MD16G1243100.v1.1

RNA helicase SDE3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr16
OG0000595
Physical Location & Seq
Forward (+)
26385920 .. 26386565
646 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1243100.v1.1.491

Sequence Viewer

Length: 348 bp
ATGTTTAAGCCAGCTCTATCTCACGCCTCTTCAGATGTATTAGATCAGATGGGGAAGAAAAGTTATGTATGGGTTGAGAAGGATTCATTACCTATCTTCGCAATTCCTGACAATATAAAAGATTTGATCAAAAATGACATTGCGCCGAAGGTTCTAAACCAGCCTCTGTCTCCCGCGACTTATAAGGATTATTTCGCTGCTCTCTTATATGCTGAAGAGTTCTTCTATGAGAAATGGACTCATTTCGATTTGGAGAATGTCACTGTAGAGTTGCAGAGAGCAGCAGTTTATAAAAAACCAGACACGGAACAGAAACCAGACAGGGAAGAGAACCTTTGTAGCATTTGA
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

116

Amino Acids

13.32

Weight (kDa)

4.97

Isoelectric Point (pI)

31.04

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 2 cut(s) 183, 291
AccII CGCG 1 cut(s) 176
AciI CCGC 1 cut(s) 174
AcuI CTGAAG 2 cut(s) 15, 234
AluBI AGCT 1 cut(s) 14
AluI AGCT 1 cut(s) 14
Alw26I GTCTC 1 cut(s) 174
AlwNI CAGNNNCTG 1 cut(s) 166
ApeKI GCWGC 2 cut(s) 197, 281
AspLEI GCGC 1 cut(s) 145
BbvI GCAGC 2 cut(s) 184, 293
BccI CCATC 1 cut(s) 43
BclI TGATCA 1 cut(s) 126
BcoDI GTCTC 1 cut(s) 174
BfmI CTRYAG 1 cut(s) 264
BisI GCNGC 2 cut(s) 198, 282
BlsI GCNGC 2 cut(s) 199, 283
Bse3DI GCAATG 1 cut(s) 138
BseMI GCAATG 1 cut(s) 138
BseXI GCAGC 2 cut(s) 184, 293
Bsh1236I CGCG 1 cut(s) 176
BsmAI GTCTC 1 cut(s) 174
Bsp143I GATC 2 cut(s) 43, 126
BspACI CCGC 1 cut(s) 174
BspFNI CGCG 1 cut(s) 176
BsrDI GCAATG 1 cut(s) 138
BssMI GATC 2 cut(s) 43, 126
Bst4CI ACNGT 1 cut(s) 265
Bst6I CTCTTC 3 cut(s) 34, 210, 321
BstC8I GCNNGC 1 cut(s) 12
BstFNI CGCG 1 cut(s) 176
BstHHI GCGC 1 cut(s) 145
BstKTI GATC 2 cut(s) 46, 129
BstMAI GTCTC 1 cut(s) 174
BstMBI GATC 2 cut(s) 43, 126
BstSFI CTRYAG 1 cut(s) 264
BstUI CGCG 1 cut(s) 176
BstV1I GCAGC 2 cut(s) 184, 293
BtsIMutI CAGTG 1 cut(s) 261
Cac8I GCNNGC 1 cut(s) 12
CaiI CAGNNNCTG 1 cut(s) 166
CfoI GCGC 1 cut(s) 145
CviJI RGCY 3 cut(s) 10, 14, 163
CviKI_1 RGCY 3 cut(s) 10, 14, 163
DpnI GATC 2 cut(s) 45, 128
DpnII GATC 2 cut(s) 43, 126
Eam1104I CTCTTC 3 cut(s) 34, 210, 321
EarI CTCTTC 3 cut(s) 34, 210, 321
Eco57I CTGAAG 2 cut(s) 15, 234
FaiI YATR 8 cut(s) 66, 70, 116, 183, 208, 210, 228, 291
FalI AAGNNNNNCTT 1 cut(s) 318
FauI CCCGC 1 cut(s) 181
FbaI TGATCA 1 cut(s) 126
Fnu4HI GCNGC 2 cut(s) 198, 282
Fsp4HI GCNGC 2 cut(s) 198, 282
GlaI GCGC 1 cut(s) 144
GluI GCNGC 2 cut(s) 198, 282
HhaI GCGC 1 cut(s) 145
Hin6I GCGC 1 cut(s) 143
HinP1I GCGC 1 cut(s) 143
HinfI GANTC 2 cut(s) 83, 238
Hpy188I TCNGA 2 cut(s) 34, 48
Hpy188III TCNNGA 1 cut(s) 107
HpyAV CCTTC 2 cut(s) 73, 142
HpyCH4III ACNGT 1 cut(s) 265
HpyCH4V TGCA 1 cut(s) 274
HspAI GCGC 1 cut(s) 143
Ksp22I TGATCA 1 cut(s) 126
Kzo9I GATC 2 cut(s) 43, 126
LpnPI CCDG 6 cut(s) 24, 120, 173, 307, 312, 330
Lsp1109I GCAGC 2 cut(s) 184, 293
MaeIII GTNAC 1 cut(s) 259
MalI GATC 2 cut(s) 45, 128
MboI GATC 2 cut(s) 43, 126
MboII GAAGA 6 cut(s) 21, 67, 88, 214, 227, 338
MluCI AATT 1 cut(s) 102
MlyI GAGTC 1 cut(s) 232
MnlI CCTC 2 cut(s) 37, 174
MseI TTAA 1 cut(s) 6
MvnI CGCG 1 cut(s) 176
NdeII GATC 2 cut(s) 43, 126
NmuCI GTSAC 1 cut(s) 259
PfeI GAWTC 1 cut(s) 83
PkrI GCNGC 2 cut(s) 199, 283
PleI GAGTC 1 cut(s) 232
PpsI GAGTC 1 cut(s) 232
PsiI TTATAA 2 cut(s) 183, 291
PstNI CAGNNNCTG 1 cut(s) 166
SaqAI TTAA 1 cut(s) 6
SatI GCNGC 2 cut(s) 198, 282
Sau3AI GATC 2 cut(s) 43, 126
SchI GAGTC 1 cut(s) 232
SetI ASST 4 cut(s) 16, 94, 153, 336
SfcI CTRYAG 1 cut(s) 264
Sse9I AATT 1 cut(s) 102
SsiI CCGC 1 cut(s) 174
TaaI ACNGT 1 cut(s) 265
TaqI TCGA 1 cut(s) 246
TasI AATT 1 cut(s) 102
TfiI GAWTC 1 cut(s) 83
Tru1I TTAA 1 cut(s) 6
Tru9I TTAA 1 cut(s) 6
TscAI CASTG 1 cut(s) 268
TseFI GTSAC 1 cut(s) 259
TseI GCWGC 2 cut(s) 197, 281
Tsp45I GTSAC 1 cut(s) 259
TspDTI ATGAA 1 cut(s) 75
TspGWI ACGGA 1 cut(s) 320
TspRI CASTG 1 cut(s) 268
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.