Rh4AG030100

Sieve element occlusion

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4A
OG0000511
Physical Location & Seq
Forward (+)
6188531 .. 6188824
294 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4AG030100.1

Sequence Viewer

Length: 294 bp
ATGCTTAGCAAAGGGTCGACTGTGTTGGTCACATGTCATGGTGTCACGGTGTTGAAGGTGGTAGAGGACTTTGAGAAATGGAAGGACCATGTCAAGGAGAAAGGGTTTGAGTTTTGTTTCAAGGCCTATTATGGGCAGATTAGTCAGGCTAGTCGACCGTGCTGCCGTCTGGACATACCGGGGTCTAACGGAAAGGTTCCAGAGAAGATGAAGTGCCCTGATTGCCACCGTAGTATGGAGACTTTTATCAGTTACAAGTGTTGCCACATTGATGGTCCTACTGCATATCATTAA
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
SEO_C SEO_N

Protein Analysis

97

Amino Acids

11.01

Weight (kDa)

8.42

Isoelectric Point (pI)

34.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SEO_C PF14577 1 - 89 1.1e-23 Sieve element occlusion C-terminus
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: OG0000511)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g02370 FvH4_4g02370 FvH4_4g02370 FvH4_4g02430 FvH4_4g02430 FvH4_4g02460 FvH4_4g02460 FvH4_4g02460 FvH4_4g02480 FvH4_4g02480 FvH4_4g02480 FvH4_4g02480 FvH4_6g05920
malus_domestica MD00G1111000.v1.1 MD08G1225800.v1.1 MD13G1205700.v1.1 MD13G1205800.v1.1 MD13G1205900.v1.1 MD13G1206000.v1.1 MD16G1207500.v1.1 MD16G1207600.v1.1
prunus_persica Prupe.1G028400_v2.0.a1 Prupe.1G028500_v2.0.a1 Prupe.1G028800_v2.0.a1 Prupe.1G028800_v2.0.a1 Prupe.1G028800_v2.0.a1 Prupe.1G028800_v2.0.a1 Prupe.1G028900_v2.0.a1 Prupe.1G029000_v2.0.a1 Prupe.1G029100_v2.0.a1
pyrus_communis pycom08g19680 pycom08g19730 pycom16g17460 pycom16g17500
rosa_chinensis RchiOBHm_Chr4g0389751 RchiOBHm_Chr4g0389771 RchiOBHm_Chr4g0389791 RchiOBHm_Chr4g0389861 RchiOBHm_Chr4g0389881 RchiOBHm_Chr4g0389901 RchiOBHm_Chr4g0412411
rosa_laevigata RLG00000008288 RLG00000009901 RLG00000009945 RLG00000009954 RLG00000009956 RLG00000009957 RLG00000009958 RLG00000019246
rosa_multiflora Rmu_co8275125.1_g000001 Rmu_sc0002083.1_g000003 Rmu_sc0002083.1_g000025 Rmu_sc0002604.1_g000016 Rmu_sc0004336.1_g000031 Rmu_sc0010423.1_g000003
rosa_roxburghii Rroxscaffold_5G00335790 Rroxscaffold_5G00335850 Rroxscaffold_5G00335970 Rroxscaffold_5G00335990
rosa_rugosa Rorug03G0325100 Rorug03G0325300 Rorug03G0325500.1 Rorug03G0326800 Rorug03G0327000 Rorug04G0104400
rosa_samantha Rh4AG029900 Rh4AG030000 Rh4AG030100 Rh4AG030200 Rh4AG030600 Rh4AG172900 Rh4BG023200 Rh4BG023900 Rh4BG024000 Rh4BG024100 Rh4BG172200 Rh4DG023300 Rh4DG023800 Rh4DG023900 Rh4DG024000 Rh4DG151600
rosa_wichuraiana Rw1G002330 Rw1G002340 Rw4G002260 Rw4G002270 Rw4G002280 Rw4G002300

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 2 cut(s) 17, 154
AfiI CCNNNNNNNGG 3 cut(s) 94, 132, 235
AflIII ACRYGT 1 cut(s) 32
AgsI TTSAA 2 cut(s) 55, 121
Alw26I GTCTC 1 cut(s) 233
AoxI GGCC 1 cut(s) 123
ApeKI GCWGC 1 cut(s) 162
AspS9I GGNCC 2 cut(s) 85, 275
AsuC2I CCSGG 1 cut(s) 180
AvaII GGWCC 2 cut(s) 85, 275
BaeGI GKGCMC 1 cut(s) 218
BbvI GCAGC 1 cut(s) 149
BccI CCATC 1 cut(s) 266
BceAI ACGGC 1 cut(s) 150
BcgI CGANNNNNNTGC 2 cut(s) 144, 178
BcnI CCSGG 1 cut(s) 180
BcoDI GTCTC 1 cut(s) 233
BfaI CTAG 1 cut(s) 150
BisI GCNGC 1 cut(s) 163
BlpI GCTNAGC 1 cut(s) 5
BlsI GCNGC 1 cut(s) 164
Bme1390I CCNGG 1 cut(s) 180
Bme18I GGWCC 2 cut(s) 85, 275
BmgT120I GGNCC 2 cut(s) 85, 275
BmiI GGNNCC 1 cut(s) 198
BmrFI CCNGG 1 cut(s) 180
Bpu1102I GCTNAGC 1 cut(s) 5
BpuMI CCSGG 1 cut(s) 180
BsaJI CCNNGG 1 cut(s) 179
BsaXI ACNNNNNCTCC 2 cut(s) 89, 119
Bsc4I CCNNNNNNNGG 3 cut(s) 94, 132, 235
BseDI CCNNGG 1 cut(s) 179
BseLI CCNNNNNNNGG 3 cut(s) 94, 132, 235
BseSI GKGCMC 1 cut(s) 218
BseXI GCAGC 1 cut(s) 149
Bsh1285I CGRYCG 1 cut(s) 158
BshFI GGCC 1 cut(s) 125
BsiEI CGRYCG 1 cut(s) 158
BsiSI CCGG 1 cut(s) 179
BslI CCNNNNNNNGG 3 cut(s) 94, 132, 235
BsmAI GTCTC 1 cut(s) 233
BsnI GGCC 1 cut(s) 125
Bsp1286I GDGCHC 1 cut(s) 218
Bsp1720I GCTNAGC 1 cut(s) 5
BspANI GGCC 1 cut(s) 125
BspLI GGNNCC 1 cut(s) 198
BssECI CCNNGG 1 cut(s) 179
Bst4CI ACNGT 4 cut(s) 22, 49, 159, 230
BstDEI CTNAG 1 cut(s) 5
BstMAI GTCTC 1 cut(s) 233
BstMCI CGRYCG 1 cut(s) 158
BstMWI GCNNNNNNNGC 1 cut(s) 222
BstNSI RCATGY 1 cut(s) 36
BstSCI CCNGG 1 cut(s) 178
BstSLI GKGCMC 1 cut(s) 218
BstV1I GCAGC 1 cut(s) 149
BstXI CCANNNNNNTGG 1 cut(s) 272
BsuRI GGCC 1 cut(s) 125
Cfr13I GGNCC 2 cut(s) 85, 275
CviAII CATG 3 cut(s) 33, 38, 89
CviJI RGCY 2 cut(s) 125, 149
CviKI_1 RGCY 2 cut(s) 125, 149
DdeI CTNAG 1 cut(s) 5
Eco147I AGGCCT 1 cut(s) 125
Eco47I GGWCC 2 cut(s) 85, 275
FaeI CATG 3 cut(s) 36, 41, 92
FaiI YATR 7 cut(s) 34, 39, 90, 132, 176, 236, 286
FatI CATG 3 cut(s) 32, 37, 88
FblI GTMKAC 2 cut(s) 17, 154
Fnu4HI GCNGC 1 cut(s) 163
Fsp4HI GCNGC 1 cut(s) 163
FspBI CTAG 1 cut(s) 150
GluI GCNGC 1 cut(s) 163
HaeIII GGCC 1 cut(s) 125
HapII CCGG 1 cut(s) 179
Hin1II CATG 3 cut(s) 36, 41, 92
HincII GTYRAC 2 cut(s) 18, 155
HindII GTYRAC 2 cut(s) 18, 155
HpaII CCGG 1 cut(s) 179
Hpy166II GTNNAC 2 cut(s) 18, 155
Hpy188III TCNNGA 2 cut(s) 170, 200
Hpy8I GTNNAC 2 cut(s) 18, 155
HpyAV CCTTC 2 cut(s) 49, 76
HpyCH4III ACNGT 4 cut(s) 22, 49, 159, 230
HpyCH4V TGCA 1 cut(s) 284
HpyF10VI GCNNNNNNNGC 1 cut(s) 222
HpyF3I CTNAG 1 cut(s) 5
Hsp92II CATG 3 cut(s) 36, 41, 92
LpnPI CCDG 5 cut(s) 131, 155, 192, 213, 231
Lsp1109I GCAGC 1 cut(s) 149
MaeI CTAG 1 cut(s) 150
MaeIII GTNAC 3 cut(s) 28, 43, 251
MboII GAAGA 1 cut(s) 217
MhlI GDGCHC 1 cut(s) 218
MnlI CCTC 1 cut(s) 58
MseI TTAA 1 cut(s) 292
MslI CAYNNNNRTG 1 cut(s) 270
MspI CCGG 1 cut(s) 179
MspR9I CCNGG 1 cut(s) 180
MwoI GCNNNNNNNGC 1 cut(s) 222
NciI CCSGG 1 cut(s) 180
NlaIII CATG 3 cut(s) 36, 41, 92
NlaIV GGNNCC 1 cut(s) 198
NmuCI GTSAC 2 cut(s) 28, 43
NspI RCATGY 1 cut(s) 36
PceI AGGCCT 1 cut(s) 125
PciI ACATGT 1 cut(s) 32
PflFI GACNNNGTC 1 cut(s) 89
PkrI GCNGC 1 cut(s) 164
PscI ACATGT 1 cut(s) 32
PspN4I GGNNCC 1 cut(s) 198
PspPI GGNCC 2 cut(s) 85, 275
PsyI GACNNNGTC 1 cut(s) 89
RseI CAYNNNNRTG 1 cut(s) 270
SalI GTCGAC 2 cut(s) 16, 153
SaqAI TTAA 1 cut(s) 292
SatI GCNGC 1 cut(s) 163
Sau96I GGNCC 2 cut(s) 85, 275
ScrFI CCNGG 1 cut(s) 180
SduI GDGCHC 1 cut(s) 218
SetI ASST 2 cut(s) 60, 198
SinI GGWCC 2 cut(s) 85, 275
SmiMI CAYNNNNRTG 1 cut(s) 270
SseBI AGGCCT 1 cut(s) 125
SspMI CTAG 1 cut(s) 150
StuI AGGCCT 1 cut(s) 125
StyD4I CCNGG 1 cut(s) 178
TaaI ACNGT 4 cut(s) 22, 49, 159, 230
TaqI TCGA 2 cut(s) 17, 154
Tru1I TTAA 1 cut(s) 292
Tru9I TTAA 1 cut(s) 292
TseFI GTSAC 2 cut(s) 28, 43
TseI GCWGC 1 cut(s) 162
Tsp45I GTSAC 2 cut(s) 28, 43
TspDTI ATGAA 1 cut(s) 224
TspGWI ACGGA 1 cut(s) 204
Tth111I GACNNNGTC 1 cut(s) 89
VpaK11BI GGWCC 2 cut(s) 85, 275
XceI RCATGY 1 cut(s) 36
XmiI GTMKAC 2 cut(s) 17, 154
XspI CTAG 1 cut(s) 150
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.