Rorug04G0375700

RNA helicase SDE3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0000595
Physical Location & Seq
Reverse (-)
54646472 .. 54647963
1492 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0375700.1

Sequence Viewer

Length: 1053 bp
ATGGCAACCAAACACTTCTTGCTTGCCATCTTTGTCCTCCTCCTAAGCTTTGCACCCCTCAATGTTTCGGCAGTTTCGCCACAATGTGGGGAAGAGATCACACAGTGCCACAACAAAGAGGAGGCCTTGAAGATGAAGATCATTGCCATAGCTGCCATACTAGTCATGAGCATGATCGGGGTTTGCTTGCCATTATTTTCGCACATGGTGCCGGCTCTTCAGCCCGACAAGAACCTGTTTGTGGTGGTCAAAGCGTTTGCATCCGGTGTCATACTCGCGACCGGGTACATGCACGTGTTACCCGATTCGTTTGAAGACTTGACATCCGAGTGCTTGCCTGAAAGGCCGTGGAGGAAATTTCCCTTCACGACATTTGTGGCAATGCTCTCGGCTATTGTGTGTATGATGGTGGATTCAATTTCGATGAGTCGTTATAAAAAATCTTTTCTTCGAGCTACTGGTAATGGCGACTTGCGCAACAGTGCCAAAATTGAGAGCGCCGAATCAGCGGATATTGGACATGGTCGTGAAATGAAAATTGAGGAGGGGATCAATACTAAGGAGGAACAATTGATGAAGCATCGTATTGTGGCAAAGGTATTGGAAACAGGTATTGTAGTGCACTCAGTAGTGATTGGATTGTCAATGGGGTCATCTGAAAACCCTTGCACAATTAGACCGCTCATTGCTGCAATTTGTTTCCATCAACTATTTGAAGGAATGGGTCTAGGAGGGTGCATACTTCAGGCTGAATTTGGAAGCAAGATGAAAGTAATCATGATGTTCTTCTTTTCATGCACAACACCATTTGGGATAGTGTTAGGGATTGCGTTGTCTAATGTATACGAAGACAACAGTCCGAAGTCTCTGATTGTGGAAGGGCTGCTAAATGCTTGTTCTTCAGGGCTACTCAATTATATGGCACTGGTGGATCTGCTAGCCGCTGAATTTATGGGTCCTAAACTGCAATCAAATATAAAGCTCCAAGTATGGTCGTACATTGCAGTTCTTTTAGGAGCAGGAGGCATGTCAGTAATGGCCATTTGGGCATAA
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
No domains found.

Protein Analysis

350

Amino Acids

38.07

Weight (kDa)

6.45

Isoelectric Point (pI)

52.74

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Zip PF02535 44 - 347 5.1e-75 ZIP Zinc transporter
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: OG0000595)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g37100 FvH4_4g37100 FvH4_4g37100
malus_domestica MD13G1238300.v1.1 MD16G1243100.v1.1 MD16G1243200.v1.1
prunus_persica Prupe.1G070100_v2.0.a1 Prupe.1G070200_v2.0.a1 Prupe.1G070300_v2.0.a1 Prupe.1G070300_v2.0.a1
pyrus_communis pycom13g21070 pycom16g20390 pycom16g20400
rosa_chinensis RchiOBHm_Chr1g0318071 RchiOBHm_Chr1g0318111 RchiOBHm_Chr4g0446861 RchiOBHm_Chr4g0446881 RchiOBHm_Chr4g0446891
rosa_laevigata RLG00000005623 RLG00000005624 RLG00000009337 RLG00000030560 RLG00000030566
rosa_multiflora Rmu_co8177450.1_g000001 Rmu_sc0001753.1_g000012 Rmu_sc0001753.1_g000013 Rmu_sc0001753.1_g000014 Rmu_sc0001753.1_g000015 Rmu_sc0011424.1_g000009 Rmu_sc0011424.1_g000020 Rmu_sc0034555.1_g000001 Rmu_ssc0000008.1_g000002
rosa_roxburghii Rroxscaffold_4G00329530 Rroxscaffold_4G00329590 Rroxscaffold_4G00329800 Rroxscaffold_4G00329810 Rroxscaffold_4G00329860 Rroxscaffold_4G00329910 Rroxscaffold_4G00330030 Rroxscaffold_5G00343610 Rroxscaffold_5G00348280 Rroxscaffold_5G00387220 Rroxscaffold_5G00387230
rosa_rugosa Rorug01G0019100 Rorug01G0019100 Rorug01G0019500 Rorug01G0019600 Rorug04G0010100 Rorug04G0375200 Rorug04G0375300 Rorug04G0375400 Rorug04G0375500 Rorug04G0375600 Rorug04G0375700
rosa_samantha Rh1AG030700 Rh1AG030900 Rh1BG026900 Rh1CG029500 Rh1CG029700 Rh1DG040500 Rh4AG088100 Rh4AG436700 Rh4AG436800 Rh4AG436900 Rh4BG084700 Rh4BG445800 Rh4BG445900 Rh4BG446100 Rh4CG096300 Rh4CG463100 Rh4CG463200 Rh4CG463400 Rh4DG444500 Rh4DG444600 Rh4DG444700
rosa_wichuraiana Rw1G002420 Rw1G002440 Rw1G002480 Rw4G037360 Rw4G037370 Rw4G037380

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 435
Acc16I TGCGCA 1 cut(s) 476
AccB1I GGYRCC 1 cut(s) 208
AccB7I CCANNNNNTGG 1 cut(s) 86
AccBSI CCGCTC 1 cut(s) 682
AccI GTMKAC 1 cut(s) 843
AccII CGCG 1 cut(s) 278
AciI CCGC 3 cut(s) 509, 680, 942
AclWI GGATC 2 cut(s) 557, 939
AcoI YGGCCR 1 cut(s) 1038
AcsI RAATTY 3 cut(s) 356, 752, 947
AcuI CTGAAG 3 cut(s) 203, 728, 885
AcvI CACGTG 1 cut(s) 295
AdeI CACNNNGTG 3 cut(s) 86, 105, 208
AfaI GTAC 2 cut(s) 287, 998
AfiI CCNNNNNNNGG 2 cut(s) 86, 241
AflIII ACRYGT 1 cut(s) 294
AgsI TTSAA 4 cut(s) 130, 314, 417, 716
AhlI ACTAGT 1 cut(s) 160
AluBI AGCT 4 cut(s) 48, 152, 455, 982
AluI AGCT 4 cut(s) 48, 152, 455, 982
Alw21I GWGCWC 1 cut(s) 624
Alw26I GTCTC 1 cut(s) 870
Alw44I GTGCAC 1 cut(s) 620
AlwI GGATC 2 cut(s) 557, 939
AoxI GGCC 3 cut(s) 123, 344, 1038
ApaLI GTGCAC 1 cut(s) 620
ApeKI GCWGC 3 cut(s) 152, 689, 883
ApoI RAATTY 3 cut(s) 356, 752, 947
AspLEI GCGC 2 cut(s) 477, 500
AspS9I GGNCC 1 cut(s) 956
AsuC2I CCSGG 1 cut(s) 283
AsuNHI GCTAGC 1 cut(s) 937
AvaII GGWCC 1 cut(s) 956
BaeGI GKGCMC 1 cut(s) 624
BalI TGGCCA 1 cut(s) 1040
BanI GGYRCC 1 cut(s) 208
BbrPI CACGTG 1 cut(s) 295
BbsI GAAGAC 2 cut(s) 321, 855
Bbv12I GWGCWC 1 cut(s) 624
BbvI GCAGC 3 cut(s) 139, 676, 870
BccI CCATC 3 cut(s) 35, 400, 711
BceAI ACGGC 1 cut(s) 331
BcgI CGANNNNNNTGC 2 cut(s) 369, 403
BcnI CCSGG 1 cut(s) 283
BcoDI GTCTC 1 cut(s) 870
BcuI ACTAGT 1 cut(s) 160
BfaI CTAG 3 cut(s) 161, 728, 938
BfoI RGCGCY 1 cut(s) 501
BglI GCCNNNNNGGC 2 cut(s) 343, 1046
BisI GCNGC 4 cut(s) 153, 690, 884, 942
BlsI GCNGC 4 cut(s) 154, 691, 885, 943
Bme1390I CCNGG 1 cut(s) 283
Bme18I GGWCC 1 cut(s) 956
BmgT120I GGNCC 1 cut(s) 956
BmiI GGNNCC 2 cut(s) 210, 957
BmrFI CCNGG 1 cut(s) 283
BmsI GCATC 2 cut(s) 269, 589
BmtI GCTAGC 1 cut(s) 941
BoxI GACNNNNGTC 1 cut(s) 855
BpiI GAAGAC 2 cut(s) 321, 855
Bpu10I CCTNAGC 1 cut(s) 44
BpuMI CCSGG 1 cut(s) 283
BsaAI YACGTR 1 cut(s) 295
BsaBI GATNNNNATC 1 cut(s) 137
BsaJI CCNNGG 1 cut(s) 347
BsaWI WCCGGW 1 cut(s) 263
Bsc4I CCNNNNNNNGG 2 cut(s) 86, 241
Bse118I RCCGGY 1 cut(s) 211
Bse1I ACTGG 2 cut(s) 463, 930
Bse3DI GCAATG 4 cut(s) 141, 387, 684, 999
Bse8I GATNNNNATC 1 cut(s) 137
BseDI CCNNGG 1 cut(s) 347
BseGI GGATG 2 cut(s) 260, 323
BseJI GATNNNNATC 1 cut(s) 137
BseLI CCNNNNNNNGG 2 cut(s) 86, 241
BseMI GCAATG 4 cut(s) 141, 387, 684, 999
BseMII CTCAG 1 cut(s) 639
BseNI ACTGG 2 cut(s) 463, 930
BseRI GAGGAG 3 cut(s) 29, 134, 557
BseSI GKGCMC 1 cut(s) 624
BseXI GCAGC 3 cut(s) 139, 676, 870
Bsh1236I CGCG 1 cut(s) 278
Bsh1285I CGRYCG 1 cut(s) 282
BshFI GGCC 3 cut(s) 125, 346, 1040
BshNI GGYRCC 1 cut(s) 208
BsiEI CGRYCG 1 cut(s) 282
BsiHKAI GWGCWC 1 cut(s) 624
BsiSI CCGG 3 cut(s) 212, 264, 282
BslI CCNNNNNNNGG 2 cut(s) 86, 241
BsmAI GTCTC 1 cut(s) 870
BsnI GGCC 3 cut(s) 125, 346, 1040
Bsp1286I GDGCHC 1 cut(s) 624
Bsp143I GATC 5 cut(s) 96, 138, 174, 549, 931
Bsp68I TCGCGA 1 cut(s) 278
BspACI CCGC 3 cut(s) 509, 680, 942
BspANI GGCC 3 cut(s) 125, 346, 1040
BspCNI CTCAG 1 cut(s) 638
BspFNI CGCG 1 cut(s) 278
BspHI TCATGA 2 cut(s) 165, 777
BspLI GGNNCC 2 cut(s) 210, 957
BspOI GCTAGC 1 cut(s) 941
BspPI GGATC 2 cut(s) 557, 939
BspQI GCTCTTC 1 cut(s) 222
BspT107I GGYRCC 1 cut(s) 208
BsrBI CCGCTC 1 cut(s) 682
BsrDI GCAATG 4 cut(s) 141, 387, 684, 999
BsrFI RCCGGY 1 cut(s) 211
BsrI ACTGG 2 cut(s) 463, 930
BssAI RCCGGY 1 cut(s) 211
BssECI CCNNGG 1 cut(s) 347
BssMI GATC 5 cut(s) 96, 138, 174, 549, 931
BssNAI GTATAC 1 cut(s) 844
Bst1107I GTATAC 1 cut(s) 844
Bst4CI ACNGT 3 cut(s) 105, 482, 857
Bst6I CTCTTC 2 cut(s) 87, 222
BstAPI GCANNNNNTGC 1 cut(s) 208
BstBAI YACGTR 1 cut(s) 295
BstC8I GCNNGC 5 cut(s) 24, 188, 213, 335, 939
BstDEI CTNAG 3 cut(s) 44, 558, 625
BstDSI CCRYGG 1 cut(s) 347
BstF5I GGATG 2 cut(s) 260, 323
BstFNI CGCG 1 cut(s) 278
BstH2I RGCGCY 1 cut(s) 501
BstHHI GCGC 2 cut(s) 477, 500
BstKTI GATC 5 cut(s) 99, 141, 177, 552, 934
BstMAI GTCTC 1 cut(s) 870
BstMBI GATC 5 cut(s) 96, 138, 174, 549, 931
BstMCI CGRYCG 1 cut(s) 282
BstMWI GCNNNNNNNGC 6 cut(s) 152, 208, 343, 474, 506, 1046
BstNSI RCATGY 2 cut(s) 292, 1030
BstPAI GACNNNNGTC 1 cut(s) 855
BstSCI CCNGG 1 cut(s) 281
BstSLI GKGCMC 1 cut(s) 624
BstUI CGCG 1 cut(s) 278
BstV1I GCAGC 3 cut(s) 139, 676, 870
BstV2I GAAGAC 2 cut(s) 321, 855
BstX2I RGATCY 1 cut(s) 931
BstYI RGATCY 1 cut(s) 931
BstZ17I GTATAC 1 cut(s) 844
BsuRI GGCC 3 cut(s) 125, 346, 1040
BtgI CCRYGG 1 cut(s) 347
BtsCI GGATG 2 cut(s) 260, 323
BtsIMutI CAGTG 3 cut(s) 110, 487, 923
BtuMI TCGCGA 1 cut(s) 278
Cac8I GCNNGC 5 cut(s) 24, 188, 213, 335, 939
CciI TCATGA 2 cut(s) 165, 777
CfoI GCGC 2 cut(s) 477, 500
Cfr10I RCCGGY 1 cut(s) 211
Cfr13I GGNCC 1 cut(s) 956
Csp6I GTAC 2 cut(s) 286, 997
CviAII CATG 8 cut(s) 166, 172, 205, 289, 521, 778, 795, 1027
CviQI GTAC 2 cut(s) 286, 997
DdeI CTNAG 3 cut(s) 44, 558, 625
DpnI GATC 5 cut(s) 98, 140, 176, 551, 933
DpnII GATC 5 cut(s) 96, 138, 174, 549, 931
DraIII CACNNNGTG 3 cut(s) 86, 105, 208
EaeI YGGCCR 1 cut(s) 1038
Eam1104I CTCTTC 2 cut(s) 87, 222
EarI CTCTTC 2 cut(s) 87, 222
Eco147I AGGCCT 1 cut(s) 125
Eco47I GGWCC 1 cut(s) 956
Eco57I CTGAAG 3 cut(s) 203, 728, 885
Eco72I CACGTG 1 cut(s) 295
EcoO109I RGGNCCY 1 cut(s) 956
FaeI CATG 8 cut(s) 169, 175, 208, 292, 524, 781, 798, 1030
FatI CATG 8 cut(s) 165, 171, 204, 288, 520, 777, 794, 1026
FblI GTMKAC 1 cut(s) 843
Fnu4HI GCNGC 4 cut(s) 153, 690, 884, 942
FokI GGATG 2 cut(s) 247, 310
Fsp4HI GCNGC 4 cut(s) 153, 690, 884, 942
FspBI CTAG 3 cut(s) 161, 728, 938
FspI TGCGCA 1 cut(s) 476
GlaI GCGC 2 cut(s) 476, 499
GluI GCNGC 4 cut(s) 153, 690, 884, 942
HaeII RGCGCY 1 cut(s) 501
HaeIII GGCC 3 cut(s) 125, 346, 1040
HapII CCGG 3 cut(s) 212, 264, 282
HhaI GCGC 2 cut(s) 477, 500
Hin1II CATG 8 cut(s) 169, 175, 208, 292, 524, 781, 798, 1030
Hin6I GCGC 2 cut(s) 475, 498
HinP1I GCGC 2 cut(s) 475, 498
HindIII AAGCTT 1 cut(s) 46
HinfI GANTC 4 cut(s) 305, 413, 427, 503
HpaII CCGG 3 cut(s) 212, 264, 282
Hpy166II GTNNAC 2 cut(s) 622, 844
Hpy188I TCNGA 4 cut(s) 328, 658, 861, 870
Hpy188III TCNNGA 5 cut(s) 166, 277, 367, 527, 778
Hpy8I GTNNAC 2 cut(s) 622, 844
HpyAV CCTTC 3 cut(s) 373, 710, 872
HpyCH4III ACNGT 3 cut(s) 105, 482, 857
HpyCH4IV ACGT 1 cut(s) 294
HpyF10VI GCNNNNNNNGC 6 cut(s) 152, 208, 343, 474, 506, 1046
HpyF3I CTNAG 3 cut(s) 44, 558, 625
HpySE526I ACGT 1 cut(s) 294
Hsp92II CATG 8 cut(s) 169, 175, 208, 292, 524, 781, 798, 1030
HspAI GCGC 2 cut(s) 475, 498
KroI GCCGGC 1 cut(s) 211
KroNI GCCGGC 1 cut(s) 213
Kzo9I GATC 5 cut(s) 96, 138, 174, 549, 931
LguI GCTCTTC 1 cut(s) 222
LmnI GCTCC 2 cut(s) 987, 1016
Lsp1109I GCAGC 3 cut(s) 139, 676, 870
LweI GCATC 2 cut(s) 269, 589
MaeI CTAG 3 cut(s) 161, 728, 938
MaeII ACGT 1 cut(s) 294
MaeIII GTNAC 1 cut(s) 297
MalI GATC 5 cut(s) 98, 140, 176, 551, 933
MbiI CCGCTC 1 cut(s) 682
MboI GATC 5 cut(s) 96, 138, 174, 549, 931
MboII GAAGA 9 cut(s) 104, 142, 148, 209, 326, 440, 778, 860, 891
MfeI CAATTG 1 cut(s) 569
MflI RGATCY 1 cut(s) 931
MhlI GDGCHC 1 cut(s) 624
MlsI TGGCCA 1 cut(s) 1040
MluNI TGGCCA 1 cut(s) 1040
MlyI GAGTC 1 cut(s) 436
Mox20I TGGCCA 1 cut(s) 1040
MroNI GCCGGC 1 cut(s) 211
MscI TGGCCA 1 cut(s) 1040
MslI CAYNNNNRTG 4 cut(s) 170, 293, 328, 525
Msp20I TGGCCA 1 cut(s) 1040
MspA1I CMGCKG 2 cut(s) 509, 944
MspI CCGG 3 cut(s) 212, 264, 282
MspR9I CCNGG 1 cut(s) 283
MunI CAATTG 1 cut(s) 569
MvnI CGCG 1 cut(s) 278
MwoI GCNNNNNNNGC 6 cut(s) 152, 208, 343, 474, 506, 1046
NaeI GCCGGC 1 cut(s) 213
NciI CCSGG 1 cut(s) 283
NdeII GATC 5 cut(s) 96, 138, 174, 549, 931
NgoMIV GCCGGC 1 cut(s) 211
NheI GCTAGC 1 cut(s) 937
NlaIII CATG 8 cut(s) 169, 175, 208, 292, 524, 781, 798, 1030
NlaIV GGNNCC 2 cut(s) 210, 957
NmeAIII GCCGAG 1 cut(s) 368
NruI TCGCGA 1 cut(s) 278
NsbI TGCGCA 1 cut(s) 476
NspI RCATGY 2 cut(s) 292, 1030
PagI TCATGA 2 cut(s) 165, 777
PceI AGGCCT 1 cut(s) 125
PciSI GCTCTTC 1 cut(s) 222
PcsI WCGNNNNNNNCGW 1 cut(s) 300
PdiI GCCGGC 1 cut(s) 213
PfeI GAWTC 3 cut(s) 305, 413, 503
PflFI GACNNNGTC 1 cut(s) 522
PflMI CCANNNNNTGG 1 cut(s) 86
PkrI GCNGC 4 cut(s) 154, 691, 885, 943
PleI GAGTC 1 cut(s) 435
PmaCI CACGTG 1 cut(s) 295
PmlI CACGTG 1 cut(s) 295
PpsI GAGTC 1 cut(s) 435
Ppu21I YACGTR 1 cut(s) 295
PpuMI RGGWCCY 1 cut(s) 956
PshAI GACNNNNGTC 1 cut(s) 855
PsiI TTATAA 1 cut(s) 435
Psp5II RGGWCCY 1 cut(s) 956
PspCI CACGTG 1 cut(s) 295
PspN4I GGNNCC 2 cut(s) 210, 957
PspPI GGNCC 1 cut(s) 956
PspPPI RGGWCCY 1 cut(s) 956
PsuI RGATCY 1 cut(s) 931
PsyI GACNNNGTC 1 cut(s) 522
RruI TCGCGA 1 cut(s) 278
RsaI GTAC 2 cut(s) 287, 998
RsaNI GTAC 2 cut(s) 286, 997
RseI CAYNNNNRTG 4 cut(s) 170, 293, 328, 525
SapI GCTCTTC 1 cut(s) 222
SatI GCNGC 4 cut(s) 153, 690, 884, 942
Sau3AI GATC 5 cut(s) 96, 138, 174, 549, 931
Sau96I GGNCC 1 cut(s) 956
SchI GAGTC 1 cut(s) 436
ScrFI CCNGG 1 cut(s) 283
SduI GDGCHC 1 cut(s) 624
SetI ASST 8 cut(s) 50, 154, 237, 297, 457, 600, 613, 984
SfaNI GCATC 2 cut(s) 269, 589
SinI GGWCC 1 cut(s) 956
SmiMI CAYNNNNRTG 4 cut(s) 170, 293, 328, 525
SpeI ACTAGT 1 cut(s) 160
SseBI AGGCCT 1 cut(s) 125
SsiI CCGC 3 cut(s) 509, 680, 942
SspMI CTAG 3 cut(s) 161, 728, 938
StuI AGGCCT 1 cut(s) 125
StyD4I CCNGG 1 cut(s) 281
TaaI ACNGT 3 cut(s) 105, 482, 857
TaiI ACGT 1 cut(s) 297
TaqI TCGA 2 cut(s) 422, 451
TauI GCSGC 1 cut(s) 944
TfiI GAWTC 3 cut(s) 305, 413, 503
TscAI CASTG 3 cut(s) 110, 487, 930
TseI GCWGC 3 cut(s) 152, 689, 883
TspDTI ATGAA 5 cut(s) 149, 548, 590, 782, 783
TspRI CASTG 3 cut(s) 110, 487, 930
Tth111I GACNNNGTC 1 cut(s) 522
Van91I CCANNNNNTGG 1 cut(s) 86
VneI GTGCAC 1 cut(s) 620
VpaK11BI GGWCC 1 cut(s) 956
XapI RAATTY 3 cut(s) 356, 752, 947
XceI RCATGY 2 cut(s) 292, 1030
XmiI GTMKAC 1 cut(s) 843
XspI CTAG 3 cut(s) 161, 728, 938
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.