Rroxscaffold_5G00387220

RNA helicase SDE3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000595
Physical Location & Seq
Reverse (-)
65917520 .. 65918290
771 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00387220.1

Sequence Viewer

Length: 771 bp
ATGTCATGCTTTTTTGATCTTCTGCGATGCCTTCTGTGTTGTTCTGATGAGCCTGATTTTCATCGAACTTCTTCCCGTTACACAAGAAACCGTTTTGTTGATACCGCTGACCTTCACTATGAGTATGATCCCATTCCCAGTCCCAGGCGCAGCCATTTGCCAACTTCAACTTCATTTCAGCCTCAGTACTATTCTCGTGATTTTGTTAATTCTCTACTTCATTCTCCTGCTTCACCTCCCACCCCCTCTTACAAACCACCACCTCAATCAACAACAACACCACCAGCATCTCAATATTATTCATCTAATAATAAACCGCCGGTCACTTCTTTTATCAGTTCATCTTCATCATCTAAACCAACCCTATCATCTACTATTAAACCATCTTCATCATCCCCGAAGAAGCCACCTCAGCCAACATCATCTAATTCTAAACCAAATCCATCCTCCCAAAAACCTCCATCACATTCTTCATCTCCATCTTCTCCAAAGCTCCCTCCTGTCTACAAGTCAATTCTATCCCCAGCCTCCTCCTCCTCCTCCTTCTCCCCAAATGTTACAAGTCAACACCAACAAGACTGGAAGAAAACAGCTTATGTGTGTGTTGAAGAGGATCCATTACCTGTATTCATGATTCCTGAGGATATCAAAGCCTTGATCAAGAACAAAATTGTGCCCAAAGTTCTGAATCGCCCATTGTCCCCCACAACATTCAAGGACTACTTTGCCGCTCTCTTATATTCTGAAGATTTCTACTTGGAGGTACCCTAA
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

256

Amino Acids

28.47

Weight (kDa)

9.09

Isoelectric Point (pI)

82.8

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) 763
AccB1I GGYRCC 1 cut(s) 763
AccBSI CCGCTC 1 cut(s) 731
AccI GTMKAC 1 cut(s) 504
AciI CCGC 3 cut(s) 105, 317, 729
AclWI GGATC 3 cut(s) 122, 608, 621
AcuI CTGAAG 1 cut(s) 765
AfaI GTAC 2 cut(s) 188, 765
AfiI CCNNNNNNNGG 1 cut(s) 144
AgsI TTSAA 3 cut(s) 168, 608, 715
AjnI CCWGG 1 cut(s) 143
AjuI GAANNNNNNNTTGG 2 cut(s) 154, 186
AluBI AGCT 2 cut(s) 493, 593
AluI AGCT 2 cut(s) 493, 593
AlwI GGATC 3 cut(s) 122, 608, 621
ApeKI GCWGC 1 cut(s) 150
Asp700I GAANNNNTTC 1 cut(s) 70
Asp718I GGTACC 1 cut(s) 763
AspLEI GCGC 1 cut(s) 150
AsuHPI GGTGA 1 cut(s) 225
AxyI CCTNAGG 1 cut(s) 639
BaeGI GKGCMC 1 cut(s) 678
BamHI GGATCC 1 cut(s) 613
BanI GGYRCC 1 cut(s) 763
BauI CACGAG 1 cut(s) 195
BbvCI CCTCAGC 1 cut(s) 411
BbvI GCAGC 1 cut(s) 162
BccI CCATC 4 cut(s) 391, 451, 469, 487
BciT130I CCWGG 1 cut(s) 145
BclI TGATCA 1 cut(s) 657
BisI GCNGC 2 cut(s) 151, 729
BlsI GCNGC 2 cut(s) 152, 730
BmcAI AGTACT 1 cut(s) 188
Bme1390I CCNGG 1 cut(s) 145
BmiI GGNNCC 2 cut(s) 615, 765
BmrFI CCNGG 1 cut(s) 145
BmrI ACTGGG 1 cut(s) 132
BmsI GCATC 2 cut(s) 17, 296
BmuI ACTGGG 1 cut(s) 132
Bpu10I CCTNAGC 1 cut(s) 411
BsaBI GATNNNNATC 1 cut(s) 60
BsaJI CCNNGG 1 cut(s) 143
Bsc4I CCNNNNNNNGG 1 cut(s) 144
Bse118I RCCGGY 1 cut(s) 319
Bse1I ACTGG 2 cut(s) 138, 584
Bse21I CCTNAGG 1 cut(s) 639
Bse8I GATNNNNATC 1 cut(s) 60
BseBI CCWGG 1 cut(s) 145
BseDI CCNNGG 1 cut(s) 143
BseGI GGATG 2 cut(s) 392, 443
BseJI GATNNNNATC 1 cut(s) 60
BseLI CCNNNNNNNGG 1 cut(s) 144
BseMII CTCAG 3 cut(s) 197, 425, 630
BseNI ACTGG 2 cut(s) 138, 584
BseRI GAGGAG 4 cut(s) 520, 523, 526, 529
BseSI GKGCMC 1 cut(s) 678
BseXI GCAGC 1 cut(s) 162
BseYI CCCAGC 1 cut(s) 523
BshNI GGYRCC 1 cut(s) 763
BsiSI CCGG 1 cut(s) 320
BslFI GGGAC 2 cut(s) 126, 685
BslI CCNNNNNNNGG 1 cut(s) 144
BsmFI GGGAC 2 cut(s) 126, 685
Bsp1286I GDGCHC 1 cut(s) 678
Bsp143I GATC 4 cut(s) 16, 127, 613, 657
BspACI CCGC 3 cut(s) 105, 317, 729
BspCNI CTCAG 3 cut(s) 196, 424, 631
BspHI TCATGA 1 cut(s) 630
BspLI GGNNCC 2 cut(s) 615, 765
BspPI GGATC 3 cut(s) 122, 608, 621
BspT107I GGYRCC 1 cut(s) 763
BsrBI CCGCTC 1 cut(s) 731
BsrFI RCCGGY 1 cut(s) 319
BsrI ACTGG 2 cut(s) 138, 584
BssAI RCCGGY 1 cut(s) 319
BssECI CCNNGG 1 cut(s) 143
BssMI GATC 4 cut(s) 16, 127, 613, 657
BssSI CACGAG 1 cut(s) 195
Bst2BI CACGAG 1 cut(s) 195
Bst2UI CCWGG 1 cut(s) 145
Bst4CI ACNGT 1 cut(s) 92
Bst6I CTCTTC 1 cut(s) 603
BstDEI CTNAG 3 cut(s) 183, 411, 639
BstF5I GGATG 2 cut(s) 392, 443
BstHHI GCGC 1 cut(s) 150
BstKTI GATC 4 cut(s) 19, 130, 616, 660
BstMBI GATC 4 cut(s) 16, 127, 613, 657
BstMWI GCNNNNNNNGC 1 cut(s) 412
BstNI CCWGG 1 cut(s) 145
BstSCI CCNGG 1 cut(s) 143
BstSLI GKGCMC 1 cut(s) 678
BstV1I GCAGC 1 cut(s) 162
BstX2I RGATCY 1 cut(s) 613
BstYI RGATCY 1 cut(s) 613
Bsu36I CCTNAGG 1 cut(s) 639
BtgZI GCGATG 1 cut(s) 40
BtsCI GGATG 2 cut(s) 392, 443
CciI TCATGA 1 cut(s) 630
CfoI GCGC 1 cut(s) 150
Cfr10I RCCGGY 1 cut(s) 319
Csp6I GTAC 2 cut(s) 187, 764
CviAII CATG 2 cut(s) 6, 631
CviJI RGCY 9 cut(s) 52, 153, 181, 406, 415, 493, 527, 593, 653
CviKI_1 RGCY 9 cut(s) 52, 153, 181, 406, 415, 493, 527, 593, 653
CviQI GTAC 2 cut(s) 187, 764
DdeI CTNAG 3 cut(s) 183, 411, 639
DpnI GATC 4 cut(s) 18, 129, 615, 659
DpnII GATC 4 cut(s) 16, 127, 613, 657
Eam1104I CTCTTC 1 cut(s) 603
EarI CTCTTC 1 cut(s) 603
Eco32I GATATC 1 cut(s) 646
Eco57I CTGAAG 1 cut(s) 765
Eco81I CCTNAGG 1 cut(s) 639
EcoRII CCWGG 1 cut(s) 143
EcoRV GATATC 1 cut(s) 646
FaeI CATG 2 cut(s) 9, 634
FaiI YATR 6 cut(s) 7, 120, 126, 597, 632, 739
FalI AAGNNNNNCTT 2 cut(s) 707, 739
FaqI GGGAC 2 cut(s) 126, 685
FatI CATG 2 cut(s) 5, 630
FbaI TGATCA 1 cut(s) 657
FblI GTMKAC 1 cut(s) 504
Fnu4HI GCNGC 2 cut(s) 151, 729
FokI GGATG 2 cut(s) 379, 430
Fsp4HI GCNGC 2 cut(s) 151, 729
GlaI GCGC 1 cut(s) 149
GluI GCNGC 2 cut(s) 151, 729
GsaI CCCAGC 1 cut(s) 527
HapII CCGG 1 cut(s) 320
HhaI GCGC 1 cut(s) 150
Hin1II CATG 2 cut(s) 9, 634
Hin6I GCGC 1 cut(s) 148
HinP1I GCGC 1 cut(s) 148
HincII GTYRAC 1 cut(s) 566
HindII GTYRAC 1 cut(s) 566
HinfI GANTC 2 cut(s) 634, 688
HpaII CCGG 1 cut(s) 320
HphI GGTGA 1 cut(s) 225
Hpy166II GTNNAC 2 cut(s) 505, 566
Hpy188I TCNGA 3 cut(s) 46, 687, 745
Hpy188III TCNNGA 4 cut(s) 197, 631, 638, 661
Hpy8I GTNNAC 2 cut(s) 505, 566
HpyAV CCTTC 3 cut(s) 41, 122, 553
HpyCH4III ACNGT 1 cut(s) 92
HpyF10VI GCNNNNNNNGC 1 cut(s) 412
HpyF3I CTNAG 3 cut(s) 183, 411, 639
Hsp92II CATG 2 cut(s) 9, 634
HspAI GCGC 1 cut(s) 148
KpnI GGTACC 1 cut(s) 767
Ksp22I TGATCA 1 cut(s) 657
Kzo9I GATC 4 cut(s) 16, 127, 613, 657
LmnI GCTCC 1 cut(s) 498
Lsp1109I GCAGC 1 cut(s) 162
LweI GCATC 2 cut(s) 17, 296
MaeIII GTNAC 3 cut(s) 77, 322, 556
MalI GATC 4 cut(s) 18, 129, 615, 659
MbiI CCGCTC 1 cut(s) 731
MboI GATC 4 cut(s) 16, 127, 613, 657
MflI RGATCY 1 cut(s) 613
MhlI GDGCHC 1 cut(s) 678
MluCI AATT 4 cut(s) 208, 427, 513, 669
MroXI GAANNNNTTC 1 cut(s) 70
MseI TTAA 2 cut(s) 207, 378
MspA1I CMGCKG 1 cut(s) 107
MspI CCGG 1 cut(s) 320
MspR9I CCNGG 1 cut(s) 145
MvaI CCWGG 1 cut(s) 145
MwoI GCNNNNNNNGC 1 cut(s) 412
NdeII GATC 4 cut(s) 16, 127, 613, 657
NlaIII CATG 2 cut(s) 9, 634
NlaIV GGNNCC 2 cut(s) 615, 765
NmuCI GTSAC 1 cut(s) 322
PagI TCATGA 1 cut(s) 630
PdmI GAANNNNTTC 1 cut(s) 70
PfeI GAWTC 2 cut(s) 634, 688
PkrI GCNGC 2 cut(s) 152, 730
Psp6I CCWGG 1 cut(s) 143
PspFI CCCAGC 1 cut(s) 523
PspGI CCWGG 1 cut(s) 143
PspN4I GGNNCC 2 cut(s) 615, 765
PsuI RGATCY 1 cut(s) 613
RsaI GTAC 2 cut(s) 188, 765
RsaNI GTAC 2 cut(s) 187, 764
SaqAI TTAA 2 cut(s) 207, 378
SatI GCNGC 2 cut(s) 151, 729
Sau3AI GATC 4 cut(s) 16, 127, 613, 657
ScaI AGTACT 1 cut(s) 188
ScrFI CCNGG 1 cut(s) 145
SduI GDGCHC 1 cut(s) 678
SetI ASST 9 cut(s) 114, 238, 265, 412, 460, 495, 595, 625, 765
SfaNI GCATC 2 cut(s) 17, 296
Sse9I AATT 4 cut(s) 208, 427, 513, 669
SsiI CCGC 3 cut(s) 105, 317, 729
SspI AATATT 1 cut(s) 296
StyD4I CCNGG 1 cut(s) 143
TaaI ACNGT 1 cut(s) 92
TaqI TCGA 1 cut(s) 64
TasI AATT 4 cut(s) 208, 427, 513, 669
TatI WGTACW 1 cut(s) 186
TauI GCSGC 1 cut(s) 731
TfiI GAWTC 2 cut(s) 634, 688
Tru1I TTAA 2 cut(s) 207, 378
Tru9I TTAA 2 cut(s) 207, 378
TseFI GTSAC 1 cut(s) 322
TseI GCWGC 1 cut(s) 150
Tsp45I GTSAC 1 cut(s) 322
TspDTI ATGAA 9 cut(s) 50, 162, 209, 291, 330, 336, 378, 462, 619
XmiI GTMKAC 1 cut(s) 504
XmnI GAANNNNTTC 1 cut(s) 70
ZrmI AGTACT 1 cut(s) 188
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.