Rroxscaffold_4G00329800

RNA helicase SDE3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000595
Physical Location & Seq
Forward (+)
63128205 .. 63128932
728 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00329800.1

Sequence Viewer

Length: 213 bp
ATGCGCCCCTTCAACAGCACATGCGACGAGTTGACGATTAGTTTGAAGAACATGATTCCAGACCGTGACATTTATCAAACCAATGCTGCATTTCGAGAGGTAGATGAGCTGTCACCCCACCGCCTTGAGGCACTCGCCTTGCGAGGCACTAATAAGACGCCTTCTCCTTCACTTTCGCATTTGAAAACATTGATGAGAGCGCAGCTGTTATAG
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

70

Amino Acids

7.97

Weight (kDa)

7.96

Isoelectric Point (pI)

26.29

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)
AciI CCGC 1 cut(s) 121
AcyI GRCGYC 1 cut(s) 158
AfiI CCNNNNNNNGG 1 cut(s) 127
AgsI TTSAA 3 cut(s) 13, 46, 184
AluBI AGCT 2 cut(s) 109, 205
AluI AGCT 2 cut(s) 109, 205
ApeKI GCWGC 2 cut(s) 86, 202
ArsI GACNNNNNNTTYG 2 cut(s) 25, 57
AspLEI GCGC 2 cut(s) 6, 202
AsuHPI GGTGA 1 cut(s) 105
BbvI GCAGC 1 cut(s) 73
BisI GCNGC 2 cut(s) 87, 203
BlsI GCNGC 2 cut(s) 88, 204
BpuEI CTTGAG 1 cut(s) 146
BsaHI GRCGYC 1 cut(s) 158
BsaXI ACNNNNNCTCC 2 cut(s) 148, 178
Bsc4I CCNNNNNNNGG 1 cut(s) 127
BseLI CCNNNNNNNGG 1 cut(s) 127
BseXI GCAGC 1 cut(s) 73
BslI CCNNNNNNNGG 1 cut(s) 127
BspACI CCGC 1 cut(s) 121
BssNI GRCGYC 1 cut(s) 158
Bst4CI ACNGT 1 cut(s) 65
BstACI GRCGYC 1 cut(s) 158
BstHHI GCGC 2 cut(s) 6, 202
BstNSI RCATGY 1 cut(s) 24
BstV1I GCAGC 1 cut(s) 73
CfoI GCGC 2 cut(s) 6, 202
CseI GACGC 1 cut(s) 166
CviAII CATG 2 cut(s) 21, 52
CviJI RGCY 2 cut(s) 109, 205
CviKI_1 RGCY 2 cut(s) 109, 205
FaeI CATG 2 cut(s) 24, 55
FaiI YATR 3 cut(s) 22, 53, 211
FatI CATG 2 cut(s) 20, 51
Fnu4HI GCNGC 2 cut(s) 87, 203
Fsp4HI GCNGC 2 cut(s) 87, 203
GlaI GCGC 2 cut(s) 5, 201
GluI GCNGC 2 cut(s) 87, 203
HgaI GACGC 1 cut(s) 166
HhaI GCGC 2 cut(s) 6, 202
Hin1I GRCGYC 1 cut(s) 158
Hin1II CATG 2 cut(s) 24, 55
Hin6I GCGC 2 cut(s) 4, 200
HinP1I GCGC 2 cut(s) 4, 200
HincII GTYRAC 1 cut(s) 33
HindII GTYRAC 1 cut(s) 33
HinfI GANTC 1 cut(s) 55
HphI GGTGA 1 cut(s) 105
Hpy166II GTNNAC 1 cut(s) 33
Hpy188III TCNNGA 2 cut(s) 59, 95
Hpy8I GTNNAC 1 cut(s) 33
Hpy99I CGWCG 1 cut(s) 29
HpyAV CCTTC 3 cut(s) 19, 171, 177
HpyCH4III ACNGT 1 cut(s) 65
HpyCH4V TGCA 1 cut(s) 89
Hsp92I GRCGYC 1 cut(s) 158
Hsp92II CATG 2 cut(s) 24, 55
HspAI GCGC 2 cut(s) 4, 200
LpnPI CCDG 1 cut(s) 72
Lsp1109I GCAGC 1 cut(s) 73
MaeIII GTNAC 2 cut(s) 65, 111
MboII GAAGA 1 cut(s) 58
MnlI CCTC 3 cut(s) 91, 121, 137
MspA1I CMGCKG 1 cut(s) 205
NlaIII CATG 2 cut(s) 24, 55
NmuCI GTSAC 2 cut(s) 65, 111
NspI RCATGY 1 cut(s) 24
PfeI GAWTC 1 cut(s) 55
PkrI GCNGC 2 cut(s) 88, 204
PvuII CAGCTG 1 cut(s) 205
SatI GCNGC 2 cut(s) 87, 203
SetI ASST 3 cut(s) 102, 111, 207
SmlI CTYRAG 1 cut(s) 125
SmoI CTYRAG 1 cut(s) 125
SsiI CCGC 1 cut(s) 121
TaaI ACNGT 1 cut(s) 65
TaqI TCGA 1 cut(s) 94
TfiI GAWTC 1 cut(s) 55
TseFI GTSAC 2 cut(s) 65, 111
TseI GCWGC 2 cut(s) 86, 202
Tsp45I GTSAC 2 cut(s) 65, 111
XceI RCATGY 1 cut(s) 24
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.