Rroxscaffold_4G00295480

RNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0017513
Physical Location & Seq
Reverse (-)
15512560 .. 15515124
2565 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00295480.1

Sequence Viewer

Length: 720 bp
ATGAGGAGGTACTTTGAGCAGTTTGGAGAGATCTTGGAGGCTGTTGTTATTACAGATAAAAACACTGGAAGATCCAAAGGCTACGGATTTGTCACATTTAAGGATCCAGAGGCAGCCATGAGGGCTTGTCAGAACCCTTCTCCTGTTATTGATGGAAGAAGAGCAAACTGCAATCTTGCTTCTATTGGTGCTCAGAAAACTCGTCCACCCACTCCTCAACATGGTTTCGGAAGGTTTAGACCAGCACCTGGTTTGGTAGCTCCACCTGCTTATCATGGCTCTTCATCCACATACTTCCATCAACCCAGTGGTCAATACACATTTCCTTATTCAGCTTATGGGTACTCTGGATATTCACAAGATTCCATATATCCCATGAACTATTATAGTGTTTATGGTGGTCAACAATTCTCACCTTACTACACCACCACAGCTGGGGCATCAGGGCCAGCTGGCATGTACCACAATTACTACCCATACTATGCTGCTGCTCAATATGCACAGGCTAGTAGTAACCAAGCACAAGGCTTTGGAGTTCAATATCCCCAAATGGTGCAGTACCCATATTTGCCTCAACACTATGGTTCTTCAGCTGGGATTCTCTCACTTCCTTCTTCAATCCCAGTTGCTACTACCACTTCTACCACCACAGGTGTAACAATAGCCACTGGGGTAACTGGAGCTTCTGCAACCAATTCTGAACAGAATTCTTCGAGTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000075 GO:0000077 GO:0000278 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003730 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006950 GO:0006974 GO:0006977 GO:0006978 GO:0007049 GO:0007050 GO:0007093 GO:0007154 GO:0007165 GO:0007346 GO:0008150 GO:0008285 GO:0009892 GO:0009893 GO:0009894 GO:0009895 GO:0009987 GO:0010468 GO:0010564 GO:0010604 GO:0010605 GO:0010608 GO:0010628 GO:0010948 GO:0019219 GO:0019222 GO:0022402 GO:0023052 GO:0030330 GO:0031323 GO:0031324 GO:0031329 GO:0031330 GO:0031570 GO:0031571 GO:0033554 GO:0035556 GO:0042127 GO:0042770 GO:0042772 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043484 GO:0043487 GO:0043488 GO:0043489 GO:0044424 GO:0044444 GO:0044464 GO:0044773 GO:0044774 GO:0044783 GO:0044819 GO:0045786 GO:0045787 GO:0045930 GO:0045934 GO:0048255 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0051716 GO:0051726 GO:0060255 GO:0061013 GO:0065007 GO:0065008 GO:0070935 GO:0071156 GO:0071158 GO:0072331 GO:0072395 GO:0072401 GO:0072413 GO:0072422 GO:0072431 GO:0080090 GO:0090068 GO:0097159 GO:1901363 GO:1901987 GO:1901988 GO:1901990 GO:1901991 GO:1902369 GO:1902373 GO:1902400 GO:1902402 GO:1902403 GO:1902806 GO:1902807 GO:1903047 GO:1903311 GO:1903312 GO:2000045 GO:2000134
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RRM_1

Protein Analysis

239

Amino Acids

25.77

Weight (kDa)

8.9

Isoelectric Point (pI)

50.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 2 - 44 3.6e-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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Orthologous Genes (Group: OG0017513)

Species Orthologous Gene IDs
fragaria_vesca FvH4_7g17600
rosa_chinensis RchiOBHm_Chr1g0361041
rosa_laevigata RLG00000027753
rosa_multiflora Rmu_sc0000677.1_g000005
rosa_roxburghii Rroxscaffold_4G00295480
rosa_rugosa Rorug01G0284900 Rorug01G0285000
rosa_samantha Rh1AG296400 Rh1BG260700 Rh1CG278000 Rh1DG290700
rosa_wichuraiana Rw1G026180

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 274
Acc36I ACCTGC 1 cut(s) 274
AccB7I CCANNNNNTGG 1 cut(s) 248
AclWI GGATC 3 cut(s) 66, 98, 111
AcsI RAATTY 1 cut(s) 706
AcuI CTGAAG 1 cut(s) 573
AfaI GTAC 4 cut(s) 11, 344, 461, 560
AfiI CCNNNNNNNGG 3 cut(s) 221, 248, 435
AgsI TTSAA 2 cut(s) 539, 618
AjnI CCWGG 1 cut(s) 247
AluBI AGCT 6 cut(s) 260, 335, 434, 452, 593, 683
AluI AGCT 6 cut(s) 260, 335, 434, 452, 593, 683
Alw21I GWGCWC 1 cut(s) 193
AlwI GGATC 3 cut(s) 66, 98, 111
AlwNI CAGNNNCTG 1 cut(s) 248
AoxI GGCC 1 cut(s) 446
ApeKI GCWGC 3 cut(s) 113, 485, 488
ApoI RAATTY 1 cut(s) 706
AspS9I GGNCC 1 cut(s) 446
AsuHPI GGTGA 1 cut(s) 405
BamHI GGATCC 1 cut(s) 103
Bbv12I GWGCWC 1 cut(s) 193
BbvI GCAGC 3 cut(s) 125, 472, 475
BccI CCATC 2 cut(s) 146, 306
BciT130I CCWGG 1 cut(s) 249
BfaI CTAG 1 cut(s) 507
BfuAI ACCTGC 1 cut(s) 274
BglI GCCNNNNNGGC 1 cut(s) 122
BglII AGATCT 1 cut(s) 30
BisI GCNGC 3 cut(s) 114, 486, 489
BlsI GCNGC 3 cut(s) 115, 487, 490
Bme1390I CCNGG 1 cut(s) 249
BmgT120I GGNCC 1 cut(s) 446
BmiI GGNNCC 1 cut(s) 105
BmrFI CCNGG 1 cut(s) 249
BmrI ACTGGG 3 cut(s) 300, 617, 678
BmsI GCATC 1 cut(s) 449
BmuI ACTGGG 3 cut(s) 300, 617, 678
BpmI CTGGAG 1 cut(s) 699
Bsc4I CCNNNNNNNGG 3 cut(s) 221, 248, 435
Bse1I ACTGG 5 cut(s) 70, 306, 623, 673, 682
BseBI CCWGG 1 cut(s) 249
BseGI GGATG 1 cut(s) 284
BseLI CCNNNNNNNGG 3 cut(s) 221, 248, 435
BseMII CTCAG 1 cut(s) 206
BseNI ACTGG 5 cut(s) 70, 306, 623, 673, 682
BseRI GAGGAG 2 cut(s) 19, 204
BseXI GCAGC 3 cut(s) 125, 472, 475
BseYI CCCAGC 2 cut(s) 434, 593
BsgI GTGCAG 1 cut(s) 575
BshFI GGCC 1 cut(s) 448
BsiHKAI GWGCWC 1 cut(s) 193
BslI CCNNNNNNNGG 3 cut(s) 221, 248, 435
BsnI GGCC 1 cut(s) 448
Bsp1286I GDGCHC 1 cut(s) 193
Bsp143I GATC 3 cut(s) 30, 71, 103
BspANI GGCC 1 cut(s) 448
BspCNI CTCAG 1 cut(s) 205
BspLI GGNNCC 1 cut(s) 105
BspMI ACCTGC 1 cut(s) 274
BspPI GGATC 3 cut(s) 66, 98, 111
BspQI GCTCTTC 2 cut(s) 154, 286
BsrI ACTGG 5 cut(s) 70, 306, 623, 673, 682
BssMI GATC 3 cut(s) 30, 71, 103
Bst2UI CCWGG 1 cut(s) 249
Bst6I CTCTTC 2 cut(s) 154, 286
BstC8I GCNNGC 2 cut(s) 450, 454
BstDEI CTNAG 1 cut(s) 192
BstF5I GGATG 1 cut(s) 284
BstKTI GATC 3 cut(s) 33, 74, 106
BstMBI GATC 3 cut(s) 30, 71, 103
BstMWI GCNNNNNNNGC 3 cut(s) 122, 266, 497
BstNI CCWGG 1 cut(s) 249
BstNSI RCATGY 1 cut(s) 460
BstSCI CCNGG 1 cut(s) 247
BstV1I GCAGC 3 cut(s) 125, 472, 475
BstX2I RGATCY 3 cut(s) 30, 71, 103
BstYI RGATCY 3 cut(s) 30, 71, 103
BsuRI GGCC 1 cut(s) 448
BtsCI GGATG 1 cut(s) 284
BtsIMutI CAGTG 3 cut(s) 63, 313, 666
BveI ACCTGC 1 cut(s) 274
Cac8I GCNNGC 2 cut(s) 450, 454
CaiI CAGNNNCTG 1 cut(s) 248
Cfr13I GGNCC 1 cut(s) 446
CsiI ACCWGGT 1 cut(s) 247
Csp6I GTAC 4 cut(s) 10, 343, 460, 559
CviAII CATG 5 cut(s) 118, 221, 275, 376, 457
CviQI GTAC 4 cut(s) 10, 343, 460, 559
DdeI CTNAG 1 cut(s) 192
DpnI GATC 3 cut(s) 32, 73, 105
DpnII GATC 3 cut(s) 30, 71, 103
Eam1104I CTCTTC 2 cut(s) 154, 286
EarI CTCTTC 2 cut(s) 154, 286
Eco57I CTGAAG 1 cut(s) 573
EcoRI GAATTC 1 cut(s) 706
EcoRII CCWGG 1 cut(s) 247
FaeI CATG 5 cut(s) 121, 224, 278, 379, 460
FatI CATG 5 cut(s) 117, 220, 274, 375, 456
Fnu4HI GCNGC 3 cut(s) 114, 486, 489
FokI GGATG 1 cut(s) 271
Fsp4HI GCNGC 3 cut(s) 114, 486, 489
FspBI CTAG 1 cut(s) 507
GluI GCNGC 3 cut(s) 114, 486, 489
GsaI CCCAGC 2 cut(s) 438, 597
GsuI CTGGAG 1 cut(s) 699
HaeIII GGCC 1 cut(s) 448
Hin1II CATG 5 cut(s) 121, 224, 278, 379, 460
HincII GTYRAC 1 cut(s) 404
HindII GTYRAC 1 cut(s) 404
HinfI GANTC 2 cut(s) 362, 598
HphI GGTGA 1 cut(s) 405
Hpy166II GTNNAC 2 cut(s) 206, 404
Hpy188I TCNGA 4 cut(s) 132, 195, 230, 700
Hpy188III TCNNGA 2 cut(s) 107, 348
Hpy8I GTNNAC 2 cut(s) 206, 404
HpyAV CCTTC 3 cut(s) 147, 225, 621
HpyCH4V TGCA 4 cut(s) 171, 500, 556, 689
HpyF10VI GCNNNNNNNGC 3 cut(s) 122, 266, 497
HpyF3I CTNAG 1 cut(s) 192
Hsp92II CATG 5 cut(s) 121, 224, 278, 379, 460
Kzo9I GATC 3 cut(s) 30, 71, 103
LguI GCTCTTC 2 cut(s) 154, 286
LmnI GCTCC 2 cut(s) 265, 680
Lsp1109I GCAGC 3 cut(s) 125, 472, 475
LweI GCATC 1 cut(s) 449
MabI ACCWGGT 1 cut(s) 247
MaeI CTAG 1 cut(s) 507
MaeIII GTNAC 4 cut(s) 91, 512, 655, 673
MalI GATC 3 cut(s) 32, 73, 105
MboI GATC 3 cut(s) 30, 71, 103
MboII GAAGA 7 cut(s) 81, 168, 171, 273, 579, 606, 702
MflI RGATCY 3 cut(s) 30, 71, 103
MhlI GDGCHC 1 cut(s) 193
MluCI AATT 4 cut(s) 407, 466, 694, 706
MnlI CCTC 5 cut(s) 31, 103, 114, 225, 582
MseI TTAA 2 cut(s) 99, 718
MspA1I CMGCKG 3 cut(s) 434, 452, 593
MspR9I CCNGG 1 cut(s) 249
MvaI CCWGG 1 cut(s) 249
MwoI GCNNNNNNNGC 3 cut(s) 122, 266, 497
NdeII GATC 3 cut(s) 30, 71, 103
NlaIII CATG 5 cut(s) 121, 224, 278, 379, 460
NlaIV GGNNCC 1 cut(s) 105
NmuCI GTSAC 1 cut(s) 91
NspI RCATGY 1 cut(s) 460
PaqCI CACCTGC 1 cut(s) 274
PciSI GCTCTTC 2 cut(s) 154, 286
PfeI GAWTC 2 cut(s) 362, 598
PflMI CCANNNNNTGG 1 cut(s) 248
PkrI GCNGC 3 cut(s) 115, 487, 490
Psp6I CCWGG 1 cut(s) 247
PspFI CCCAGC 2 cut(s) 434, 593
PspGI CCWGG 1 cut(s) 247
PspN4I GGNNCC 1 cut(s) 105
PspPI GGNCC 1 cut(s) 446
PstNI CAGNNNCTG 1 cut(s) 248
PsuI RGATCY 3 cut(s) 30, 71, 103
PvuII CAGCTG 3 cut(s) 434, 452, 593
RsaI GTAC 4 cut(s) 11, 344, 461, 560
RsaNI GTAC 4 cut(s) 10, 343, 460, 559
SapI GCTCTTC 2 cut(s) 154, 286
SaqAI TTAA 2 cut(s) 99, 718
SatI GCNGC 3 cut(s) 114, 486, 489
Sau3AI GATC 3 cut(s) 30, 71, 103
Sau96I GGNCC 1 cut(s) 446
ScrFI CCNGG 1 cut(s) 249
SduI GDGCHC 1 cut(s) 193
SexAI ACCWGGT 1 cut(s) 247
SfaNI GCATC 1 cut(s) 449
Sse9I AATT 4 cut(s) 407, 466, 694, 706
SspMI CTAG 1 cut(s) 507
StyD4I CCNGG 1 cut(s) 247
TaqI TCGA 1 cut(s) 713
TasI AATT 4 cut(s) 407, 466, 694, 706
TfiI GAWTC 2 cut(s) 362, 598
Tru1I TTAA 2 cut(s) 99, 718
Tru9I TTAA 2 cut(s) 99, 718
TscAI CASTG 3 cut(s) 70, 313, 673
TseFI GTSAC 1 cut(s) 91
TseI GCWGC 3 cut(s) 113, 485, 488
Tsp45I GTSAC 1 cut(s) 91
TspDTI ATGAA 2 cut(s) 273, 392
TspGWI ACGGA 1 cut(s) 99
TspRI CASTG 3 cut(s) 70, 313, 673
Van91I CCANNNNNTGG 1 cut(s) 248
XapI RAATTY 1 cut(s) 706
XceI RCATGY 1 cut(s) 460
XcmI CCANNNNNNNNNTGG 1 cut(s) 305
XspI CTAG 1 cut(s) 507
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.