Rh5AG325800

Double-stranded RNA binding motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0016795
Physical Location & Seq
Reverse (-)
49034941 .. 49036799
1859 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG325800.1

Sequence Viewer

Length: 1068 bp
ATGATGTACAAGAGTAAGCTGCAGGAGCTGTGCCATGAAAAGAAATGGGGTTTGCCAAGATACACTGCCATGAAAGATGGACCGGATCACAATCCTTGCTTCAAGGCTTGTGTCTCAGTAAATGGCTACTCCTTTGACTCGCCGGTTACTTGTAAATCTTTCAAACAATCCCAGAACCAAGCTGCCATGGTCGCTTTTCTTCACTTCACCTCTCCACCTTCTTTTTCTTCACCGGTGGATGAGCATAGCACCTCGGAGAGCCCAGAGTTCAACACTACTAGTACTTTAAAGAAGGCAGAGAATGCTGCTTCTATGTCTATTTCATTCTCAGACGGGTTTCAGGATGACGAACCTGGTCGTCTTTACAAGAATCTCTTACAGGAGTTGGCTCAGAGAGAAGGTTTTTCCATGCCAGCATATACAACTGTGAACTCGGGTGCATTTCACATGCCAACATTCTATTCCACTGTGGATGTGGAAGGAGAGAAATTCTCCGGACATGTGGGGAGATCCAAAAAACAGGCAGAGTTGAGTGCTGCGAAGGTTGCTTACACCACCTTAAAAGAGCGTGCTCTCAAAACCACTCAAAGCACTAACTGGAGAATGAATGTTGTTCCTGAACAAGATTTGGTTTCCTCTCCAACTACCAAGAATAAGGAATGTGCTTTAGAAACTAAAGAGATCGATGAAGTTAAAGGGTCAGACAATGTATTGGACAACATCAATCTCAAAGCTGTGTACTGTAATGCACCTGATGCAATGGTACTGGAAATCGATAATATGAATAAAACTGGAAAGCCTTCCTCATGCTCGGAACCAGTGCTCTCTTCAACTAAAGAATACCCTTCCTCTCCAGCATTTATGCATACTGATCTTTCGGCTATCTCAATTGCGGATAAAAATGAAGGGAAATTAACGGGATTGAAAAGTTACTTGCTGTGCAACAGGTTTAGAGTCTACACACATTTTCCAGATATTGCATTCCCCAAGTGCATAACTGTGCTGCCCATCAGTGATGACAAATGGGTGGCTGTCAGGATGGAGTTCCCAAATGAAGAAAGCAATTAG
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

355

Amino Acids

39.49

Weight (kDa)

5.96

Isoelectric Point (pI)

47.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
dsrm PF00035 3 - 66 1.1e-10 Double-stranded RNA binding motif
dsrm PF00035 122 - 185 1.2e-13 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) 957
AccIII TCCGGA 1 cut(s) 494
AciI CCGC 1 cut(s) 893
AclWI GGATC 2 cut(s) 93, 504
AcsI RAATTY 1 cut(s) 488
AfaI GTAC 4 cut(s) 8, 283, 740, 765
AflIII ACRYGT 1 cut(s) 499
AgeI ACCGGT 1 cut(s) 232
AgsI TTSAA 5 cut(s) 103, 163, 271, 831, 925
AhlI ACTAGT 1 cut(s) 278
AjnI CCWGG 1 cut(s) 352
AjuI GAANNNNNNNTTGG 2 cut(s) 445, 477
AluBI AGCT 4 cut(s) 19, 28, 182, 734
AluI AGCT 4 cut(s) 19, 28, 182, 734
Alw21I GWGCWC 2 cut(s) 574, 825
Alw26I GTCTC 1 cut(s) 118
AlwI GGATC 2 cut(s) 93, 504
AlwNI CAGNNNCTG 1 cut(s) 28
Ama87I CYCGRG 1 cut(s) 433
Aor13HI TCCGGA 1 cut(s) 494
ApeKI GCWGC 5 cut(s) 19, 182, 305, 536, 1003
ApoI RAATTY 1 cut(s) 488
AsiGI ACCGGT 1 cut(s) 232
Asp700I GAANNNNTTC 1 cut(s) 799
AspS9I GGNCC 1 cut(s) 80
AsuHPI GGTGA 2 cut(s) 199, 222
AvaI CYCGRG 1 cut(s) 433
AvaII GGWCC 1 cut(s) 80
BanII GRGCYC 1 cut(s) 263
BarI GAAGNNNNNNTAC 2 cut(s) 533, 565
Bbv12I GWGCWC 2 cut(s) 574, 825
BbvI GCAGC 5 cut(s) 6, 169, 292, 523, 990
BccI CCATC 3 cut(s) 71, 1016, 1033
BciT130I CCWGG 1 cut(s) 354
BcoDI GTCTC 1 cut(s) 118
BcuI ACTAGT 1 cut(s) 278
BfaI CTAG 1 cut(s) 279
BfmI CTRYAG 1 cut(s) 20
BisI GCNGC 5 cut(s) 20, 183, 306, 537, 1004
BlsI GCNGC 5 cut(s) 21, 184, 307, 538, 1005
BmcAI AGTACT 1 cut(s) 283
Bme1390I CCNGG 1 cut(s) 354
Bme18I GGWCC 1 cut(s) 80
BmeT110I CYCGRG 1 cut(s) 433
BmgT120I GGNCC 1 cut(s) 80
BmiI GGNNCC 1 cut(s) 816
BmrFI CCNGG 1 cut(s) 354
BmsI GCATC 1 cut(s) 745
BplI GAGNNNNNCTC 2 cut(s) 476, 508
BpmI CTGGAG 2 cut(s) 619, 837
Bsa29I ATCGAT 2 cut(s) 684, 774
BsaBI GATNNNNATC 1 cut(s) 90
BsaJI CCNNGG 2 cut(s) 186, 252
BsaWI WCCGGW 3 cut(s) 82, 232, 494
Bse118I RCCGGY 2 cut(s) 142, 232
Bse1I ACTGG 4 cut(s) 602, 771, 796, 818
Bse3DI GCAATG 1 cut(s) 765
Bse8I GATNNNNATC 1 cut(s) 90
BseAI TCCGGA 1 cut(s) 494
BseBI CCWGG 1 cut(s) 354
BseCI ATCGAT 2 cut(s) 684, 774
BseDI CCNNGG 2 cut(s) 186, 252
BseGI GGATG 4 cut(s) 244, 349, 478, 1044
BseJI GATNNNNATC 1 cut(s) 90
BseMI GCAATG 1 cut(s) 765
BseMII CTCAG 3 cut(s) 129, 342, 404
BseNI ACTGG 4 cut(s) 602, 771, 796, 818
BseXI GCAGC 5 cut(s) 6, 169, 292, 523, 990
BshTI ACCGGT 1 cut(s) 232
BshVI ATCGAT 2 cut(s) 684, 774
BsiHKAI GWGCWC 2 cut(s) 574, 825
BsiHKCI CYCGRG 1 cut(s) 433
BsiSI CCGG 4 cut(s) 83, 143, 233, 495
BsmAI GTCTC 1 cut(s) 118
BsmI GAATGC 2 cut(s) 307, 980
BsoBI CYCGRG 1 cut(s) 433
Bsp1286I GDGCHC 3 cut(s) 263, 574, 825
Bsp13I TCCGGA 1 cut(s) 494
Bsp1407I TGTACA 1 cut(s) 6
Bsp143I GATC 4 cut(s) 85, 509, 681, 871
Bsp19I CCATGG 1 cut(s) 186
BspACI CCGC 1 cut(s) 893
BspCNI CTCAG 3 cut(s) 128, 341, 403
BspDI ATCGAT 2 cut(s) 684, 774
BspEI TCCGGA 1 cut(s) 494
BspLI GGNNCC 1 cut(s) 816
BspMAI CTGCAG 1 cut(s) 24
BspPI GGATC 2 cut(s) 93, 504
BsrDI GCAATG 1 cut(s) 765
BsrFI RCCGGY 2 cut(s) 142, 232
BsrGI TGTACA 1 cut(s) 6
BsrI ACTGG 4 cut(s) 602, 771, 796, 818
BssAI RCCGGY 2 cut(s) 142, 232
BssECI CCNNGG 2 cut(s) 186, 252
BssMI GATC 4 cut(s) 85, 509, 681, 871
BssT1I CCWWGG 1 cut(s) 186
Bst2UI CCWGG 1 cut(s) 354
Bst4CI ACNGT 4 cut(s) 427, 469, 743, 1000
Bst6I CTCTTC 1 cut(s) 832
BstAPI GCANNNNNTGC 2 cut(s) 302, 755
BstAUI TGTACA 1 cut(s) 6
BstC8I GCNNGC 2 cut(s) 414, 570
BstDEI CTNAG 3 cut(s) 115, 328, 390
BstDSI CCRYGG 1 cut(s) 186
BstF5I GGATG 4 cut(s) 244, 349, 478, 1044
BstKTI GATC 4 cut(s) 88, 512, 684, 874
BstMAI GTCTC 1 cut(s) 118
BstMBI GATC 4 cut(s) 85, 509, 681, 871
BstMWI GCNNNNNNNGC 5 cut(s) 25, 191, 302, 545, 755
BstNI CCWGG 1 cut(s) 354
BstNSI RCATGY 2 cut(s) 451, 503
BstSCI CCNGG 1 cut(s) 352
BstSFI CTRYAG 1 cut(s) 20
BstV1I GCAGC 5 cut(s) 6, 169, 292, 523, 990
BstX2I RGATCY 1 cut(s) 509
BstYI RGATCY 1 cut(s) 509
Bsu15I ATCGAT 2 cut(s) 684, 774
BsuTUI ATCGAT 2 cut(s) 684, 774
BtgI CCRYGG 1 cut(s) 186
BtsCI GGATG 4 cut(s) 244, 349, 478, 1044
BtsI GCAGTG 1 cut(s) 63
BtsIMutI CAGTG 4 cut(s) 63, 465, 825, 1018
Cac8I GCNNGC 2 cut(s) 414, 570
CaiI CAGNNNCTG 1 cut(s) 28
Cfr10I RCCGGY 2 cut(s) 142, 232
Cfr13I GGNCC 1 cut(s) 80
ClaI ATCGAT 2 cut(s) 684, 774
CsiI ACCWGGT 1 cut(s) 352
Csp6I GTAC 4 cut(s) 7, 282, 739, 764
CspAI ACCGGT 1 cut(s) 232
CviAII CATG 7 cut(s) 35, 70, 187, 409, 448, 500, 807
CviQI GTAC 4 cut(s) 7, 282, 739, 764
DdeI CTNAG 3 cut(s) 115, 328, 390
DpnI GATC 4 cut(s) 87, 511, 683, 873
DpnII GATC 4 cut(s) 85, 509, 681, 871
DraI TTTAAA 1 cut(s) 288
Eam1104I CTCTTC 1 cut(s) 832
EarI CTCTTC 1 cut(s) 832
Eco130I CCWWGG 1 cut(s) 186
Eco24I GRGCYC 1 cut(s) 263
Eco47I GGWCC 1 cut(s) 80
Eco88I CYCGRG 1 cut(s) 433
EcoRII CCWGG 1 cut(s) 352
EcoT14I CCWWGG 1 cut(s) 186
EcoT22I ATGCAT 1 cut(s) 867
EcoT38I GRGCYC 1 cut(s) 263
ErhI CCWWGG 1 cut(s) 186
FaeI CATG 7 cut(s) 38, 73, 190, 412, 451, 503, 810
FalI AAGNNNNNCTT 2 cut(s) 359, 391
FatI CATG 7 cut(s) 34, 69, 186, 408, 447, 499, 806
FblI GTMKAC 1 cut(s) 957
Fnu4HI GCNGC 5 cut(s) 20, 183, 306, 537, 1004
FokI GGATG 4 cut(s) 251, 356, 485, 1051
FriOI GRGCYC 1 cut(s) 263
Fsp4HI GCNGC 5 cut(s) 20, 183, 306, 537, 1004
FspBI CTAG 1 cut(s) 279
GluI GCNGC 5 cut(s) 20, 183, 306, 537, 1004
GsuI CTGGAG 2 cut(s) 619, 837
HapII CCGG 4 cut(s) 83, 143, 233, 495
Hin1II CATG 7 cut(s) 38, 73, 190, 412, 451, 503, 810
HinfI GANTC 3 cut(s) 137, 370, 954
HpaII CCGG 4 cut(s) 83, 143, 233, 495
HphI GGTGA 2 cut(s) 199, 222
Hpy166II GTNNAC 3 cut(s) 430, 739, 958
Hpy188I TCNGA 5 cut(s) 256, 331, 393, 703, 814
Hpy188III TCNNGA 5 cut(s) 341, 495, 617, 971, 1036
Hpy8I GTNNAC 3 cut(s) 430, 739, 958
HpyAV CCTTC 8 cut(s) 228, 286, 392, 473, 535, 810, 855, 899
HpyCH4III ACNGT 4 cut(s) 427, 469, 743, 1000
HpyCH4V TGCA 8 cut(s) 22, 440, 749, 758, 865, 942, 980, 993
HpyF10VI GCNNNNNNNGC 5 cut(s) 25, 191, 302, 545, 755
HpyF3I CTNAG 3 cut(s) 115, 328, 390
Hsp92II CATG 7 cut(s) 38, 73, 190, 412, 451, 503, 810
Kpn2I TCCGGA 1 cut(s) 494
Kzo9I GATC 4 cut(s) 85, 509, 681, 871
LmnI GCTCC 1 cut(s) 25
Lsp1109I GCAGC 5 cut(s) 6, 169, 292, 523, 990
LweI GCATC 1 cut(s) 745
MabI ACCWGGT 1 cut(s) 352
MaeI CTAG 1 cut(s) 279
MaeIII GTNAC 2 cut(s) 145, 929
MalI GATC 4 cut(s) 87, 511, 683, 873
MboI GATC 4 cut(s) 85, 509, 681, 871
MboII GAAGA 4 cut(s) 191, 219, 819, 1067
MfeI CAATTG 1 cut(s) 888
MflI RGATCY 1 cut(s) 509
MhlI GDGCHC 3 cut(s) 263, 574, 825
MluCI AATT 4 cut(s) 488, 888, 911, 1063
MlyI GAGTC 2 cut(s) 131, 963
MmeI TCCRAC 1 cut(s) 665
MnlI CCTC 5 cut(s) 220, 262, 646, 814, 859
Mph1103I ATGCAT 1 cut(s) 867
MroI TCCGGA 1 cut(s) 494
MroXI GAANNNNTTC 1 cut(s) 799
MseI TTAA 4 cut(s) 287, 560, 693, 914
MslI CAYNNNNRTG 2 cut(s) 68, 998
MspI CCGG 4 cut(s) 83, 143, 233, 495
MspR9I CCNGG 1 cut(s) 354
MunI CAATTG 1 cut(s) 888
Mva1269I GAATGC 2 cut(s) 307, 980
MvaI CCWGG 1 cut(s) 354
MwoI GCNNNNNNNGC 5 cut(s) 25, 191, 302, 545, 755
NcoI CCATGG 1 cut(s) 186
NdeII GATC 4 cut(s) 85, 509, 681, 871
NlaIII CATG 7 cut(s) 38, 73, 190, 412, 451, 503, 810
NlaIV GGNNCC 1 cut(s) 816
NsiI ATGCAT 1 cut(s) 867
NspI RCATGY 2 cut(s) 451, 503
PciI ACATGT 1 cut(s) 499
PctI GAATGC 2 cut(s) 307, 980
PdmI GAANNNNTTC 1 cut(s) 799
PfeI GAWTC 1 cut(s) 370
PinAI ACCGGT 1 cut(s) 232
PkrI GCNGC 5 cut(s) 21, 184, 307, 538, 1005
PleI GAGTC 2 cut(s) 131, 962
PpsI GAGTC 2 cut(s) 131, 962
PscI ACATGT 1 cut(s) 499
Psp6I CCWGG 1 cut(s) 352
PspGI CCWGG 1 cut(s) 352
PspN4I GGNNCC 1 cut(s) 816
PspPI GGNCC 1 cut(s) 80
PstI CTGCAG 1 cut(s) 24
PstNI CAGNNNCTG 1 cut(s) 28
PsuI RGATCY 1 cut(s) 509
RsaI GTAC 4 cut(s) 8, 283, 740, 765
RsaNI GTAC 4 cut(s) 7, 282, 739, 764
RseI CAYNNNNRTG 2 cut(s) 68, 998
SaqAI TTAA 4 cut(s) 287, 560, 693, 914
SatI GCNGC 5 cut(s) 20, 183, 306, 537, 1004
Sau3AI GATC 4 cut(s) 85, 509, 681, 871
Sau96I GGNCC 1 cut(s) 80
ScaI AGTACT 1 cut(s) 283
SchI GAGTC 2 cut(s) 131, 963
ScrFI CCNGG 1 cut(s) 354
SduI GDGCHC 3 cut(s) 263, 574, 825
SexAI ACCWGGT 1 cut(s) 352
SfaNI GCATC 1 cut(s) 745
SfcI CTRYAG 1 cut(s) 20
SgrAI CRCCGGYG 1 cut(s) 232
SinI GGWCC 1 cut(s) 80
SmiMI CAYNNNNRTG 2 cut(s) 68, 998
SpeI ACTAGT 1 cut(s) 278
Sse9I AATT 4 cut(s) 488, 888, 911, 1063
SsiI CCGC 1 cut(s) 893
SspMI CTAG 1 cut(s) 279
StyD4I CCNGG 1 cut(s) 352
StyI CCWWGG 1 cut(s) 186
TaaI ACNGT 4 cut(s) 427, 469, 743, 1000
TaqI TCGA 2 cut(s) 684, 774
TasI AATT 4 cut(s) 488, 888, 911, 1063
TatI WGTACW 3 cut(s) 6, 281, 738
TfiI GAWTC 1 cut(s) 370
Tru1I TTAA 4 cut(s) 287, 560, 693, 914
Tru9I TTAA 4 cut(s) 287, 560, 693, 914
TscAI CASTG 4 cut(s) 70, 472, 825, 1018
TseI GCWGC 5 cut(s) 19, 182, 305, 536, 1003
TspDTI ATGAA 8 cut(s) 51, 86, 312, 620, 702, 797, 918, 1068
TspRI CASTG 4 cut(s) 70, 472, 825, 1018
VpaK11BI GGWCC 1 cut(s) 80
XapI RAATTY 1 cut(s) 488
XceI RCATGY 2 cut(s) 451, 503
XcmI CCANNNNNNNNNTGG 1 cut(s) 472
XmiI GTMKAC 1 cut(s) 957
XmnI GAANNNNTTC 1 cut(s) 799
XspI CTAG 1 cut(s) 279
ZrmI AGTACT 1 cut(s) 283
Zsp2I ATGCAT 1 cut(s) 867
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.