNNNGTC 1 cut(s) 119
RsaI GTAC 1 cut(s) 188
RsaNI GTAC 1 cut(s) 187
RseI CAYNNNNRTG 1 cut(s) 570
SacII CCGCGG 1 cut(s) 199
SaqAI TTAA 3 cut(s) 87, 266, 666
SatI GCNGC 7 cut(s) 35, 53, 196, 199, 252, 305, 540
Sau3AI GATC 3 cut(s) 283, 323, 672
Sau96I GGNCC 3 cut(s) 106, 297, 611
SchI GAGTC 1 cut(s) 164
ScrFI CCNGG 5 cut(s) 162, 206, 351, 660, 788
SexAI ACCWGGT 2 cut(s) 204, 349
SfaNI GCATC 1 cut(s) 687
SfcI CTRYAG 1 cut(s) 534
Sfr274I CTCGAG 1 cut(s) 331
Sfr303I CCGCGG 1 cut(s) 199
SgrAI CRCCGGYG 1 cut(s) 153
SgrBI CCGCGG 1 cut(s) 199
SinI GGWCC 2 cut(s) 297, 611
SlaI CTCGAG 1 cut(s) 331
SmiMI CAYNNNNRTG 1 cut(s) 570
SmlI CTYRAG 2 cut(s) 182, 331
SmoI CTYRAG 2 cut(s) 182, 331
SphI GCATGC 1 cut(s) 799
Sse9I AATT 6 cut(s) 135, 246, 278, 616, 677, 726
SsiI CCGC 7 cut(s) 11, 35, 50, 53, 151, 196, 198
SspMI CTAG 2 cut(s) 321, 608
StyD4I CCNGG 5 cut(s) 160, 204, 349, 658, 786
StyI CCWWGG 2 cut(s) 406, 747
TaaI ACNGT 1 cut(s) 431
TaiI ACGT 3 cut(s) 123, 227, 416
TaqI TCGA 2 cut(s) 168, 332
TasI AATT 6 cut(s) 135, 246, 278, 616, 677, 726
TatI WGTACW 1 cut(s) 186
TauI GCSGC 4 cut(s) 37, 55, 198, 201
TfiI GAWTC 3 cut(s) 434, 467, 521
Tru1I TTAA 3 cut(s) 87, 266, 666
Tru9I TTAA 3 cut(s) 87, 266, 666
TscAI CASTG 2 cut(s) 436, 519
TseI GCWGC 3 cut(s) 251, 304, 539
TspDTI ATGAA 3 cut(s) 586, 645, 768
TspRI CASTG 2 cut(s) 436, 519
Tth111I GACNNNGTC 1 cut(s) 119
Van91I CCANNNNNTGG 1 cut(s) 356
VpaK11BI GGWCC 2 cut(s) 297, 611
XapI RAATTY 2 cut(s) 135, 278
XceI RCATGY 3 cut(s) 263, 569, 799
XhoI CTCGAG 1 cut(s) 331
XspI CTAG 2 cut(s) 321, 608
ZraI GACGTC 1 cut(s) 121
Zsp2I ATGCAT 1 cut(s) 801
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.