Rroxscaffold_1G00032040

Double-stranded RNA binding motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0016795
Physical Location & Seq
Forward (+)
45522543 .. 45524404
1862 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00032040.1

Sequence Viewer

Length: 1086 bp
ATGATGTACAAGAGTAAGCTGCAGGAGCTGTGCCATGAAAAGAAATGGGGTTTGCCAAGATACAGTGCCATGAAAGATGGACCGGATCACAATCCTTCCTTCAAGGCTTGTGTCTCGGTAAATGGCTACTCCTTTGATTCGCCAGTTGCTTGTAAATCTTCCAAACAAGCCCAAAACCAAGCCGCCATGGTCGCTTTTCTTCACTTCACCTCTCCCACTTCTTCTTCTTCTTCACCGGTTCTTGAAGTTGAGTCTAAGGCTAGTAATGTTACAGTGGATGAGCATAGCACCTCGGAGAGCCCAGAGTTCAACACTAGTACTTTAAAGAAGGCAGAGAATGCTGCTTCTATGTCTATTCCATTCTCAGACGGGTTTCAGGATGACGAACCTGGTCGTCTTTACAAGAATCTCTTACAGGAGTTGGCTCAGAGAGAAGGTTTTTCCATGCCAGCATATACAACTGTGAACTCGGGTGCATCTCACATGCCAACATTCTCTTCCACTGTGGATGTAGAAGGAGAGAAATTCTCCGGACATGTGGGGAAATCCAAAAAACAGGCAGAGTTGAGTGCTGCGAAGTTTGCTTACACCACCTTAAAAGAGCGTAAGTTAGTTATGGTTTCCATTTACTGTGAGCACTGGCAAGAAGTAGATCTGACCCATTTTATCTTCTGGCCCTTTTACATATTTCATGCAGAGATCGATGACGTTAAAGGATCAGACAATGTATCAGACAACGTCAATCTCAACGCTGTGTACTGTAATGCACCTGATGCAATGGTACTGGAAGTCGATAATATGAATAAAACCGGAAAGCCTTCCTCATGCTTGGAACCAGTGCTCCCTTCAACTAAAGAATACCCTTCCTCTCCAGCATTTATGCATACGGATCTTTCGACTATCTCAATTGCGGATAAAAATGAAGGGAAATTAACGGGATTGAAAAGTTACTTGCTGTGCAACAGGTTTAGAGTCTACACACATTTTCCAGATACTGCATTCCCCAAGTGCATAACTGTGCTGCCCATCAGTGATGACAAATGGGTGGCTGTCAGGTTGGAGTTCCCAAATGAAGAAAGCAATTAG
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
dsrm

Protein Analysis

361

Amino Acids

40.14

Weight (kDa)

5.59

Isoelectric Point (pI)

41.71

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
dsrm PF00035 3 - 66 1.2e-12 Double-stranded RNA binding motif
dsrm PF00035 134 - 196 6e-14 Double-stranded RNA binding 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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Orthologous Genes (Group: OG0016795)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g27052
malus_domestica MD11G1178800.v1.1
prunus_persica Prupe.6G151600_v2.0.a1 Prupe.6G151600_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0049631
rosa_laevigata RLG00000034628
rosa_multiflora Rmu_sc0013777.1_g000008
rosa_roxburghii Rroxscaffold_1G00032040
rosa_rugosa Rorug05G0249300
rosa_samantha Rh5AG325800 Rh5BG337100 Rh5CG361800 Rh5DG349300
rosa_wichuraiana Rw5G030790

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 975
AccIII TCCGGA 1 cut(s) 530
AciI CCGC 2 cut(s) 183, 911
AclWI GGATC 3 cut(s) 93, 724, 897
AcsI RAATTY 1 cut(s) 524
AfaI GTAC 4 cut(s) 8, 319, 758, 783
AflIII ACRYGT 1 cut(s) 535
AgeI ACCGGT 1 cut(s) 235
AgsI TTSAA 5 cut(s) 103, 245, 310, 849, 943
AhlI ACTAGT 1 cut(s) 314
AjnI CCWGG 1 cut(s) 388
AjuI GAANNNNNNNTTGG 2 cut(s) 481, 513
AloI GAACNNNNNNTCC 2 cut(s) 825, 857
AluBI AGCT 2 cut(s) 19, 28
AluI AGCT 2 cut(s) 19, 28
Alw21I GWGCWC 2 cut(s) 639, 843
Alw26I GTCTC 1 cut(s) 118
AlwI GGATC 3 cut(s) 93, 724, 897
AlwNI CAGNNNCTG 2 cut(s) 28, 995
Ama87I CYCGRG 1 cut(s) 469
Aor13HI TCCGGA 1 cut(s) 530
AoxI GGCC 1 cut(s) 674
ApeKI GCWGC 4 cut(s) 19, 341, 572, 1021
ApoI RAATTY 1 cut(s) 524
AsiGI ACCGGT 1 cut(s) 235
Asp700I GAANNNNTTC 1 cut(s) 817
AspS9I GGNCC 2 cut(s) 80, 675
AsuHPI GGTGA 2 cut(s) 199, 225
AvaI CYCGRG 1 cut(s) 469
AvaII GGWCC 1 cut(s) 80
BanII GRGCYC 1 cut(s) 302
BarI GAAGNNNNNNTAC 2 cut(s) 569, 601
Bbv12I GWGCWC 2 cut(s) 639, 843
BbvI GCAGC 4 cut(s) 6, 328, 559, 1008
BccI CCATC 2 cut(s) 71, 1034
BciT130I CCWGG 1 cut(s) 390
BcoDI GTCTC 1 cut(s) 118
BcuI ACTAGT 1 cut(s) 314
BfaI CTAG 2 cut(s) 261, 315
BfmI CTRYAG 1 cut(s) 20
BglII AGATCT 1 cut(s) 652
BisI GCNGC 5 cut(s) 20, 183, 342, 573, 1022
BlsI GCNGC 5 cut(s) 21, 184, 343, 574, 1023
BmcAI AGTACT 1 cut(s) 319
Bme1390I CCNGG 1 cut(s) 390
Bme18I GGWCC 1 cut(s) 80
BmeT110I CYCGRG 1 cut(s) 469
BmgT120I GGNCC 2 cut(s) 80, 675
BmiI GGNNCC 1 cut(s) 834
BmrFI CCNGG 1 cut(s) 390
BmsI GCATC 2 cut(s) 485, 763
BplI GAGNNNNNCTC 2 cut(s) 512, 544
BpmI CTGGAG 1 cut(s) 855
Bsa29I ATCGAT 1 cut(s) 702
BsaBI GATNNNNATC 1 cut(s) 90
BsaJI CCNNGG 2 cut(s) 186, 291
BsaWI WCCGGW 4 cut(s) 82, 235, 530, 809
BsaXI ACNNNNNCTCC 2 cut(s) 825, 855
Bse118I RCCGGY 1 cut(s) 235
Bse1I ACTGG 4 cut(s) 143, 644, 789, 836
Bse3DI GCAATG 1 cut(s) 783
Bse8I GATNNNNATC 1 cut(s) 90
BseAI TCCGGA 1 cut(s) 530
BseBI CCWGG 1 cut(s) 390
BseCI ATCGAT 1 cut(s) 702
BseDI CCNNGG 2 cut(s) 186, 291
BseGI GGATG 3 cut(s) 283, 385, 514
BseJI GATNNNNATC 1 cut(s) 90
BseMI GCAATG 1 cut(s) 783
BseMII CTCAG 2 cut(s) 378, 440
BseNI ACTGG 4 cut(s) 143, 644, 789, 836
BseXI GCAGC 4 cut(s) 6, 328, 559, 1008
BshFI GGCC 1 cut(s) 676
BshTI ACCGGT 1 cut(s) 235
BshVI ATCGAT 1 cut(s) 702
BsiHKAI GWGCWC 2 cut(s) 639, 843
BsiHKCI CYCGRG 1 cut(s) 469
BsiSI CCGG 4 cut(s) 83, 236, 531, 810
BsmAI GTCTC 1 cut(s) 118
BsmI GAATGC 2 cut(s) 343, 998
BsnI GGCC 1 cut(s) 676
BsoBI CYCGRG 1 cut(s) 469
Bsp1286I GDGCHC 3 cut(s) 302, 639, 843
Bsp13I TCCGGA 1 cut(s) 530
Bsp1407I TGTACA 1 cut(s) 6
Bsp143I GATC 5 cut(s) 85, 652, 699, 716, 889
Bsp19I CCATGG 1 cut(s) 186
BspACI CCGC 2 cut(s) 183, 911
BspANI GGCC 1 cut(s) 676
BspCNI CTCAG 2 cut(s) 377, 439
BspDI ATCGAT 1 cut(s) 702
BspEI TCCGGA 1 cut(s) 530
BspLI GGNNCC 1 cut(s) 834
BspMAI CTGCAG 1 cut(s) 24
BspPI GGATC 3 cut(s) 93, 724, 897
BsrDI GCAATG 1 cut(s) 783
BsrFI RCCGGY 1 cut(s) 235
BsrGI TGTACA 1 cut(s) 6
BsrI ACTGG 4 cut(s) 143, 644, 789, 836
BssAI RCCGGY 1 cut(s) 235
BssECI CCNNGG 2 cut(s) 186, 291
BssMI GATC 5 cut(s) 85, 652, 699, 716, 889
BssT1I CCWWGG 1 cut(s) 186
Bst2UI CCWGG 1 cut(s) 390
Bst4CI ACNGT 7 cut(s) 65, 274, 463, 505, 632, 761, 1018
Bst6I CTCTTC 1 cut(s) 502
BstAPI GCANNNNNTGC 2 cut(s) 338, 773
BstAUI TGTACA 1 cut(s) 6
BstC8I GCNNGC 1 cut(s) 450
BstDEI CTNAG 3 cut(s) 255, 364, 426
BstDSI CCRYGG 1 cut(s) 186
BstF5I GGATG 3 cut(s) 283, 385, 514
BstKTI GATC 5 cut(s) 88, 655, 702, 719, 892
BstMAI GTCTC 1 cut(s) 118
BstMBI GATC 5 cut(s) 85, 652, 699, 716, 889
BstMWI GCNNNNNNNGC 5 cut(s) 25, 191, 338, 581, 773
BstNI CCWGG 1 cut(s) 390
BstNSI RCATGY 2 cut(s) 487, 539
BstSCI CCNGG 1 cut(s) 388
BstSFI CTRYAG 1 cut(s) 20
BstV1I GCAGC 4 cut(s) 6, 328, 559, 1008
BstX2I RGATCY 2 cut(s) 652, 889
BstYI RGATCY 2 cut(s) 652, 889
Bsu15I ATCGAT 1 cut(s) 702
BsuRI GGCC 1 cut(s) 676
BsuTUI ATCGAT 1 cut(s) 702
BtgI CCRYGG 1 cut(s) 186
BtsCI GGATG 3 cut(s) 283, 385, 514
BtsIMutI CAGTG 6 cut(s) 70, 279, 501, 637, 843, 1036
Cac8I GCNNGC 1 cut(s) 450
CaiI CAGNNNCTG 2 cut(s) 28, 995
Cfr10I RCCGGY 1 cut(s) 235
Cfr13I GGNCC 2 cut(s) 80, 675
ClaI ATCGAT 1 cut(s) 702
CsiI ACCWGGT 1 cut(s) 388
Csp6I GTAC 4 cut(s) 7, 318, 757, 782
CspAI ACCGGT 1 cut(s) 235
CviAII CATG 8 cut(s) 35, 70, 187, 445, 484, 536, 692, 825
CviQI GTAC 4 cut(s) 7, 318, 757, 782
DdeI CTNAG 3 cut(s) 255, 364, 426
DpnI GATC 5 cut(s) 87, 654, 701, 718, 891
DpnII GATC 5 cut(s) 85, 652, 699, 716, 889
DraI TTTAAA 1 cut(s) 324
Eam1104I CTCTTC 1 cut(s) 502
EarI CTCTTC 1 cut(s) 502
Eco130I CCWWGG 1 cut(s) 186
Eco24I GRGCYC 1 cut(s) 302
Eco47I GGWCC 1 cut(s) 80
Eco88I CYCGRG 1 cut(s) 469
EcoRII CCWGG 1 cut(s) 388
EcoT14I CCWWGG 1 cut(s) 186
EcoT22I ATGCAT 1 cut(s) 885
EcoT38I GRGCYC 1 cut(s) 302
ErhI CCWWGG 1 cut(s) 186
FaeI CATG 8 cut(s) 38, 73, 190, 448, 487, 539, 695, 828
FalI AAGNNNNNCTT 2 cut(s) 395, 427
FatI CATG 8 cut(s) 34, 69, 186, 444, 483, 535, 691, 824
FblI GTMKAC 1 cut(s) 975
Fnu4HI GCNGC 5 cut(s) 20, 183, 342, 573, 1022
FokI GGATG 3 cut(s) 290, 392, 521
FriOI GRGCYC 1 cut(s) 302
Fsp4HI GCNGC 5 cut(s) 20, 183, 342, 573, 1022
FspBI CTAG 2 cut(s) 261, 315
GluI GCNGC 5 cut(s) 20, 183, 342, 573, 1022
GsuI CTGGAG 1 cut(s) 855
HaeIII GGCC 1 cut(s) 676
HapII CCGG 4 cut(s) 83, 236, 531, 810
Hin1II CATG 8 cut(s) 38, 73, 190, 448, 487, 539, 695, 828
HinfI GANTC 4 cut(s) 137, 251, 406, 972
HpaII CCGG 4 cut(s) 83, 236, 531, 810
HphI GGTGA 2 cut(s) 199, 225
Hpy166II GTNNAC 3 cut(s) 466, 757, 976
Hpy188I TCNGA 6 cut(s) 295, 367, 429, 657, 721, 733
Hpy188III TCNNGA 4 cut(s) 242, 377, 531, 989
Hpy8I GTNNAC 3 cut(s) 466, 757, 976
HpyAV CCTTC 9 cut(s) 105, 109, 322, 428, 509, 828, 855, 873, 917
HpyCH4III ACNGT 7 cut(s) 65, 274, 463, 505, 632, 761, 1018
HpyCH4IV ACGT 2 cut(s) 708, 738
HpyCH4V TGCA 9 cut(s) 22, 476, 695, 767, 776, 883, 960, 998, 1011
HpyF10VI GCNNNNNNNGC 5 cut(s) 25, 191, 338, 581, 773
HpyF3I CTNAG 3 cut(s) 255, 364, 426
HpySE526I ACGT 2 cut(s) 708, 738
Hsp92II CATG 8 cut(s) 38, 73, 190, 448, 487, 539, 695, 828
Kpn2I TCCGGA 1 cut(s) 530
Kzo9I GATC 5 cut(s) 85, 652, 699, 716, 889
LmnI GCTCC 2 cut(s) 25, 846
Lsp1109I GCAGC 4 cut(s) 6, 328, 559, 1008
LweI GCATC 2 cut(s) 485, 763
MabI ACCWGGT 1 cut(s) 388
MaeI CTAG 2 cut(s) 261, 315
MaeII ACGT 2 cut(s) 708, 738
MaeIII GTNAC 2 cut(s) 268, 947
MalI GATC 5 cut(s) 87, 654, 701, 718, 891
MboI GATC 5 cut(s) 85, 652, 699, 716, 889
MboII GAAGA 9 cut(s) 150, 191, 213, 216, 219, 222, 489, 661, 1085
MfeI CAATTG 1 cut(s) 906
MflI RGATCY 2 cut(s) 652, 889
MhlI GDGCHC 3 cut(s) 302, 639, 843
MluCI AATT 4 cut(s) 524, 906, 929, 1081
MlyI GAGTC 2 cut(s) 260, 981
MmeI TCCRAC 1 cut(s) 1038
MnlI CCTC 4 cut(s) 220, 301, 832, 877
Mph1103I ATGCAT 1 cut(s) 885
MroI TCCGGA 1 cut(s) 530
MroXI GAANNNNTTC 1 cut(s) 817
MseI TTAA 4 cut(s) 323, 596, 711, 932
MslI CAYNNNNRTG 1 cut(s) 1016
MspI CCGG 4 cut(s) 83, 236, 531, 810
MspR9I CCNGG 1 cut(s) 390
MunI CAATTG 1 cut(s) 906
Mva1269I GAATGC 2 cut(s) 343, 998
MvaI CCWGG 1 cut(s) 390
MwoI GCNNNNNNNGC 5 cut(s) 25, 191, 338, 581, 773
NcoI CCATGG 1 cut(s) 186
NdeII GATC 5 cut(s) 85, 652, 699, 716, 889
NlaIII CATG 8 cut(s) 38, 73, 190, 448, 487, 539, 695, 828
NlaIV GGNNCC 1 cut(s) 834
NsiI ATGCAT 1 cut(s) 885
NspI RCATGY 2 cut(s) 487, 539
PciI ACATGT 1 cut(s) 535
PcsI WCGNNNNNNNCGW 1 cut(s) 893
PctI GAATGC 2 cut(s) 343, 998
PdmI GAANNNNTTC 1 cut(s) 817
PfeI GAWTC 2 cut(s) 137, 406
PflFI GACNNNGTC 1 cut(s) 737
PinAI ACCGGT 1 cut(s) 235
PkrI GCNGC 5 cut(s) 21, 184, 343, 574, 1023
PleI GAGTC 2 cut(s) 259, 980
PpsI GAGTC 2 cut(s) 259, 980
PscI ACATGT 1 cut(s) 535
Psp6I CCWGG 1 cut(s) 388
PspGI CCWGG 1 cut(s) 388
PspN4I GGNNCC 1 cut(s) 834
PspPI GGNCC 2 cut(s) 80, 675
PstI CTGCAG 1 cut(s) 24
PstNI CAGNNNCTG 2 cut(s) 28, 995
PsuI RGATCY 2 cut(s) 652, 889
PsyI GACNNNGTC 1 cut(s) 737
RsaI GTAC 4 cut(s) 8, 319, 758, 783
RsaNI GTAC 4 cut(s) 7, 318, 757, 782
RseI CAYNNNNRTG 1 cut(s) 1016
SaqAI TTAA 4 cut(s) 323, 596, 711, 932
SatI GCNGC 5 cut(s) 20, 183, 342, 573, 1022
Sau3AI GATC 5 cut(s) 85, 652, 699, 716, 889
Sau96I GGNCC 2 cut(s) 80, 675
ScaI AGTACT 1 cut(s) 319
SchI GAGTC 2 cut(s) 260, 981
ScrFI CCNGG 1 cut(s) 390
SduI GDGCHC 3 cut(s) 302, 639, 843
SexAI ACCWGGT 1 cut(s) 388
SfaNI GCATC 2 cut(s) 485, 763
SfcI CTRYAG 1 cut(s) 20
SinI GGWCC 1 cut(s) 80
SmiMI CAYNNNNRTG 1 cut(s) 1016
SpeI ACTAGT 1 cut(s) 314
Sse9I AATT 4 cut(s) 524, 906, 929, 1081
SsiI CCGC 2 cut(s) 183, 911
SspMI CTAG 2 cut(s) 261, 315
StyD4I CCNGG 1 cut(s) 388
StyI CCWWGG 1 cut(s) 186
TaaI ACNGT 7 cut(s) 65, 274, 463, 505, 632, 761, 1018
TaiI ACGT 2 cut(s) 711, 741
TaqI TCGA 3 cut(s) 702, 792, 896
TasI AATT 4 cut(s) 524, 906, 929, 1081
TatI WGTACW 3 cut(s) 6, 317, 756
TauI GCSGC 1 cut(s) 185
TfiI GAWTC 2 cut(s) 137, 406
Tru1I TTAA 4 cut(s) 323, 596, 711, 932
Tru9I TTAA 4 cut(s) 323, 596, 711, 932
TscAI CASTG 6 cut(s) 70, 279, 508, 644, 843, 1036
TseI GCWGC 4 cut(s) 19, 341, 572, 1021
TspDTI ATGAA 6 cut(s) 51, 86, 680, 815, 936, 1086
TspGWI ACGGA 1 cut(s) 902
TspRI CASTG 6 cut(s) 70, 279, 508, 644, 843, 1036
Tth111I GACNNNGTC 1 cut(s) 737
VpaK11BI GGWCC 1 cut(s) 80
XapI RAATTY 1 cut(s) 524
XceI RCATGY 2 cut(s) 487, 539
XmiI GTMKAC 1 cut(s) 975
XmnI GAANNNNTTC 1 cut(s) 817
XspI CTAG 2 cut(s) 261, 315
ZrmI AGTACT 1 cut(s) 319
Zsp2I ATGCAT 1 cut(s) 885
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.