Rroxscaffold_4G00280650

RNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0011461
Physical Location & Seq
Forward (+)
3143241 .. 3146461
3221 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00280650.1

Sequence Viewer

Length: 699 bp
ATGGGGGCAAGGTCTTCATGTGCAAGTAGAGTTCTAAGATTTTCGAAGCTTATCTTTAGGCTTGTAAGCTGGAACTTGAACTGCCATGGTAAGCACTATTTTGTATTTGAGCAAATGCTGTGTGCTAAAGTGACTGGCTTGAGTAAAGGGTTGGGGGAAACATGTGTCTTTGTGGCGCTGTCGGGTGCTGCCTTTGGGGATCATGTTTTTGTTGGCGAAAACACGGAAGCAAAACTCTACATTGGTAACCTTGATATGAGAATAACAGAGGCTGCTCTACTCAAGATGTTTTCTCCGTTTGGGAAGATCGTACACGAGGAGTTTTTGCTGCATACTCGTGGCCGCAAACGTGGAGAACCTCGAGGCTTTGCTTTCATCCAGTATAGTAGTGAAGAGGAAGCAAAATTGGCCAAGGAGAAGATGCACGGGAGACTAGCTTGCGGGCGCCCATTAGTCGTCCGTCTTTCCAGCGAAAAATACTCAATACAAGAAACAGAGAACCCTTCCAGACAAACCGGCAACGCCACCAAAACAGGCCTTTTGGCCAGCAGTTCAGGGCAGATGAGTCGGACCTCCAAAATAGCAGCAATCAAGAACAAACTGAAAGCTCTGGAGGGCGAGGGCTTTAGCGCCAAGAAGCAGAAGCAAGACAACGTCTCTTGCAGCAGTAGCCTTGATCATCCATCAGGCCAAAGATAA
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

232

Amino Acids

25.56

Weight (kDa)

9.69

Isoelectric Point (pI)

44.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 79 - 151 1.2e-14 RNA recognition motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0011461)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G52545 AT5G52545
fragaria_vesca FvH4_7g30160 FvH4_7g30160
malus_domestica MD01G1207500.v1.1 MD07G1278200.v1.1
prunus_persica Prupe.2G300100_v2.0.a1 Prupe.2G300100_v2.0.a1
pyrus_communis pycom01g21840 pycom07g25320
rosa_chinensis RchiOBHm_Chr1g0378211
rosa_laevigata RLG00000026461
rosa_multiflora Rmu_sc0017581.1_g000001
rosa_roxburghii Rroxscaffold_4G00280650
rosa_rugosa Rorug01G0407000
rosa_samantha Rh1AG422700 Rh1BG386400 Rh1CG400000 Rh1DG417600
rosa_wichuraiana Rw1G037470

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AbsI CCTCGAGG 1 cut(s) 360
AccB1I GGYRCC 1 cut(s) 444
AciI CCGC 2 cut(s) 343, 441
AclWI GGATC 1 cut(s) 207
AcoI YGGCCR 3 cut(s) 340, 408, 543
AcyI GRCGYC 1 cut(s) 445
AfaI GTAC 1 cut(s) 312
AflIII ACRYGT 1 cut(s) 161
AgsI TTSAA 1 cut(s) 79
AluBI AGCT 4 cut(s) 49, 69, 437, 608
AluI AGCT 4 cut(s) 49, 69, 437, 608
Alw26I GTCTC 2 cut(s) 424, 661
AlwI GGATC 1 cut(s) 207
AlwNI CAGNNNCTG 1 cut(s) 272
Ama87I CYCGRG 1 cut(s) 360
AoxI GGCC 5 cut(s) 340, 408, 535, 543, 688
ApeKI GCWGC 5 cut(s) 188, 272, 328, 584, 663
AspLEI GCGC 3 cut(s) 178, 447, 632
AspS9I GGNCC 1 cut(s) 570
AsuII TTCGAA 1 cut(s) 44
AvaI CYCGRG 1 cut(s) 360
AvaII GGWCC 1 cut(s) 570
BalI TGGCCA 2 cut(s) 410, 545
BanI GGYRCC 1 cut(s) 444
BauI CACGAG 2 cut(s) 314, 336
BbsI GAAGAC 1 cut(s) 6
BbvI GCAGC 5 cut(s) 175, 259, 315, 596, 675
BccI CCATC 1 cut(s) 691
BcgI CGANNNNNNTGC 2 cut(s) 548, 582
BclI TGATCA 1 cut(s) 676
BcoDI GTCTC 2 cut(s) 424, 661
BfaI CTAG 1 cut(s) 434
BfoI RGCGCY 3 cut(s) 179, 448, 633
BisI GCNGC 6 cut(s) 189, 273, 329, 343, 585, 664
BlsI GCNGC 6 cut(s) 190, 274, 330, 344, 586, 665
Bme18I GGWCC 1 cut(s) 570
BmeT110I CYCGRG 1 cut(s) 360
BmgT120I GGNCC 1 cut(s) 570
BmiI GGNNCC 1 cut(s) 446
BmsI GCATC 1 cut(s) 411
BpiI GAAGAC 1 cut(s) 6
BpmI CTGGAG 1 cut(s) 632
Bpu14I TTCGAA 1 cut(s) 44
BpuEI CTTGAG 2 cut(s) 160, 266
BsaHI GRCGYC 1 cut(s) 445
BsaJI CCNNGG 2 cut(s) 85, 411
Bse118I RCCGGY 1 cut(s) 515
Bse1I ACTGG 2 cut(s) 139, 379
BseDI CCNNGG 2 cut(s) 85, 411
BseGI GGATG 2 cut(s) 375, 679
BseNI ACTGG 2 cut(s) 139, 379
BseRI GAGGAG 1 cut(s) 332
BseXI GCAGC 5 cut(s) 175, 259, 315, 596, 675
BshFI GGCC 5 cut(s) 342, 410, 537, 545, 690
BshNI GGYRCC 1 cut(s) 444
BsiHKCI CYCGRG 1 cut(s) 360
BsiSI CCGG 1 cut(s) 516
BsmAI GTCTC 2 cut(s) 424, 661
BsmBI CGTCTC 1 cut(s) 661
BsnI GGCC 5 cut(s) 342, 410, 537, 545, 690
BsoBI CYCGRG 1 cut(s) 360
Bsp119I TTCGAA 1 cut(s) 44
Bsp143I GATC 3 cut(s) 199, 306, 676
Bsp19I CCATGG 1 cut(s) 85
BspACI CCGC 2 cut(s) 343, 441
BspANI GGCC 5 cut(s) 342, 410, 537, 545, 690
BspLI GGNNCC 1 cut(s) 446
BspPI GGATC 1 cut(s) 207
BspT104I TTCGAA 1 cut(s) 44
BspT107I GGYRCC 1 cut(s) 444
BsrFI RCCGGY 1 cut(s) 515
BsrI ACTGG 2 cut(s) 139, 379
BssAI RCCGGY 1 cut(s) 515
BssECI CCNNGG 2 cut(s) 85, 411
BssMI GATC 3 cut(s) 199, 306, 676
BssNI GRCGYC 1 cut(s) 445
BssSI CACGAG 2 cut(s) 314, 336
BssT1I CCWWGG 2 cut(s) 85, 411
Bst2BI CACGAG 2 cut(s) 314, 336
Bst6I CTCTTC 1 cut(s) 387
BstACI GRCGYC 1 cut(s) 445
BstBI TTCGAA 1 cut(s) 44
BstC8I GCNNGC 3 cut(s) 439, 443, 547
BstDEI CTNAG 1 cut(s) 35
BstDSI CCRYGG 1 cut(s) 85
BstEII GGTNACC 1 cut(s) 245
BstF5I GGATG 2 cut(s) 375, 679
BstH2I RGCGCY 3 cut(s) 179, 448, 633
BstHHI GCGC 3 cut(s) 178, 447, 632
BstKTI GATC 3 cut(s) 202, 309, 679
BstMAI GTCTC 2 cut(s) 424, 661
BstMBI GATC 3 cut(s) 199, 306, 676
BstMWI GCNNNNNNNGC 2 cut(s) 407, 669
BstNSI RCATGY 1 cut(s) 165
BstPI GGTNACC 1 cut(s) 245
BstV1I GCAGC 5 cut(s) 175, 259, 315, 596, 675
BstV2I GAAGAC 1 cut(s) 6
BsuRI GGCC 5 cut(s) 342, 410, 537, 545, 690
BtgI CCRYGG 1 cut(s) 85
BtsCI GGATG 2 cut(s) 375, 679
Cac8I GCNNGC 3 cut(s) 439, 443, 547
CaiI CAGNNNCTG 1 cut(s) 272
CfoI GCGC 3 cut(s) 178, 447, 632
Cfr10I RCCGGY 1 cut(s) 515
Cfr13I GGNCC 1 cut(s) 570
Csp6I GTAC 1 cut(s) 311
CviAII CATG 4 cut(s) 18, 86, 162, 203
CviQI GTAC 1 cut(s) 311
DdeI CTNAG 1 cut(s) 35
DinI GGCGCC 1 cut(s) 446
DpnI GATC 3 cut(s) 201, 308, 678
DpnII GATC 3 cut(s) 199, 306, 676
EaeI YGGCCR 3 cut(s) 340, 408, 543
Eam1104I CTCTTC 1 cut(s) 387
EarI CTCTTC 1 cut(s) 387
Eco130I CCWWGG 2 cut(s) 85, 411
Eco147I AGGCCT 1 cut(s) 537
Eco47I GGWCC 1 cut(s) 570
Eco88I CYCGRG 1 cut(s) 360
Eco91I GGTNACC 1 cut(s) 245
EcoO65I GGTNACC 1 cut(s) 245
EcoT14I CCWWGG 2 cut(s) 85, 411
EgeI GGCGCC 1 cut(s) 446
EheI GGCGCC 1 cut(s) 446
ErhI CCWWGG 2 cut(s) 85, 411
Esp3I CGTCTC 1 cut(s) 661
FaeI CATG 4 cut(s) 21, 89, 165, 206
FaiI YATR 7 cut(s) 19, 87, 163, 204, 257, 333, 384
FalI AAGNNNNNCTT 2 cut(s) 38, 70
FatI CATG 4 cut(s) 17, 85, 161, 202
FauI CCCGC 1 cut(s) 434
FbaI TGATCA 1 cut(s) 676
Fnu4HI GCNGC 6 cut(s) 189, 273, 329, 343, 585, 664
FokI GGATG 2 cut(s) 362, 666
Fsp4HI GCNGC 6 cut(s) 189, 273, 329, 343, 585, 664
FspBI CTAG 1 cut(s) 434
GlaI GCGC 3 cut(s) 177, 446, 631
GluI GCNGC 6 cut(s) 189, 273, 329, 343, 585, 664
GsuI CTGGAG 1 cut(s) 632
HaeII RGCGCY 3 cut(s) 179, 448, 633
HaeIII GGCC 5 cut(s) 342, 410, 537, 545, 690
HapII CCGG 1 cut(s) 516
HhaI GCGC 3 cut(s) 178, 447, 632
Hin1I GRCGYC 1 cut(s) 445
Hin1II CATG 4 cut(s) 21, 89, 165, 206
Hin6I GCGC 3 cut(s) 176, 445, 630
HinP1I GCGC 3 cut(s) 176, 445, 630
HindIII AAGCTT 1 cut(s) 47
HinfI GANTC 1 cut(s) 565
HpaII CCGG 1 cut(s) 516
Hpy166II GTNNAC 1 cut(s) 313
Hpy188I TCNGA 1 cut(s) 570
Hpy188III TCNNGA 4 cut(s) 283, 507, 592, 611
Hpy8I GTNNAC 1 cut(s) 313
HpyAV CCTTC 1 cut(s) 513
HpyCH4IV ACGT 2 cut(s) 349, 654
HpyCH4V TGCA 4 cut(s) 23, 331, 424, 663
HpyF10VI GCNNNNNNNGC 2 cut(s) 407, 669
HpyF3I CTNAG 1 cut(s) 35
HpySE526I ACGT 2 cut(s) 349, 654
Hsp92I GRCGYC 1 cut(s) 445
Hsp92II CATG 4 cut(s) 21, 89, 165, 206
HspAI GCGC 3 cut(s) 176, 445, 630
KasI GGCGCC 1 cut(s) 444
Ksp22I TGATCA 1 cut(s) 676
Kzo9I GATC 3 cut(s) 199, 306, 676
Lsp1109I GCAGC 5 cut(s) 175, 259, 315, 596, 675
LweI GCATC 1 cut(s) 411
MaeI CTAG 1 cut(s) 434
MaeII ACGT 2 cut(s) 349, 654
MaeIII GTNAC 2 cut(s) 130, 245
MalI GATC 3 cut(s) 201, 308, 678
MboI GATC 3 cut(s) 199, 306, 676
MboII GAAGA 4 cut(s) 6, 316, 404, 430
MlsI TGGCCA 2 cut(s) 410, 545
MluCI AATT 1 cut(s) 404
MluNI TGGCCA 2 cut(s) 410, 545
Mly113I GGCGCC 1 cut(s) 445
MlyI GAGTC 1 cut(s) 574
MmeI TCCRAC 1 cut(s) 548
MnlI CCTC 8 cut(s) 262, 310, 356, 369, 388, 583, 607, 613
Mox20I TGGCCA 2 cut(s) 410, 545
MscI TGGCCA 2 cut(s) 410, 545
MslI CAYNNNNRTG 1 cut(s) 336
Msp20I TGGCCA 2 cut(s) 410, 545
MspI CCGG 1 cut(s) 516
MwoI GCNNNNNNNGC 2 cut(s) 407, 669
NarI GGCGCC 1 cut(s) 445
NcoI CCATGG 1 cut(s) 85
NdeII GATC 3 cut(s) 199, 306, 676
NlaIII CATG 4 cut(s) 21, 89, 165, 206
NlaIV GGNNCC 1 cut(s) 446
NmuCI GTSAC 1 cut(s) 130
NspI RCATGY 1 cut(s) 165
NspV TTCGAA 1 cut(s) 44
PaeR7I CTCGAG 1 cut(s) 360
PceI AGGCCT 1 cut(s) 537
PciI ACATGT 1 cut(s) 161
PflFI GACNNNGTC 1 cut(s) 653
PkrI GCNGC 6 cut(s) 190, 274, 330, 344, 586, 665
PleI GAGTC 1 cut(s) 573
PluTI GGCGCC 1 cut(s) 448
PpsI GAGTC 1 cut(s) 573
PscI ACATGT 1 cut(s) 161
PspEI GGTNACC 1 cut(s) 245
PspN4I GGNNCC 1 cut(s) 446
PspPI GGNCC 1 cut(s) 570
PspXI VCTCGAGB 1 cut(s) 360
PstNI CAGNNNCTG 1 cut(s) 272
PsyI GACNNNGTC 1 cut(s) 653
RsaI GTAC 1 cut(s) 312
RsaNI GTAC 1 cut(s) 311
RseI CAYNNNNRTG 1 cut(s) 336
SatI GCNGC 6 cut(s) 189, 273, 329, 343, 585, 664
Sau3AI GATC 3 cut(s) 199, 306, 676
Sau96I GGNCC 1 cut(s) 570
SchI GAGTC 1 cut(s) 574
SfaNI GCATC 1 cut(s) 411
SfoI GGCGCC 1 cut(s) 446
Sfr274I CTCGAG 1 cut(s) 360
SfuI TTCGAA 1 cut(s) 44
SinI GGWCC 1 cut(s) 570
SlaI CTCGAG 1 cut(s) 360
SmiMI CAYNNNNRTG 1 cut(s) 336
SmlI CTYRAG 3 cut(s) 139, 281, 360
SmoI CTYRAG 3 cut(s) 139, 281, 360
Sse9I AATT 1 cut(s) 404
SseBI AGGCCT 1 cut(s) 537
SsiI CCGC 2 cut(s) 343, 441
SspDI GGCGCC 1 cut(s) 444
SspMI CTAG 1 cut(s) 434
StuI AGGCCT 1 cut(s) 537
StyI CCWWGG 2 cut(s) 85, 411
TaiI ACGT 2 cut(s) 352, 657
TaqI TCGA 2 cut(s) 44, 361
TasI AATT 1 cut(s) 404
TauI GCSGC 1 cut(s) 345
TseFI GTSAC 1 cut(s) 130
TseI GCWGC 5 cut(s) 188, 272, 328, 584, 663
Tsp45I GTSAC 1 cut(s) 130
TspDTI ATGAA 2 cut(s) 6, 364
TspGWI ACGGA 3 cut(s) 239, 285, 449
Tth111I GACNNNGTC 1 cut(s) 653
VpaK11BI GGWCC 1 cut(s) 570
XceI RCATGY 1 cut(s) 165
XhoI CTCGAG 1 cut(s) 360
XspI CTAG 1 cut(s) 434
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.