Rh4AG088100

RNA helicase SDE3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4A
OG0000595
Physical Location & Seq
Forward (+)
18371422 .. 18388653
17232 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4AG088100.1

Sequence Viewer

Length: 438 bp
ATGTCGGCTTATCTCAAATTCTTTAAGCCGATTCTATCGCCCACCTTGGGGAAGAAGAATTATGTATGGGTTGAGAAAGATTCATTACCTATATTCACAATTCCTGAGAATGTCAAAGATTTGATCAAGAACGACATTGTGCCCAAGAAATGGAGTGATTACCATTTGGAGAACATGGTATTGGAGTTGCGAGAAGAAGAAATTTATAATTATAAAACTCAAGAAAAGGAAAGAAAAACTTTTGTTGCATTTGCGATTGGTTCTGTTCCTGAGAGACGACCTTTCCTCTTATCGAGGGACCTGGTGTATGTACGACCATCAGATAGGGATACTGAGCACTTCCAGGTAAACTCTGAACAACTATTAACATTTGCTGTTTTCTGTCACTTAGTTTTGCTTCCAGATGAAGACAGGGATAACTATGTGGATGTCCCTTAA
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

145

Amino Acids

17.21

Weight (kDa)

5.43

Isoelectric Point (pI)

45.56

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) 207, 213
AccB7I CCANNNNNTGG 1 cut(s) 150
AcsI RAATTY 2 cut(s) 17, 201
AfaI GTAC 1 cut(s) 312
AfiI CCNNNNNNNGG 3 cut(s) 47, 48, 150
AjnI CCWGG 2 cut(s) 300, 342
AjuI GAANNNNNNNTTGG 2 cut(s) 164, 196
Alw21I GWGCWC 1 cut(s) 339
Alw26I GTCTC 1 cut(s) 268
ApoI RAATTY 2 cut(s) 17, 201
AspS9I GGNCC 1 cut(s) 298
AvaII GGWCC 1 cut(s) 298
BaeGI GKGCMC 1 cut(s) 144
BbsI GAAGAC 1 cut(s) 414
Bbv12I GWGCWC 1 cut(s) 339
BccI CCATC 1 cut(s) 325
BciT130I CCWGG 2 cut(s) 302, 344
BciVI GTATCC 1 cut(s) 322
BclI TGATCA 1 cut(s) 123
BcoDI GTCTC 1 cut(s) 268
BfuI GTATCC 1 cut(s) 322
Bme1390I CCNGG 2 cut(s) 302, 344
Bme18I GGWCC 1 cut(s) 298
BmgT120I GGNCC 1 cut(s) 298
BmiI GGNNCC 1 cut(s) 299
BmrFI CCNGG 2 cut(s) 302, 344
BpiI GAAGAC 1 cut(s) 414
BpuEI CTTGAG 1 cut(s) 204
BsaJI CCNNGG 1 cut(s) 45
Bsc4I CCNNNNNNNGG 3 cut(s) 47, 48, 150
BseBI CCWGG 2 cut(s) 302, 344
BseDI CCNNGG 1 cut(s) 45
BseGI GGATG 1 cut(s) 433
BseLI CCNNNNNNNGG 3 cut(s) 47, 48, 150
BseMII CTCAG 3 cut(s) 96, 261, 324
BseSI GKGCMC 1 cut(s) 144
BsiHKAI GWGCWC 1 cut(s) 339
BslFI GGGAC 2 cut(s) 311, 416
BslI CCNNNNNNNGG 3 cut(s) 47, 48, 150
BsmAI GTCTC 1 cut(s) 268
BsmBI CGTCTC 1 cut(s) 268
BsmFI GGGAC 2 cut(s) 311, 416
Bsp1286I GDGCHC 2 cut(s) 144, 339
Bsp143I GATC 1 cut(s) 123
BspCNI CTCAG 3 cut(s) 97, 262, 325
BspLI GGNNCC 1 cut(s) 299
BssECI CCNNGG 1 cut(s) 45
BssMI GATC 1 cut(s) 123
BssT1I CCWWGG 1 cut(s) 45
Bst2UI CCWGG 2 cut(s) 302, 344
BstDEI CTNAG 4 cut(s) 105, 270, 333, 388
BstF5I GGATG 1 cut(s) 433
BstKTI GATC 1 cut(s) 126
BstMAI GTCTC 1 cut(s) 268
BstMBI GATC 1 cut(s) 123
BstNI CCWGG 2 cut(s) 302, 344
BstSCI CCNGG 2 cut(s) 300, 342
BstSLI GKGCMC 1 cut(s) 144
BstV2I GAAGAC 1 cut(s) 414
BsuI GTATCC 1 cut(s) 322
BtsCI GGATG 1 cut(s) 433
Cfr13I GGNCC 1 cut(s) 298
CsiI ACCWGGT 1 cut(s) 300
Csp6I GTAC 1 cut(s) 311
CviAII CATG 1 cut(s) 175
CviJI RGCY 2 cut(s) 8, 28
CviKI_1 RGCY 2 cut(s) 8, 28
CviQI GTAC 1 cut(s) 311
DdeI CTNAG 4 cut(s) 105, 270, 333, 388
DpnI GATC 1 cut(s) 125
DpnII GATC 1 cut(s) 123
Eco130I CCWWGG 1 cut(s) 45
Eco47I GGWCC 1 cut(s) 298
EcoO109I RGGNCCY 1 cut(s) 298
EcoRII CCWGG 2 cut(s) 300, 342
EcoT14I CCWWGG 1 cut(s) 45
ErhI CCWWGG 1 cut(s) 45
Esp3I CGTCTC 1 cut(s) 268
FaeI CATG 1 cut(s) 178
FaiI YATR 8 cut(s) 63, 67, 92, 176, 207, 213, 309, 423
FalI AAGNNNNNCTT 2 cut(s) 223, 255
FaqI GGGAC 2 cut(s) 311, 416
FatI CATG 1 cut(s) 174
FbaI TGATCA 1 cut(s) 123
Hin1II CATG 1 cut(s) 178
HinfI GANTC 2 cut(s) 31, 80
Hpy166II GTNNAC 1 cut(s) 349
Hpy188I TCNGA 2 cut(s) 322, 355
Hpy188III TCNNGA 5 cut(s) 104, 127, 221, 269, 401
Hpy8I GTNNAC 1 cut(s) 349
HpyCH4V TGCA 1 cut(s) 248
HpyF3I CTNAG 4 cut(s) 105, 270, 333, 388
Hsp92II CATG 1 cut(s) 178
Ksp22I TGATCA 1 cut(s) 123
Kzo9I GATC 1 cut(s) 123
LpnPI CCDG 8 cut(s) 117, 282, 287, 314, 329, 356, 397, 414
MabI ACCWGGT 1 cut(s) 300
MaeIII GTNAC 1 cut(s) 383
MalI GATC 1 cut(s) 125
MboI GATC 1 cut(s) 123
MboII GAAGA 5 cut(s) 64, 67, 206, 209, 419
MhlI GDGCHC 2 cut(s) 144, 339
MluCI AATT 5 cut(s) 17, 58, 99, 201, 208
MnlI CCTC 2 cut(s) 288, 296
MseI TTAA 3 cut(s) 24, 365, 436
MspR9I CCNGG 2 cut(s) 302, 344
MvaI CCWGG 2 cut(s) 302, 344
NdeII GATC 1 cut(s) 123
NlaIII CATG 1 cut(s) 178
NlaIV GGNNCC 1 cut(s) 299
NmuCI GTSAC 1 cut(s) 383
PfeI GAWTC 2 cut(s) 31, 80
PflMI CCANNNNNTGG 1 cut(s) 150
PpuMI RGGWCCY 1 cut(s) 298
PsiI TTATAA 2 cut(s) 207, 213
Psp5II RGGWCCY 1 cut(s) 298
Psp6I CCWGG 2 cut(s) 300, 342
PspGI CCWGG 2 cut(s) 300, 342
PspN4I GGNNCC 1 cut(s) 299
PspPI GGNCC 1 cut(s) 298
PspPPI RGGWCCY 1 cut(s) 298
RsaI GTAC 1 cut(s) 312
RsaNI GTAC 1 cut(s) 311
SaqAI TTAA 3 cut(s) 24, 365, 436
Sau3AI GATC 1 cut(s) 123
Sau96I GGNCC 1 cut(s) 298
ScrFI CCNGG 2 cut(s) 302, 344
SduI GDGCHC 2 cut(s) 144, 339
SetI ASST 5 cut(s) 47, 91, 283, 303, 348
SexAI ACCWGGT 1 cut(s) 300
SinI GGWCC 1 cut(s) 298
SmlI CTYRAG 1 cut(s) 219
SmoI CTYRAG 1 cut(s) 219
Sse9I AATT 5 cut(s) 17, 58, 99, 201, 208
StyD4I CCNGG 2 cut(s) 300, 342
StyI CCWWGG 1 cut(s) 45
TaqI TCGA 1 cut(s) 293
TasI AATT 5 cut(s) 17, 58, 99, 201, 208
TfiI GAWTC 2 cut(s) 31, 80
Tru1I TTAA 3 cut(s) 24, 365, 436
Tru9I TTAA 3 cut(s) 24, 365, 436
TseFI GTSAC 1 cut(s) 383
Tsp45I GTSAC 1 cut(s) 383
TspDTI ATGAA 2 cut(s) 72, 420
Van91I CCANNNNNTGG 1 cut(s) 150
VpaK11BI GGWCC 1 cut(s) 298
XapI RAATTY 2 cut(s) 17, 201
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.