Rroxscaffold_4G00330030

RNA helicase SDE3

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000595
Physical Location & Seq
Forward (+)
63388085 .. 63391384
3300 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00330030.1

Sequence Viewer

Length: 408 bp
ATGAAAGTTCAATTTATAAAAACCGGAAAAAAGGAAGCACTTTATAAAAATCGGAAAAAGGAAGATAAGGAAGACAAAACCTTTGTAGCATTTGAGCTTGATTGTGTTCCTGAGAAACGGCCATTCCTCTTATCAAGGGACTTGGTCCTTGCACGACCAGTGGGTAATAGTACTACTGAGCCCTTTAAGGGCCTCATCTATAAAGTTGTTGGGAGCAATCGCATTTTGGTTGAATTTGAGGATGACTTTCATTTTTATCATCATTCCAACAAAAAATATGATATCAGCTTCTCATTCAATAGAGTTTGTTTGAAAAGAGCCCACCATGCATATCTTAAGGATTCAGGGCTCACCACCTTATGTAGTAACTGGTCCGGGACTGTGAAGCCAAATCTTTTGCATATTTAA
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

135

Amino Acids

15.72

Weight (kDa)

9.44

Isoelectric Point (pI)

33.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
MOV-10_beta-barrel PF21634 20 - 97 6.6e-11 Helicase MOV-10, beta-barrel domain
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) 17, 45
AcoI YGGCCR 1 cut(s) 119
AcsI RAATTY 1 cut(s) 233
AfaI GTAC 1 cut(s) 172
AfiI CCNNNNNNNGG 1 cut(s) 188
AflII CTTAAG 1 cut(s) 335
AgsI TTSAA 4 cut(s) 11, 233, 298, 313
AluBI AGCT 2 cut(s) 97, 288
AluI AGCT 2 cut(s) 97, 288
AoxI GGCC 2 cut(s) 119, 190
ApoI RAATTY 1 cut(s) 233
ArsI GACNNNNNNTTYG 2 cut(s) 65, 97
AspS9I GGNCC 3 cut(s) 145, 190, 372
AsuC2I CCSGG 1 cut(s) 376
AsuHPI GGTGA 1 cut(s) 343
AvaII GGWCC 2 cut(s) 145, 372
BanII GRGCYC 3 cut(s) 183, 322, 351
BbsI GAAGAC 1 cut(s) 78
BceAI ACGGC 1 cut(s) 134
BcnI CCSGG 1 cut(s) 376
BfrI CTTAAG 1 cut(s) 335
BmcAI AGTACT 1 cut(s) 172
Bme1390I CCNGG 1 cut(s) 376
Bme18I GGWCC 2 cut(s) 145, 372
BmgT120I GGNCC 3 cut(s) 145, 190, 372
BmrFI CCNGG 1 cut(s) 376
BpiI GAAGAC 1 cut(s) 78
BpuMI CCSGG 1 cut(s) 376
BsaWI WCCGGW 1 cut(s) 23
Bsc4I CCNNNNNNNGG 1 cut(s) 188
Bse1I ACTGG 2 cut(s) 158, 374
BseGI GGATG 1 cut(s) 247
BseLI CCNNNNNNNGG 1 cut(s) 188
BseMII CTCAG 2 cut(s) 102, 168
BseNI ACTGG 2 cut(s) 158, 374
BshFI GGCC 2 cut(s) 121, 192
BsiSI CCGG 2 cut(s) 24, 375
BslFI GGGAC 2 cut(s) 152, 391
BslI CCNNNNNNNGG 1 cut(s) 188
BsmFI GGGAC 2 cut(s) 152, 391
BsnI GGCC 2 cut(s) 121, 192
Bsp1286I GDGCHC 3 cut(s) 183, 322, 351
BspANI GGCC 2 cut(s) 121, 192
BspCNI CTCAG 2 cut(s) 103, 169
BspTI CTTAAG 1 cut(s) 335
BsrI ACTGG 2 cut(s) 158, 374
Bst4CI ACNGT 1 cut(s) 382
BstAFI CTTAAG 1 cut(s) 335
BstDEI CTNAG 2 cut(s) 111, 177
BstF5I GGATG 1 cut(s) 247
BstMWI GCNNNNNNNGC 1 cut(s) 326
BstSCI CCNGG 1 cut(s) 374
BstV2I GAAGAC 1 cut(s) 78
BsuRI GGCC 2 cut(s) 121, 192
BtsCI GGATG 1 cut(s) 247
BtsIMutI CAGTG 1 cut(s) 165
Cfr13I GGNCC 3 cut(s) 145, 190, 372
Csp6I GTAC 1 cut(s) 171
CviAII CATG 1 cut(s) 326
CviJI RGCY 8 cut(s) 97, 121, 181, 192, 288, 320, 349, 388
CviKI_1 RGCY 8 cut(s) 97, 121, 181, 192, 288, 320, 349, 388
CviQI GTAC 1 cut(s) 171
DdeI CTNAG 2 cut(s) 111, 177
EaeI YGGCCR 1 cut(s) 119
Eco24I GRGCYC 3 cut(s) 183, 322, 351
Eco32I GATATC 1 cut(s) 283
Eco47I GGWCC 2 cut(s) 145, 372
EcoO109I RGGNCCY 1 cut(s) 190
EcoRV GATATC 1 cut(s) 283
EcoT22I ATGCAT 1 cut(s) 331
EcoT38I GRGCYC 3 cut(s) 183, 322, 351
FaeI CATG 1 cut(s) 329
FaiI YATR 8 cut(s) 17, 45, 201, 279, 327, 331, 361, 402
FaqI GGGAC 2 cut(s) 152, 391
FatI CATG 1 cut(s) 325
FokI GGATG 1 cut(s) 254
FriOI GRGCYC 3 cut(s) 183, 322, 351
HaeIII GGCC 2 cut(s) 121, 192
HapII CCGG 2 cut(s) 24, 375
Hin1II CATG 1 cut(s) 329
HinfI GANTC 1 cut(s) 341
HpaII CCGG 2 cut(s) 24, 375
HphI GGTGA 1 cut(s) 343
Hpy188I TCNGA 1 cut(s) 54
Hpy188III TCNNGA 1 cut(s) 110
HpyCH4III ACNGT 1 cut(s) 382
HpyCH4V TGCA 3 cut(s) 152, 329, 400
HpyF10VI GCNNNNNNNGC 1 cut(s) 326
HpyF3I CTNAG 2 cut(s) 111, 177
Hsp92II CATG 1 cut(s) 329
LmnI GCTCC 1 cut(s) 213
LpnPI CCDG 6 cut(s) 37, 123, 171, 330, 355, 388
MaeIII GTNAC 1 cut(s) 365
MboII GAAGA 2 cut(s) 74, 83
MhlI GDGCHC 3 cut(s) 183, 322, 351
MluCI AATT 2 cut(s) 11, 233
MmeI TCCRAC 1 cut(s) 291
MnlI CCTC 3 cut(s) 137, 203, 232
Mph1103I ATGCAT 1 cut(s) 331
MseI TTAA 3 cut(s) 186, 336, 406
MspCI CTTAAG 1 cut(s) 335
MspI CCGG 2 cut(s) 24, 375
MspR9I CCNGG 1 cut(s) 376
MwoI GCNNNNNNNGC 1 cut(s) 326
NciI CCSGG 1 cut(s) 376
NlaIII CATG 1 cut(s) 329
NsiI ATGCAT 1 cut(s) 331
PfeI GAWTC 1 cut(s) 341
PflFI GACNNNGTC 1 cut(s) 143
PfoI TCCNGGA 1 cut(s) 374
PsiI TTATAA 2 cut(s) 17, 45
PspPI GGNCC 3 cut(s) 145, 190, 372
PsyI GACNNNGTC 1 cut(s) 143
RsaI GTAC 1 cut(s) 172
RsaNI GTAC 1 cut(s) 171
SaqAI TTAA 3 cut(s) 186, 336, 406
Sau96I GGNCC 3 cut(s) 145, 190, 372
ScaI AGTACT 1 cut(s) 172
ScrFI CCNGG 1 cut(s) 376
SduI GDGCHC 3 cut(s) 183, 322, 351
SetI ASST 4 cut(s) 83, 99, 290, 359
SinI GGWCC 2 cut(s) 145, 372
SmlI CTYRAG 1 cut(s) 335
SmoI CTYRAG 1 cut(s) 335
Sse9I AATT 2 cut(s) 11, 233
StyD4I CCNGG 1 cut(s) 374
TaaI ACNGT 1 cut(s) 382
TasI AATT 2 cut(s) 11, 233
TatI WGTACW 1 cut(s) 170
TfiI GAWTC 1 cut(s) 341
Tru1I TTAA 3 cut(s) 186, 336, 406
Tru9I TTAA 3 cut(s) 186, 336, 406
TscAI CASTG 1 cut(s) 165
TspDTI ATGAA 2 cut(s) 17, 239
TspRI CASTG 1 cut(s) 165
Tth111I GACNNNGTC 1 cut(s) 143
Vha464I CTTAAG 1 cut(s) 335
VpaK11BI GGWCC 2 cut(s) 145, 372
XapI RAATTY 1 cut(s) 233
ZrmI AGTACT 1 cut(s) 172
Zsp2I ATGCAT 1 cut(s) 331
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.