Rroxscaffold_4G00329860

RNA helicase SDE3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000595
Physical Location & Seq
Forward (+)
63242557 .. 63244218
1662 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00329860.1

Sequence Viewer

Length: 1185 bp
ATGGGTGTGACATTAGCGTTGGATGAAAGTTCAATTTATAAAAACCGGAAAAAGGAAGCACTTTATAAAAATCGGAAAAAGGAAGATAAGGAAGACAAAACCTTTGTAGCATTTGAGCTTGATAGTGTTCCTGAGGAGCGACCATTCCTCTTGTCAAGGGACTTGGTCCTTGCACGACCAGTGGGGAAGAGTTCTACTGAGCCCTTTAAGGGCCCCATCCATAAAGTTGTTGGGAGCAATCGCGTTTTGGTTGAATTTGAGGATGGCTTTTATTCTTATCATCATTCCAACAAAAAATATGATATCAGCTTCTCATACAATAGAGTTTGTTTGAAAAGAGCCCACCATGCAGTAAAAGCTGCATCAGATGCCTTGTTTCAGAACTTCCTCTTCCCTGACTGTGACTCACGAGCAAGCATTCCTGCTGCACCAGCTCTGCTTTCTACCACCTATCATAAGCTTGATCAAGAGCAACGTTCTGCAGTCGGACATATCTTAAGGATTCAGGGCTCACCACCTTATGTAGTAACTGGTCCAGACTGTGAAGGCAAATCTTTTGCAAATTTAAGAGAACCTTCAAGAACTGGAGTGGTTGTTAGTGAAGCAGTATACCAATTATGTCGGAAGTCACCTGAGTATCGCATTCTTATCTGTGCGCCTACTAACAGCTGCTGCGATATGCTGATGAGAAGCTTGGTGAAGGTGATTCCAGAGTCTACTATGTTTCGTGCCAATGCTGCATTCCGAGACAGAGATGAGGTACCTGAGGACATCCTCCGTTCATCCCTTTACAAAGAGTCTTGTTTTTCTTGTCCTGCAATAGAGAAACTCCGGGAATACAAGGTGATTTTCTCAACTTTCATGAGTAGCTTCCGACTACATGATAAAGGCATAGCTGCTGGACATTTTAGCCATATTTTTCTGGTGGATGCTTCATCTGCTATTGAGCCGGAAACATTGGTCGCCCTGACTAACTTTGCTGTCAAGGCCACTACTGTTATAGTTACTGGTAATCATGGAAATAGTCCGCTCTGGGTTCGCGCTGACATTGCAAGGAAAAAGGGACTCAAGATTTCATACTTTGAACGACTCTGCAAGCTCAGGCCATATAGAAGCCCCAGTCCAATGTTCATCACACAACTAGACCTGAACCAAAAGTCAGAGTACCAAACAAGACCTTTCTGA
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

394

Amino Acids

44.6

Weight (kDa)

9.13

Isoelectric Point (pI)

52.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
MOV-10_beta-barrel PF21634 27 - 104 7.2e-10 Helicase MOV-10, beta-barrel domain
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 2 cut(s) 39, 66
Acc65I GGTACC 1 cut(s) 760
AccB1I GGYRCC 1 cut(s) 760
AccBSI CCGCTC 1 cut(s) 1030
AccI GTMKAC 2 cut(s) 609, 716
AccII CGCG 2 cut(s) 243, 1041
AciI CCGC 1 cut(s) 1028
AclI AACGTT 1 cut(s) 475
AcsI RAATTY 2 cut(s) 254, 562
AfaI GTAC 2 cut(s) 762, 1166
AfiI CCNNNNNNNGG 2 cut(s) 52, 209
AflII CTTAAG 1 cut(s) 496
AgsI TTSAA 5 cut(s) 33, 254, 334, 579, 1085
AjuI GAANNNNNNNTTGG 2 cut(s) 725, 757
Alw26I GTCTC 1 cut(s) 741
AlwNI CAGNNNCTG 1 cut(s) 672
AoxI GGCC 3 cut(s) 211, 987, 1103
ApaI GGGCCC 1 cut(s) 215
ApeKI GCWGC 6 cut(s) 359, 425, 669, 672, 737, 896
ApoI RAATTY 2 cut(s) 254, 562
ArsI GACNNNNNNTTYG 2 cut(s) 86, 118
Asp718I GGTACC 1 cut(s) 760
AspLEI GCGC 2 cut(s) 658, 1043
AspS9I GGNCC 4 cut(s) 166, 211, 212, 533
AsuC2I CCSGG 1 cut(s) 833
AsuHPI GGTGA 5 cut(s) 504, 621, 709, 715, 856
AvaII GGWCC 2 cut(s) 166, 533
AxyI CCTNAGG 2 cut(s) 132, 765
BaeGI GKGCMC 1 cut(s) 215
BaeI ACNNNNGTAYC 2 cut(s) 620, 653
BanI GGYRCC 1 cut(s) 760
BanII GRGCYC 4 cut(s) 204, 215, 343, 512
BauI CACGAG 1 cut(s) 408
BbsI GAAGAC 1 cut(s) 99
BbvI GCAGC 6 cut(s) 346, 412, 656, 659, 724, 883
BccI CCATC 2 cut(s) 224, 257
BclI TGATCA 1 cut(s) 463
BcnI CCSGG 1 cut(s) 833
BcoDI GTCTC 1 cut(s) 741
BfaI CTAG 1 cut(s) 1142
BfmI CTRYAG 1 cut(s) 480
BfrI CTTAAG 1 cut(s) 496
BisI GCNGC 6 cut(s) 360, 426, 670, 673, 738, 897
BlsI GCNGC 6 cut(s) 361, 427, 671, 674, 739, 898
Bme1390I CCNGG 1 cut(s) 833
Bme18I GGWCC 2 cut(s) 166, 533
BmgT120I GGNCC 4 cut(s) 166, 211, 212, 533
BmiI GGNNCC 3 cut(s) 213, 214, 762
BmrFI CCNGG 1 cut(s) 833
BmrI ACTGGG 1 cut(s) 1113
BmsI GCATC 3 cut(s) 358, 371, 919
BmuI ACTGGG 1 cut(s) 1113
BpiI GAAGAC 1 cut(s) 99
BpmI CTGGAG 1 cut(s) 606
Bpu10I CCTNAGC 1 cut(s) 1100
BpuEI CTTGAG 1 cut(s) 1052
BpuMI CCSGG 1 cut(s) 833
BsaWI WCCGGW 1 cut(s) 45
BsaXI ACNNNNNCTCC 2 cut(s) 579, 609
Bsc4I CCNNNNNNNGG 2 cut(s) 52, 209
Bse1I ACTGG 5 cut(s) 179, 535, 589, 1012, 1119
Bse21I CCTNAGG 2 cut(s) 132, 765
Bse3DI GCAATG 1 cut(s) 1047
BseGI GGATG 6 cut(s) 28, 216, 268, 771, 782, 934
BseLI CCNNNNNNNGG 2 cut(s) 52, 209
BseMI GCAATG 1 cut(s) 1047
BseMII CTCAG 5 cut(s) 123, 189, 624, 756, 1114
BseNI ACTGG 5 cut(s) 179, 535, 589, 1012, 1119
BseRI GAGGAG 1 cut(s) 149
BseSI GKGCMC 1 cut(s) 215
BseXI GCAGC 6 cut(s) 346, 412, 656, 659, 724, 883
BsgI GTGCAG 1 cut(s) 411
Bsh1236I CGCG 2 cut(s) 243, 1041
BshFI GGCC 3 cut(s) 213, 989, 1105
BshNI GGYRCC 1 cut(s) 760
BsiSI CCGG 3 cut(s) 46, 832, 950
BslFI GGGAC 2 cut(s) 173, 1077
BslI CCNNNNNNNGG 2 cut(s) 52, 209
BsmAI GTCTC 1 cut(s) 741
BsmFI GGGAC 2 cut(s) 173, 1077
BsmI GAATGC 3 cut(s) 417, 642, 740
BsnI GGCC 3 cut(s) 213, 989, 1105
Bsp120I GGGCCC 1 cut(s) 211
Bsp1286I GDGCHC 4 cut(s) 204, 215, 343, 512
Bsp143I GATC 1 cut(s) 463
BspACI CCGC 1 cut(s) 1028
BspANI GGCC 3 cut(s) 213, 989, 1105
BspCNI CTCAG 5 cut(s) 124, 190, 625, 757, 1113
BspFNI CGCG 2 cut(s) 243, 1041
BspHI TCATGA 1 cut(s) 861
BspLI GGNNCC 3 cut(s) 213, 214, 762
BspMAI CTGCAG 1 cut(s) 484
BspT107I GGYRCC 1 cut(s) 760
BspTI CTTAAG 1 cut(s) 496
BsrBI CCGCTC 1 cut(s) 1030
BsrDI GCAATG 1 cut(s) 1047
BsrI ACTGG 5 cut(s) 179, 535, 589, 1012, 1119
BssMI GATC 1 cut(s) 463
BssNAI GTATAC 1 cut(s) 610
BssSI CACGAG 1 cut(s) 408
Bst1107I GTATAC 1 cut(s) 610
Bst2BI CACGAG 1 cut(s) 408
Bst4CI ACNGT 3 cut(s) 401, 542, 997
Bst6I CTCTTC 2 cut(s) 182, 395
BstAFI CTTAAG 1 cut(s) 496
BstAPI GCANNNNNTGC 1 cut(s) 368
BstC8I GCNNGC 2 cut(s) 415, 1097
BstDEI CTNAG 5 cut(s) 132, 198, 633, 765, 1100
BstF5I GGATG 6 cut(s) 28, 216, 268, 771, 782, 934
BstFNI CGCG 2 cut(s) 243, 1041
BstHHI GCGC 2 cut(s) 658, 1043
BstKTI GATC 1 cut(s) 466
BstMAI GTCTC 1 cut(s) 741
BstMBI GATC 1 cut(s) 463
BstMWI GCNNNNNNNGC 8 cut(s) 347, 356, 368, 431, 737, 938, 986, 1049
BstSCI CCNGG 1 cut(s) 831
BstSFI CTRYAG 1 cut(s) 480
BstSLI GKGCMC 1 cut(s) 215
BstUI CGCG 2 cut(s) 243, 1041
BstV1I GCAGC 6 cut(s) 346, 412, 656, 659, 724, 883
BstV2I GAAGAC 1 cut(s) 99
BstZ17I GTATAC 1 cut(s) 610
Bsu36I CCTNAGG 2 cut(s) 132, 765
BsuRI GGCC 3 cut(s) 213, 989, 1105
BtsCI GGATG 6 cut(s) 28, 216, 268, 771, 782, 934
BtsIMutI CAGTG 1 cut(s) 186
Cac8I GCNNGC 2 cut(s) 415, 1097
CaiI CAGNNNCTG 1 cut(s) 672
CciI TCATGA 1 cut(s) 861
CfoI GCGC 2 cut(s) 658, 1043
Cfr13I GGNCC 4 cut(s) 166, 211, 212, 533
Csp6I GTAC 2 cut(s) 761, 1165
CviAII CATG 4 cut(s) 347, 862, 881, 1016
CviQI GTAC 2 cut(s) 761, 1165
DdeI CTNAG 5 cut(s) 132, 198, 633, 765, 1100
DpnI GATC 1 cut(s) 465
DpnII GATC 1 cut(s) 463
Eam1104I CTCTTC 2 cut(s) 182, 395
EarI CTCTTC 2 cut(s) 182, 395
Eco24I GRGCYC 4 cut(s) 204, 215, 343, 512
Eco32I GATATC 1 cut(s) 304
Eco47I GGWCC 2 cut(s) 166, 533
Eco81I CCTNAGG 2 cut(s) 132, 765
EcoO109I RGGNCCY 2 cut(s) 211, 212
EcoRV GATATC 1 cut(s) 304
EcoT38I GRGCYC 4 cut(s) 204, 215, 343, 512
FaeI CATG 4 cut(s) 350, 865, 884, 1019
FalI AAGNNNNNCTT 2 cut(s) 559, 591
FaqI GGGAC 2 cut(s) 173, 1077
FatI CATG 4 cut(s) 346, 861, 880, 1015
FbaI TGATCA 1 cut(s) 463
FblI GTMKAC 2 cut(s) 609, 716
Fnu4HI GCNGC 6 cut(s) 360, 426, 670, 673, 738, 897
FokI GGATG 6 cut(s) 35, 203, 275, 758, 769, 941
FriOI GRGCYC 4 cut(s) 204, 215, 343, 512
Fsp4HI GCNGC 6 cut(s) 360, 426, 670, 673, 738, 897
FspBI CTAG 1 cut(s) 1142
GlaI GCGC 2 cut(s) 657, 1042
GluI GCNGC 6 cut(s) 360, 426, 670, 673, 738, 897
GsuI CTGGAG 1 cut(s) 606
HaeIII GGCC 3 cut(s) 213, 989, 1105
HapII CCGG 3 cut(s) 46, 832, 950
HhaI GCGC 2 cut(s) 658, 1043
Hin1II CATG 4 cut(s) 350, 865, 884, 1019
Hin6I GCGC 2 cut(s) 656, 1041
HinP1I GCGC 2 cut(s) 656, 1041
HindIII AAGCTT 2 cut(s) 458, 691
HinfI GANTC 7 cut(s) 404, 502, 706, 713, 797, 1065, 1089
HpaII CCGG 3 cut(s) 46, 832, 950
HphI GGTGA 5 cut(s) 504, 621, 709, 715, 856
Hpy166II GTNNAC 2 cut(s) 610, 717
Hpy188I TCNGA 9 cut(s) 75, 367, 381, 488, 624, 746, 875, 1162, 1184
Hpy188III TCNNGA 8 cut(s) 131, 408, 467, 536, 579, 710, 862, 1069
Hpy8I GTNNAC 2 cut(s) 610, 717
HpyAV CCTTC 3 cut(s) 539, 585, 694
HpyCH4III ACNGT 3 cut(s) 401, 542, 997
HpyCH4IV ACGT 1 cut(s) 475
HpyF10VI GCNNNNNNNGC 8 cut(s) 347, 356, 368, 431, 737, 938, 986, 1049
HpyF3I CTNAG 5 cut(s) 132, 198, 633, 765, 1100
HpySE526I ACGT 1 cut(s) 475
Hsp92II CATG 4 cut(s) 350, 865, 884, 1019
HspAI GCGC 2 cut(s) 656, 1041
KpnI GGTACC 1 cut(s) 764
Ksp22I TGATCA 1 cut(s) 463
Kzo9I GATC 1 cut(s) 463
LmnI GCTCC 2 cut(s) 136, 234
Lsp1109I GCAGC 6 cut(s) 346, 412, 656, 659, 724, 883
LweI GCATC 3 cut(s) 358, 371, 919
MaeI CTAG 1 cut(s) 1142
MaeII ACGT 1 cut(s) 475
MaeIII GTNAC 5 cut(s) 7, 401, 526, 627, 1003
MalI GATC 1 cut(s) 465
MbiI CCGCTC 1 cut(s) 1030
MboI GATC 1 cut(s) 463
MboII GAAGA 4 cut(s) 95, 104, 199, 382
MhlI GDGCHC 4 cut(s) 204, 215, 343, 512
MluCI AATT 4 cut(s) 33, 254, 562, 614
MlyI GAGTC 5 cut(s) 398, 722, 806, 1059, 1083
MmeI TCCRAC 4 cut(s) 312, 466, 602, 898
MnlI CCTC 7 cut(s) 127, 158, 253, 398, 751, 760, 785
MseI TTAA 3 cut(s) 207, 497, 566
MspA1I CMGCKG 1 cut(s) 669
MspCI CTTAAG 1 cut(s) 496
MspI CCGG 3 cut(s) 46, 832, 950
MspR9I CCNGG 1 cut(s) 833
Mva1269I GAATGC 3 cut(s) 417, 642, 740
MvnI CGCG 2 cut(s) 243, 1041
MwoI GCNNNNNNNGC 8 cut(s) 347, 356, 368, 431, 737, 938, 986, 1049
NciI CCSGG 1 cut(s) 833
NdeII GATC 1 cut(s) 463
NlaIII CATG 4 cut(s) 350, 865, 884, 1019
NlaIV GGNNCC 3 cut(s) 213, 214, 762
NmuCI GTSAC 3 cut(s) 7, 401, 627
PagI TCATGA 1 cut(s) 861
PctI GAATGC 3 cut(s) 417, 642, 740
PfeI GAWTC 2 cut(s) 502, 706
PflFI GACNNNGTC 1 cut(s) 164
PfoI TCCNGGA 1 cut(s) 831
PkrI GCNGC 6 cut(s) 361, 427, 671, 674, 739, 898
PleI GAGTC 5 cut(s) 398, 721, 805, 1059, 1083
PpsI GAGTC 5 cut(s) 398, 721, 805, 1059, 1083
PsiI TTATAA 2 cut(s) 39, 66
Psp1406I AACGTT 1 cut(s) 475
PspN4I GGNNCC 3 cut(s) 213, 214, 762
PspOMI GGGCCC 1 cut(s) 211
PspPI GGNCC 4 cut(s) 166, 211, 212, 533
PstI CTGCAG 1 cut(s) 484
PstNI CAGNNNCTG 1 cut(s) 672
PsyI GACNNNGTC 1 cut(s) 164
PvuII CAGCTG 1 cut(s) 669
RsaI GTAC 2 cut(s) 762, 1166
RsaNI GTAC 2 cut(s) 761, 1165
SaqAI TTAA 3 cut(s) 207, 497, 566
SatI GCNGC 6 cut(s) 360, 426, 670, 673, 738, 897
Sau3AI GATC 1 cut(s) 463
Sau96I GGNCC 4 cut(s) 166, 211, 212, 533
SchI GAGTC 5 cut(s) 398, 722, 806, 1059, 1083
ScrFI CCNGG 1 cut(s) 833
SduI GDGCHC 4 cut(s) 204, 215, 343, 512
SfaNI GCATC 3 cut(s) 358, 371, 919
SfcI CTRYAG 1 cut(s) 480
SinI GGWCC 2 cut(s) 166, 533
SmlI CTYRAG 2 cut(s) 496, 1067
SmoI CTYRAG 2 cut(s) 496, 1067
Sse9I AATT 4 cut(s) 33, 254, 562, 614
SsiI CCGC 1 cut(s) 1028
SspMI CTAG 1 cut(s) 1142
StyD4I CCNGG 1 cut(s) 831
TaaI ACNGT 3 cut(s) 401, 542, 997
TaiI ACGT 1 cut(s) 478
TasI AATT 4 cut(s) 33, 254, 562, 614
TfiI GAWTC 2 cut(s) 502, 706
Tru1I TTAA 3 cut(s) 207, 497, 566
Tru9I TTAA 3 cut(s) 207, 497, 566
TscAI CASTG 1 cut(s) 186
TseFI GTSAC 3 cut(s) 7, 401, 627
TseI GCWGC 6 cut(s) 359, 425, 669, 672, 737, 896
Tsp45I GTSAC 3 cut(s) 7, 401, 627
TspDTI ATGAA 6 cut(s) 39, 771, 850, 924, 1065, 1120
TspGWI ACGGA 1 cut(s) 767
TspRI CASTG 1 cut(s) 186
Tth111I GACNNNGTC 1 cut(s) 164
Vha464I CTTAAG 1 cut(s) 496
VpaK11BI GGWCC 2 cut(s) 166, 533
XapI RAATTY 2 cut(s) 254, 562
XcmI CCANNNNNNNNNTGG 1 cut(s) 227
XmiI GTMKAC 2 cut(s) 609, 716
XspI CTAG 1 cut(s) 1142
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.