RLG00000009337

RNA helicase SDE3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr2
OG0000595
Physical Location & Seq
Reverse (-)
51223049 .. 51231728
8680 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000009337

Sequence Viewer

Length: 849 bp
ATGTGCTCAGCATTATGCTTTTCCATTACTTGTGCGCTTTTTACCTTGTGGGTGGAGAAATGGAGTGATTACCATTTGGAGAACATGGTATTGGCGTTGCGAGAAGAAGAAATTTATAATTACAAAACTCAAGAGAAGGAAAGAAAAACCTTTGTTGCCTTTGCGATTGATTCTGTTCCTGAGAGACGACCATTTCTCTATTCGAGGGACTTGCTGTATATGACTTCTATGAGTATCATTGTTCAACTCAAAGATATGATGTCAACTTCTCATTCAATAGACTGTTTAAAAAGAGCTCACCATGCAGTTAAAGCTGCATCAGAAGCTTTGTTTCGGAACTTCCTCTTTCCTGATTGTGTCTCCCGTCCAAGCATTCCCATTGCACCAGCACTGGTCTCTACCTTTCATAAACTCGGCGAAGGTGAACTTTCTGCAGTTCGTCGTATCATAAACAGTCAGGGCTCACCACCTTACCTAGTAGCTGGCGAACTCTTTTTATATCAAATGTCACCAGAAAATCGTATCCTTACATGTTCGCCTAATAACAGGCGTTGTGATGTGCTTCTGAGAAGCTTGATGGAAGTGATTCCAGAGTCGGATATGTTTCGAGCCAACGCTGCATTCCGTGAGATAGAAGAGGTACTTGAGGACATCCTGCCGTCATGCCAGTACACCCAACTCCGGAAATTCAGGGTGATTTCATCAACTTTCATCAGTAGCTATCGGCTACATGATCAAGGTGGACACGTTAGCCATGTTTTTCTGGTGGATGCTTCATCCGCTACTCAGCCGGAAACAATGGTGATCCTGACTAATTTTGTGGACGAAAGTAATGGTGATCCTGACTAA
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

283

Amino Acids

32.18

Weight (kDa)

5.66

Isoelectric Point (pI)

56.5

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)
AanI TTATAA 1 cut(s) 117
AccIII TCCGGA 1 cut(s) 681
AciI CCGC 1 cut(s) 780
AclWI GGATC 2 cut(s) 799, 833
AcsI RAATTY 2 cut(s) 111, 686
AfaI GTAC 2 cut(s) 642, 671
AfiI CCNNNNNNNGG 1 cut(s) 681
AflIII ACRYGT 2 cut(s) 530, 745
AgsI TTSAA 2 cut(s) 245, 276
AjuI GAANNNNNNNTTGG 4 cut(s) 74, 106, 605, 637
AluBI AGCT 6 cut(s) 296, 314, 326, 482, 573, 720
AluI AGCT 6 cut(s) 296, 314, 326, 482, 573, 720
Alw21I GWGCWC 2 cut(s) 8, 298
Alw26I GTCTC 3 cut(s) 178, 364, 400
AlwI GGATC 2 cut(s) 799, 833
Aor13HI TCCGGA 1 cut(s) 681
ApeKI GCWGC 2 cut(s) 314, 617
ApoI RAATTY 2 cut(s) 111, 686
Asp700I GAANNNNTTC 1 cut(s) 585
AspLEI GCGC 1 cut(s) 37
AsuHPI GGTGA 7 cut(s) 290, 434, 456, 501, 706, 814, 848
BanII GRGCYC 2 cut(s) 298, 464
Bbv12I GWGCWC 2 cut(s) 8, 298
BbvI GCAGC 2 cut(s) 301, 604
BccI CCATC 1 cut(s) 571
BceAI ACGGC 1 cut(s) 643
BcgI CGANNNNNNTGC 2 cut(s) 193, 227
BciVI GTATCC 1 cut(s) 533
BclI TGATCA 1 cut(s) 733
BcoDI GTCTC 3 cut(s) 178, 364, 400
BfaI CTAG 1 cut(s) 476
BfmI CTRYAG 1 cut(s) 432
BfuI GTATCC 1 cut(s) 533
BisI GCNGC 2 cut(s) 315, 618
BlpI GCTNAGC 1 cut(s) 7
BlsI GCNGC 2 cut(s) 316, 619
BmsI GCATC 2 cut(s) 326, 760
Bpu1102I GCTNAGC 1 cut(s) 7
BpuEI CTTGAG 2 cut(s) 114, 665
BsaI GGTCTC 1 cut(s) 400
BsaWI WCCGGW 1 cut(s) 681
Bsc4I CCNNNNNNNGG 1 cut(s) 681
Bse1I ACTGG 2 cut(s) 396, 667
Bse3DI GCAATG 1 cut(s) 378
BseAI TCCGGA 1 cut(s) 681
BseGI GGATG 3 cut(s) 651, 775, 776
BseLI CCNNNNNNNGG 1 cut(s) 681
BseMI GCAATG 1 cut(s) 378
BseMII CTCAG 4 cut(s) 21, 171, 557, 800
BseNI ACTGG 2 cut(s) 396, 667
BseXI GCAGC 2 cut(s) 301, 604
BsiHKAI GWGCWC 2 cut(s) 8, 298
BsiSI CCGG 2 cut(s) 682, 791
BslFI GGGAC 1 cut(s) 221
BslI CCNNNNNNNGG 1 cut(s) 681
BsmAI GTCTC 3 cut(s) 178, 364, 400
BsmBI CGTCTC 1 cut(s) 178
BsmFI GGGAC 1 cut(s) 221
BsmI GAATGC 2 cut(s) 372, 620
Bso31I GGTCTC 1 cut(s) 400
Bsp1286I GDGCHC 3 cut(s) 8, 298, 464
Bsp13I TCCGGA 1 cut(s) 681
Bsp143I GATC 3 cut(s) 733, 804, 838
Bsp1720I GCTNAGC 1 cut(s) 7
BspACI CCGC 1 cut(s) 780
BspCNI CTCAG 4 cut(s) 20, 172, 558, 799
BspEI TCCGGA 1 cut(s) 681
BspMAI CTGCAG 1 cut(s) 436
BspPI GGATC 2 cut(s) 799, 833
BspTNI GGTCTC 1 cut(s) 400
BsrDI GCAATG 1 cut(s) 378
BsrI ACTGG 2 cut(s) 396, 667
BssMI GATC 3 cut(s) 733, 804, 838
Bst4CI ACNGT 2 cut(s) 284, 455
Bst6I CTCTTC 1 cut(s) 630
BstC8I GCNNGC 1 cut(s) 484
BstDEI CTNAG 4 cut(s) 7, 180, 566, 786
BstF5I GGATG 3 cut(s) 651, 775, 776
BstHHI GCGC 1 cut(s) 37
BstKTI GATC 3 cut(s) 736, 807, 841
BstMAI GTCTC 3 cut(s) 178, 364, 400
BstMBI GATC 3 cut(s) 733, 804, 838
BstMWI GCNNNNNNNGC 5 cut(s) 302, 311, 323, 617, 779
BstNSI RCATGY 1 cut(s) 534
BstSFI CTRYAG 1 cut(s) 432
BstV1I GCAGC 2 cut(s) 301, 604
BsuI GTATCC 1 cut(s) 533
BtsCI GGATG 3 cut(s) 651, 775, 776
BtsIMutI CAGTG 1 cut(s) 389
Cac8I GCNNGC 1 cut(s) 484
CfoI GCGC 1 cut(s) 37
Csp6I GTAC 2 cut(s) 641, 670
CviAII CATG 6 cut(s) 85, 302, 531, 663, 731, 755
CviQI GTAC 2 cut(s) 641, 670
DdeI CTNAG 4 cut(s) 7, 180, 566, 786
DpnI GATC 3 cut(s) 735, 806, 840
DpnII GATC 3 cut(s) 733, 804, 838
DraI TTTAAA 1 cut(s) 288
Eam1104I CTCTTC 1 cut(s) 630
EarI CTCTTC 1 cut(s) 630
Ecl136II GAGCTC 1 cut(s) 296
Eco24I GRGCYC 2 cut(s) 298, 464
Eco31I GGTCTC 1 cut(s) 400
Eco53kI GAGCTC 1 cut(s) 296
EcoICRI GAGCTC 1 cut(s) 296
EcoT38I GRGCYC 2 cut(s) 298, 464
Esp3I CGTCTC 1 cut(s) 178
FaeI CATG 6 cut(s) 88, 305, 534, 666, 734, 758
FalI AAGNNNNNCTT 4 cut(s) 411, 443, 627, 659
FaqI GGGAC 1 cut(s) 221
FatI CATG 6 cut(s) 84, 301, 530, 662, 730, 754
FbaI TGATCA 1 cut(s) 733
Fnu4HI GCNGC 2 cut(s) 315, 618
FokI GGATG 3 cut(s) 638, 763, 782
FriOI GRGCYC 2 cut(s) 298, 464
Fsp4HI GCNGC 2 cut(s) 315, 618
FspBI CTAG 1 cut(s) 476
GlaI GCGC 1 cut(s) 36
GluI GCNGC 2 cut(s) 315, 618
HapII CCGG 2 cut(s) 682, 791
HhaI GCGC 1 cut(s) 37
Hin1II CATG 6 cut(s) 88, 305, 534, 666, 734, 758
Hin6I GCGC 1 cut(s) 35
HinP1I GCGC 1 cut(s) 35
HincII GTYRAC 1 cut(s) 264
HindII GTYRAC 1 cut(s) 264
HindIII AAGCTT 2 cut(s) 324, 571
HinfI GANTC 3 cut(s) 170, 586, 593
HpaII CCGG 2 cut(s) 682, 791
HphI GGTGA 7 cut(s) 290, 434, 456, 501, 706, 814, 848
Hpy166II GTNNAC 5 cut(s) 264, 425, 672, 743, 823
Hpy188I TCNGA 4 cut(s) 322, 336, 567, 598
Hpy188III TCNNGA 7 cut(s) 131, 179, 350, 590, 682, 808, 842
Hpy8I GTNNAC 5 cut(s) 264, 425, 672, 743, 823
Hpy99I CGWCG 1 cut(s) 444
HpyAV CCTTC 2 cut(s) 130, 413
HpyCH4III ACNGT 2 cut(s) 284, 455
HpyCH4IV ACGT 1 cut(s) 747
HpyCH4V TGCA 5 cut(s) 305, 317, 383, 434, 620
HpyF10VI GCNNNNNNNGC 5 cut(s) 302, 311, 323, 617, 779
HpyF3I CTNAG 4 cut(s) 7, 180, 566, 786
HpySE526I ACGT 1 cut(s) 747
Hsp92II CATG 6 cut(s) 88, 305, 534, 666, 734, 758
HspAI GCGC 1 cut(s) 35
Kpn2I TCCGGA 1 cut(s) 681
Ksp22I TGATCA 1 cut(s) 733
Kzo9I GATC 3 cut(s) 733, 804, 838
Lsp1109I GCAGC 2 cut(s) 301, 604
LweI GCATC 2 cut(s) 326, 760
MaeI CTAG 1 cut(s) 476
MaeII ACGT 1 cut(s) 747
MaeIII GTNAC 1 cut(s) 507
MalI GATC 3 cut(s) 735, 806, 840
MboI GATC 3 cut(s) 733, 804, 838
MboII GAAGA 3 cut(s) 116, 119, 647
MhlI GDGCHC 3 cut(s) 8, 298, 464
MluCI AATT 4 cut(s) 111, 118, 686, 814
MlyI GAGTC 1 cut(s) 602
MmeI TCCRAC 1 cut(s) 576
MnlI CCTC 4 cut(s) 198, 353, 631, 640
MroI TCCGGA 1 cut(s) 681
MroXI GAANNNNTTC 1 cut(s) 585
MseI TTAA 2 cut(s) 287, 309
MspI CCGG 2 cut(s) 682, 791
Mva1269I GAATGC 2 cut(s) 372, 620
MwoI GCNNNNNNNGC 5 cut(s) 302, 311, 323, 617, 779
NdeII GATC 3 cut(s) 733, 804, 838
NlaIII CATG 6 cut(s) 88, 305, 534, 666, 734, 758
NmeAIII GCCGAG 1 cut(s) 393
NmuCI GTSAC 1 cut(s) 507
NspI RCATGY 1 cut(s) 534
PciI ACATGT 1 cut(s) 530
PctI GAATGC 2 cut(s) 372, 620
PdmI GAANNNNTTC 1 cut(s) 585
PfeI GAWTC 2 cut(s) 170, 586
PkrI GCNGC 2 cut(s) 316, 619
PleI GAGTC 1 cut(s) 601
PpsI GAGTC 1 cut(s) 601
PscI ACATGT 1 cut(s) 530
PsiI TTATAA 1 cut(s) 117
Psp124BI GAGCTC 1 cut(s) 298
PstI CTGCAG 1 cut(s) 436
RsaI GTAC 2 cut(s) 642, 671
RsaNI GTAC 2 cut(s) 641, 670
SacI GAGCTC 1 cut(s) 298
SaqAI TTAA 2 cut(s) 287, 309
SatI GCNGC 2 cut(s) 315, 618
Sau3AI GATC 3 cut(s) 733, 804, 838
SchI GAGTC 1 cut(s) 602
SduI GDGCHC 3 cut(s) 8, 298, 464
SfaNI GCATC 2 cut(s) 326, 760
SfcI CTRYAG 1 cut(s) 432
SmlI CTYRAG 2 cut(s) 129, 644
SmoI CTYRAG 2 cut(s) 129, 644
Sse9I AATT 4 cut(s) 111, 118, 686, 814
SsiI CCGC 1 cut(s) 780
SspMI CTAG 1 cut(s) 476
SstI GAGCTC 1 cut(s) 298
TaaI ACNGT 2 cut(s) 284, 455
TaiI ACGT 1 cut(s) 750
TaqI TCGA 2 cut(s) 203, 607
TasI AATT 4 cut(s) 111, 118, 686, 814
TatI WGTACW 1 cut(s) 669
TfiI GAWTC 2 cut(s) 170, 586
Tru1I TTAA 2 cut(s) 287, 309
Tru9I TTAA 2 cut(s) 287, 309
TscAI CASTG 1 cut(s) 396
TseFI GTSAC 1 cut(s) 507
TseI GCWGC 2 cut(s) 314, 617
Tsp45I GTSAC 1 cut(s) 507
TspDTI ATGAA 4 cut(s) 395, 690, 700, 765
TspGWI ACGGA 1 cut(s) 614
TspRI CASTG 1 cut(s) 396
XapI RAATTY 2 cut(s) 111, 686
XceI RCATGY 1 cut(s) 534
XmnI GAANNNNTTC 1 cut(s) 585
XspI CTAG 1 cut(s) 476
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.