pycom16g20390

RNA helicase SDE3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr16
OG0000595
Physical Location & Seq
Forward (+)
18154077 .. 18154421
345 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom16g20390.1

Sequence Viewer

Length: 345 bp
ATGTCTTCGTTTAAACCTCAGAAATCTTCTTCTCTCAATGCATCATCTAAGTTTTCTCCTAAACTATCTACATCCTCCTCTAACCCACCTCAGGCATCTGCTTCGAAACCATGTCCATCTTCCTCTACTGGACCTCCCGTATCTTCCACAAAGCTCCGTCCAATGTTTAAGCCAGTTTTATCCCACGCCTCTTCAGATGTGTTAGATCAGGTGGGAAAGAAAAGTTATGTATGGCTTGAGAAGGATTCATTACCTATATTCGCAATTCCTGACAATATGAAAGATTTGATCAAGAATGACATTGCGCCGAAAGTTCTAAACAAGCCCGTCTCCCGCTACTTATAA
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

115

Amino Acids

12.29

Weight (kDa)

9.9

Isoelectric Point (pI)

48.71

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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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) 343
AciI CCGC 1 cut(s) 334
AcuI CTGAAG 1 cut(s) 177
AfiI CCNNNNNNNGG 1 cut(s) 91
AluBI AGCT 1 cut(s) 154
AluI AGCT 1 cut(s) 154
Alw26I GTCTC 1 cut(s) 334
AspLEI GCGC 1 cut(s) 307
AspS9I GGNCC 1 cut(s) 131
AsuII TTCGAA 1 cut(s) 104
AvaII GGWCC 1 cut(s) 131
AxyI CCTNAGG 1 cut(s) 90
BccI CCATC 1 cut(s) 124
BcgI CGANNNNNNTGC 2 cut(s) 84, 118
BclI TGATCA 1 cut(s) 288
BcoDI GTCTC 1 cut(s) 334
Bme18I GGWCC 1 cut(s) 131
BmgT120I GGNCC 1 cut(s) 131
BmsI GCATC 2 cut(s) 50, 104
Bpu14I TTCGAA 1 cut(s) 104
BpuEI CTTGAG 1 cut(s) 257
BsaXI ACNNNNNCTCC 2 cut(s) 118, 148
Bsc4I CCNNNNNNNGG 1 cut(s) 91
Bse1I ACTGG 2 cut(s) 133, 173
Bse21I CCTNAGG 1 cut(s) 90
Bse3DI GCAATG 1 cut(s) 300
BseGI GGATG 1 cut(s) 71
BseLI CCNNNNNNNGG 1 cut(s) 91
BseMI GCAATG 1 cut(s) 300
BseMII CTCAG 2 cut(s) 32, 104
BseNI ACTGG 2 cut(s) 133, 173
BseRI GAGGAG 1 cut(s) 67
BslI CCNNNNNNNGG 1 cut(s) 91
BsmAI GTCTC 1 cut(s) 334
BsmBI CGTCTC 1 cut(s) 334
Bsp119I TTCGAA 1 cut(s) 104
Bsp143I GATC 2 cut(s) 205, 288
BspACI CCGC 1 cut(s) 334
BspCNI CTCAG 2 cut(s) 31, 103
BspT104I TTCGAA 1 cut(s) 104
BsrDI GCAATG 1 cut(s) 300
BsrI ACTGG 2 cut(s) 133, 173
BssMI GATC 2 cut(s) 205, 288
Bst6I CTCTTC 1 cut(s) 196
BstBI TTCGAA 1 cut(s) 104
BstDEI CTNAG 3 cut(s) 18, 48, 90
BstF5I GGATG 1 cut(s) 71
BstHHI GCGC 1 cut(s) 307
BstKTI GATC 2 cut(s) 208, 291
BstMAI GTCTC 1 cut(s) 334
BstMBI GATC 2 cut(s) 205, 288
Bsu36I CCTNAGG 1 cut(s) 90
BtsCI GGATG 1 cut(s) 71
CfoI GCGC 1 cut(s) 307
Cfr13I GGNCC 1 cut(s) 131
CviAII CATG 1 cut(s) 111
CviJI RGCY 4 cut(s) 154, 172, 235, 325
CviKI_1 RGCY 4 cut(s) 154, 172, 235, 325
DdeI CTNAG 3 cut(s) 18, 48, 90
DpnI GATC 2 cut(s) 207, 290
DpnII GATC 2 cut(s) 205, 288
DraI TTTAAA 1 cut(s) 13
Eam1104I CTCTTC 1 cut(s) 196
EarI CTCTTC 1 cut(s) 196
Eco47I GGWCC 1 cut(s) 131
Eco57I CTGAAG 1 cut(s) 177
Eco81I CCTNAGG 1 cut(s) 90
EcoT22I ATGCAT 1 cut(s) 43
Esp3I CGTCTC 1 cut(s) 334
FaeI CATG 1 cut(s) 114
FaiI YATR 6 cut(s) 112, 228, 232, 257, 278, 343
FatI CATG 1 cut(s) 110
FauI CCCGC 1 cut(s) 341
FbaI TGATCA 1 cut(s) 288
FokI GGATG 1 cut(s) 58
GlaI GCGC 1 cut(s) 306
HhaI GCGC 1 cut(s) 307
Hin1II CATG 1 cut(s) 114
Hin6I GCGC 1 cut(s) 305
HinP1I GCGC 1 cut(s) 305
HinfI GANTC 1 cut(s) 245
Hpy188I TCNGA 2 cut(s) 21, 196
Hpy188III TCNNGA 2 cut(s) 269, 292
HpyAV CCTTC 1 cut(s) 235
HpyCH4V TGCA 1 cut(s) 41
HpyF3I CTNAG 3 cut(s) 18, 48, 90
Hsp92II CATG 1 cut(s) 114
HspAI GCGC 1 cut(s) 305
Ksp22I TGATCA 1 cut(s) 288
Kzo9I GATC 2 cut(s) 205, 288
LmnI GCTCC 1 cut(s) 159
LpnPI CCDG 5 cut(s) 77, 114, 186, 194, 282
LweI GCATC 2 cut(s) 50, 104
MalI GATC 2 cut(s) 207, 290
MboI GATC 2 cut(s) 205, 288
MboII GAAGA 5 cut(s) 18, 21, 111, 135, 183
MluCI AATT 1 cut(s) 264
MnlI CCTC 7 cut(s) 27, 85, 88, 99, 133, 144, 199
Mph1103I ATGCAT 1 cut(s) 43
MseI TTAA 2 cut(s) 12, 168
MssI GTTTAAAC 1 cut(s) 13
NdeII GATC 2 cut(s) 205, 288
NlaIII CATG 1 cut(s) 114
NsiI ATGCAT 1 cut(s) 43
NspV TTCGAA 1 cut(s) 104
PfeI GAWTC 1 cut(s) 245
PmeI GTTTAAAC 1 cut(s) 13
PsiI TTATAA 1 cut(s) 343
PspPI GGNCC 1 cut(s) 131
SaqAI TTAA 2 cut(s) 12, 168
Sau3AI GATC 2 cut(s) 205, 288
Sau96I GGNCC 1 cut(s) 131
SetI ASST 6 cut(s) 19, 91, 136, 156, 213, 256
SfaNI GCATC 2 cut(s) 50, 104
SfuI TTCGAA 1 cut(s) 104
SinI GGWCC 1 cut(s) 131
SmlI CTYRAG 1 cut(s) 236
SmoI CTYRAG 1 cut(s) 236
Sse9I AATT 1 cut(s) 264
SsiI CCGC 1 cut(s) 334
TaqI TCGA 1 cut(s) 104
TasI AATT 1 cut(s) 264
TfiI GAWTC 1 cut(s) 245
Tru1I TTAA 2 cut(s) 12, 168
Tru9I TTAA 2 cut(s) 12, 168
TspDTI ATGAA 2 cut(s) 237, 293
TspGWI ACGGA 1 cut(s) 146
VpaK11BI GGWCC 1 cut(s) 131
Zsp2I ATGCAT 1 cut(s) 43
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.