Rmu_sc0011424.1_g000009

RNA helicase SDE3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0011424.1
OG0000595
Physical Location & Seq
Forward (+)
29506 .. 30495
990 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0011424.1_g000009.1.cds

Sequence Viewer

Length: 990 bp
atgtcatatgtacagggccccatccataaagttgttgggagcaatcgcgttttggttgaatttgaggatggtttttattcttatcatcattccaacaaaaaatatgatatcagcttctcatacaatagagtttgtttgaaaagagcccaccatgcagtaaaagctgcatcagatgccttgtttcagaacttcctcttccctgactgtgactcacgagcaagcattcctgctgcaccagctctgctttctacaacctatcataagcttgatcaagagcaacgttctgcagtcggacatatcttaaggattcagggctcaccaccttatgtagtaactggtccagactgtgaaggcaaatcttttgcaaatttaagagaaccttcaagaactggagtggttgttagtgaagcagtaaaccaattatgtcggaagtcaccagagtatcgcattcttatctgtgcgcctactaacagctgctgcgatatgctgatgagaagcttggtgaaggtgattccagagtctactatgtttcgtgccaatgctgcattccgagacagagatgaggtacctgaggacatcctccgttcatccctttacaaagagtcttgtttttcttgtcctgcaatagagaaactccgggaatacaaggtgattttctcaactttcatgagtagcttccgactacatgataaaggcatagttgctggacattttagccatatttttctggtggatgcttcatctgctattgagccggaaacattggtcgccctgactaactttgctgtcaaggccactagtgttatagttactggtaatcatggaaatagtccgctctgggttcgcgctgacattgcaaggaaaaagggactcaagatttcatactttgaacgactctgcaagctcaggccatatagaagccccagtccaatgttcatcacacaactagacctgaaccaaaagtcagagtaccaaacaagacctttctga
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

329

Amino Acids

37.1

Weight (kDa)

9.09

Isoelectric Point (pI)

52.73

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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)
Acc65I GGTACC 1 cut(s) 565
AccB1I GGYRCC 1 cut(s) 565
AccBSI CCGCTC 1 cut(s) 835
AccI GTMKAC 1 cut(s) 521
AccII CGCG 2 cut(s) 48, 846
AciI CCGC 1 cut(s) 833
AclI AACGTT 1 cut(s) 280
AcsI RAATTY 2 cut(s) 59, 367
AfaI GTAC 3 cut(s) 12, 567, 971
AflII CTTAAG 1 cut(s) 301
AgsI TTSAA 4 cut(s) 59, 139, 384, 890
AhlI ACTAGT 1 cut(s) 797
AjuI GAANNNNNNNTTGG 2 cut(s) 530, 562
AluBI AGCT 8 cut(s) 114, 164, 239, 265, 474, 498, 675, 904
AluI AGCT 8 cut(s) 114, 164, 239, 265, 474, 498, 675, 904
Alw26I GTCTC 1 cut(s) 546
AlwNI CAGNNNCTG 1 cut(s) 477
AoxI GGCC 3 cut(s) 16, 792, 908
ApaI GGGCCC 1 cut(s) 20
ApeKI GCWGC 5 cut(s) 164, 230, 474, 477, 542
ApoI RAATTY 2 cut(s) 59, 367
Asp718I GGTACC 1 cut(s) 565
AspLEI GCGC 2 cut(s) 463, 848
AspS9I GGNCC 3 cut(s) 16, 17, 338
AsuC2I CCSGG 1 cut(s) 638
AsuHPI GGTGA 5 cut(s) 309, 426, 514, 520, 661
AvaII GGWCC 1 cut(s) 338
AxyI CCTNAGG 1 cut(s) 570
BaeGI GKGCMC 1 cut(s) 20
BaeI ACNNNNGTAYC 2 cut(s) 425, 458
BanI GGYRCC 1 cut(s) 565
BanII GRGCYC 3 cut(s) 20, 148, 317
BauI CACGAG 1 cut(s) 213
BbvI GCAGC 5 cut(s) 151, 217, 461, 464, 529
BccI CCATC 2 cut(s) 29, 62
BclI TGATCA 1 cut(s) 268
BcnI CCSGG 1 cut(s) 638
BcoDI GTCTC 1 cut(s) 546
BcuI ACTAGT 1 cut(s) 797
BfaI CTAG 2 cut(s) 798, 947
BfmI CTRYAG 1 cut(s) 285
BfrI CTTAAG 1 cut(s) 301
BisI GCNGC 5 cut(s) 165, 231, 475, 478, 543
BlsI GCNGC 5 cut(s) 166, 232, 476, 479, 544
Bme1390I CCNGG 1 cut(s) 638
Bme18I GGWCC 1 cut(s) 338
BmgT120I GGNCC 3 cut(s) 16, 17, 338
BmiI GGNNCC 3 cut(s) 18, 19, 567
BmrFI CCNGG 1 cut(s) 638
BmrI ACTGGG 1 cut(s) 918
BmsI GCATC 3 cut(s) 163, 176, 724
BmuI ACTGGG 1 cut(s) 918
BpmI CTGGAG 1 cut(s) 411
Bpu10I CCTNAGC 1 cut(s) 905
BpuEI CTTGAG 1 cut(s) 857
BpuMI CCSGG 1 cut(s) 638
BsaXI ACNNNNNCTCC 2 cut(s) 384, 414
Bse1I ACTGG 4 cut(s) 340, 394, 817, 924
Bse21I CCTNAGG 1 cut(s) 570
Bse3DI GCAATG 1 cut(s) 852
BseGI GGATG 5 cut(s) 21, 73, 576, 587, 739
BseMI GCAATG 1 cut(s) 852
BseMII CTCAG 2 cut(s) 561, 919
BseNI ACTGG 4 cut(s) 340, 394, 817, 924
BseSI GKGCMC 1 cut(s) 20
BseXI GCAGC 5 cut(s) 151, 217, 461, 464, 529
BsgI GTGCAG 1 cut(s) 216
Bsh1236I CGCG 2 cut(s) 48, 846
BshFI GGCC 3 cut(s) 18, 794, 910
BshNI GGYRCC 1 cut(s) 565
BsiSI CCGG 2 cut(s) 637, 755
BslFI GGGAC 1 cut(s) 882
BsmAI GTCTC 1 cut(s) 546
BsmFI GGGAC 1 cut(s) 882
BsmI GAATGC 3 cut(s) 222, 447, 545
BsnI GGCC 3 cut(s) 18, 794, 910
Bsp120I GGGCCC 1 cut(s) 16
Bsp1286I GDGCHC 3 cut(s) 20, 148, 317
Bsp1407I TGTACA 1 cut(s) 10
Bsp143I GATC 1 cut(s) 268
BspACI CCGC 1 cut(s) 833
BspANI GGCC 3 cut(s) 18, 794, 910
BspCNI CTCAG 2 cut(s) 562, 918
BspFNI CGCG 2 cut(s) 48, 846
BspHI TCATGA 1 cut(s) 666
BspLI GGNNCC 3 cut(s) 18, 19, 567
BspMAI CTGCAG 1 cut(s) 289
BspT107I GGYRCC 1 cut(s) 565
BspTI CTTAAG 1 cut(s) 301
BsrBI CCGCTC 1 cut(s) 835
BsrDI GCAATG 1 cut(s) 852
BsrGI TGTACA 1 cut(s) 10
BsrI ACTGG 4 cut(s) 340, 394, 817, 924
BssMI GATC 1 cut(s) 268
BssSI CACGAG 1 cut(s) 213
Bst2BI CACGAG 1 cut(s) 213
Bst4CI ACNGT 2 cut(s) 206, 347
Bst6I CTCTTC 1 cut(s) 200
BstAFI CTTAAG 1 cut(s) 301
BstAPI GCANNNNNTGC 1 cut(s) 173
BstAUI TGTACA 1 cut(s) 10
BstC8I GCNNGC 2 cut(s) 220, 902
BstDEI CTNAG 2 cut(s) 570, 905
BstF5I GGATG 5 cut(s) 21, 73, 576, 587, 739
BstFNI CGCG 2 cut(s) 48, 846
BstHHI GCGC 2 cut(s) 463, 848
BstKTI GATC 1 cut(s) 271
BstMAI GTCTC 1 cut(s) 546
BstMBI GATC 1 cut(s) 268
BstMWI GCNNNNNNNGC 8 cut(s) 152, 161, 173, 236, 542, 743, 791, 854
BstSCI CCNGG 1 cut(s) 636
BstSFI CTRYAG 1 cut(s) 285
BstSLI GKGCMC 1 cut(s) 20
BstUI CGCG 2 cut(s) 48, 846
BstV1I GCAGC 5 cut(s) 151, 217, 461, 464, 529
Bsu36I CCTNAGG 1 cut(s) 570
BsuRI GGCC 3 cut(s) 18, 794, 910
BtsCI GGATG 5 cut(s) 21, 73, 576, 587, 739
Cac8I GCNNGC 2 cut(s) 220, 902
CaiI CAGNNNCTG 1 cut(s) 477
CciI TCATGA 1 cut(s) 666
CfoI GCGC 2 cut(s) 463, 848
Cfr13I GGNCC 3 cut(s) 16, 17, 338
Csp6I GTAC 3 cut(s) 11, 566, 970
CviAII CATG 4 cut(s) 152, 667, 686, 821
CviQI GTAC 3 cut(s) 11, 566, 970
DdeI CTNAG 2 cut(s) 570, 905
DpnI GATC 1 cut(s) 270
DpnII GATC 1 cut(s) 268
Eam1104I CTCTTC 1 cut(s) 200
EarI CTCTTC 1 cut(s) 200
Eco24I GRGCYC 3 cut(s) 20, 148, 317
Eco32I GATATC 1 cut(s) 109
Eco47I GGWCC 1 cut(s) 338
Eco81I CCTNAGG 1 cut(s) 570
EcoO109I RGGNCCY 2 cut(s) 16, 17
EcoRV GATATC 1 cut(s) 109
EcoT38I GRGCYC 3 cut(s) 20, 148, 317
FaeI CATG 4 cut(s) 155, 670, 689, 824
FalI AAGNNNNNCTT 2 cut(s) 364, 396
FaqI GGGAC 1 cut(s) 882
FatI CATG 4 cut(s) 151, 666, 685, 820
FauNDI CATATG 1 cut(s) 7
FbaI TGATCA 1 cut(s) 268
FblI GTMKAC 1 cut(s) 521
Fnu4HI GCNGC 5 cut(s) 165, 231, 475, 478, 543
FokI GGATG 5 cut(s) 8, 80, 563, 574, 746
FriOI GRGCYC 3 cut(s) 20, 148, 317
Fsp4HI GCNGC 5 cut(s) 165, 231, 475, 478, 543
FspBI CTAG 2 cut(s) 798, 947
GlaI GCGC 2 cut(s) 462, 847
GluI GCNGC 5 cut(s) 165, 231, 475, 478, 543
GsuI CTGGAG 1 cut(s) 411
HaeIII GGCC 3 cut(s) 18, 794, 910
HapII CCGG 2 cut(s) 637, 755
HhaI GCGC 2 cut(s) 463, 848
Hin1II CATG 4 cut(s) 155, 670, 689, 824
Hin6I GCGC 2 cut(s) 461, 846
HinP1I GCGC 2 cut(s) 461, 846
HindIII AAGCTT 2 cut(s) 263, 496
HinfI GANTC 7 cut(s) 209, 307, 511, 518, 602, 870, 894
HpaII CCGG 2 cut(s) 637, 755
HphI GGTGA 5 cut(s) 309, 426, 514, 520, 661
Hpy166II GTNNAC 2 cut(s) 415, 522
Hpy188I TCNGA 8 cut(s) 172, 186, 293, 429, 551, 680, 967, 989
Hpy188III TCNNGA 7 cut(s) 213, 272, 341, 384, 515, 667, 874
Hpy8I GTNNAC 2 cut(s) 415, 522
HpyAV CCTTC 3 cut(s) 344, 390, 499
HpyCH4III ACNGT 2 cut(s) 206, 347
HpyCH4IV ACGT 1 cut(s) 280
HpyCH4V TGCA 9 cut(s) 155, 167, 233, 287, 365, 545, 623, 857, 900
HpyF10VI GCNNNNNNNGC 8 cut(s) 152, 161, 173, 236, 542, 743, 791, 854
HpyF3I CTNAG 2 cut(s) 570, 905
HpySE526I ACGT 1 cut(s) 280
Hsp92II CATG 4 cut(s) 155, 670, 689, 824
HspAI GCGC 2 cut(s) 461, 846
KpnI GGTACC 1 cut(s) 569
Ksp22I TGATCA 1 cut(s) 268
Kzo9I GATC 1 cut(s) 268
LmnI GCTCC 1 cut(s) 39
Lsp1109I GCAGC 5 cut(s) 151, 217, 461, 464, 529
LweI GCATC 3 cut(s) 163, 176, 724
MaeI CTAG 2 cut(s) 798, 947
MaeII ACGT 1 cut(s) 280
MaeIII GTNAC 4 cut(s) 206, 331, 432, 808
MalI GATC 1 cut(s) 270
MbiI CCGCTC 1 cut(s) 835
MboI GATC 1 cut(s) 268
MboII GAAGA 1 cut(s) 187
MhlI GDGCHC 3 cut(s) 20, 148, 317
MluCI AATT 3 cut(s) 59, 367, 419
MlyI GAGTC 5 cut(s) 203, 527, 611, 864, 888
MmeI TCCRAC 4 cut(s) 117, 271, 407, 703
MnlI CCTC 5 cut(s) 58, 203, 556, 565, 590
MseI TTAA 2 cut(s) 302, 371
MspA1I CMGCKG 1 cut(s) 474
MspCI CTTAAG 1 cut(s) 301
MspI CCGG 2 cut(s) 637, 755
MspR9I CCNGG 1 cut(s) 638
Mva1269I GAATGC 3 cut(s) 222, 447, 545
MvnI CGCG 2 cut(s) 48, 846
MwoI GCNNNNNNNGC 8 cut(s) 152, 161, 173, 236, 542, 743, 791, 854
NciI CCSGG 1 cut(s) 638
NdeI CATATG 1 cut(s) 7
NdeII GATC 1 cut(s) 268
NlaIII CATG 4 cut(s) 155, 670, 689, 824
NlaIV GGNNCC 3 cut(s) 18, 19, 567
NmuCI GTSAC 2 cut(s) 206, 432
PagI TCATGA 1 cut(s) 666
PctI GAATGC 3 cut(s) 222, 447, 545
PfeI GAWTC 2 cut(s) 307, 511
PfoI TCCNGGA 1 cut(s) 636
PkrI GCNGC 5 cut(s) 166, 232, 476, 479, 544
PleI GAGTC 5 cut(s) 203, 526, 610, 864, 888
PpsI GAGTC 5 cut(s) 203, 526, 610, 864, 888
Psp1406I AACGTT 1 cut(s) 280
PspN4I GGNNCC 3 cut(s) 18, 19, 567
PspOMI GGGCCC 1 cut(s) 16
PspPI GGNCC 3 cut(s) 16, 17, 338
PstI CTGCAG 1 cut(s) 289
PstNI CAGNNNCTG 1 cut(s) 477
PvuII CAGCTG 1 cut(s) 474
RsaI GTAC 3 cut(s) 12, 567, 971
RsaNI GTAC 3 cut(s) 11, 566, 970
SaqAI TTAA 2 cut(s) 302, 371
SatI GCNGC 5 cut(s) 165, 231, 475, 478, 543
Sau3AI GATC 1 cut(s) 268
Sau96I GGNCC 3 cut(s) 16, 17, 338
SchI GAGTC 5 cut(s) 203, 527, 611, 864, 888
ScrFI CCNGG 1 cut(s) 638
SduI GDGCHC 3 cut(s) 20, 148, 317
SfaNI GCATC 3 cut(s) 163, 176, 724
SfcI CTRYAG 1 cut(s) 285
SinI GGWCC 1 cut(s) 338
SmlI CTYRAG 2 cut(s) 301, 872
SmoI CTYRAG 2 cut(s) 301, 872
SpeI ACTAGT 1 cut(s) 797
Sse9I AATT 3 cut(s) 59, 367, 419
SsiI CCGC 1 cut(s) 833
SspMI CTAG 2 cut(s) 798, 947
StyD4I CCNGG 1 cut(s) 636
TaaI ACNGT 2 cut(s) 206, 347
TaiI ACGT 1 cut(s) 283
TasI AATT 3 cut(s) 59, 367, 419
TatI WGTACW 1 cut(s) 10
TfiI GAWTC 2 cut(s) 307, 511
Tru1I TTAA 2 cut(s) 302, 371
Tru9I TTAA 2 cut(s) 302, 371
TseFI GTSAC 2 cut(s) 206, 432
TseI GCWGC 5 cut(s) 164, 230, 474, 477, 542
Tsp45I GTSAC 2 cut(s) 206, 432
TspDTI ATGAA 5 cut(s) 576, 655, 729, 870, 925
TspGWI ACGGA 1 cut(s) 572
Vha464I CTTAAG 1 cut(s) 301
VpaK11BI GGWCC 1 cut(s) 338
XapI RAATTY 2 cut(s) 59, 367
XcmI CCANNNNNNNNNTGG 1 cut(s) 32
XmiI GTMKAC 1 cut(s) 521
XspI CTAG 2 cut(s) 798, 947
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.