Rh4DG023300

Sieve element occlusion

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0000511
Physical Location & Seq
Reverse (-)
3788284 .. 3788568
285 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG023300.1

Sequence Viewer

Length: 285 bp
ATGCTTGTTAAAGGGTCTACTGTGGTGGTCACTGGTCATGGTGTGTCGGTTTTGAAGGTGGTCGAGGAGTTTGAGAAATGGAAGGAGCATGTGAAAGAGAAAAGGTTTAAATTTTGTTTCAAGGCTTATTATGACAAGGTTAGTCAGAGTAGCCGACCTTGCTGCCGTCTGGACCTTCCGAGGTCTAATGGAAAGGTTCCGGAGACACTGAAGTGCATGCCCGGATTGCCACAGGAGTATGGAGACATTCATCAGTTGCAAGTGCTGCCACATCGATGGTTCTAA
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

94

Amino Acids

10.94

Weight (kDa)

9.3

Isoelectric Point (pI)

51.71

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SEO_C PF14577 1 - 73 2.1e-13 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 1 cut(s) 17
AccIII TCCGGA 1 cut(s) 199
AcsI RAATTY 1 cut(s) 110
AcuI CTGAAG 1 cut(s) 230
AgsI TTSAA 2 cut(s) 55, 121
AleI CACNNNNGTG 1 cut(s) 211
Alw26I GTCTC 2 cut(s) 197, 237
Aor13HI TCCGGA 1 cut(s) 199
ApeKI GCWGC 2 cut(s) 162, 265
ApoI RAATTY 1 cut(s) 110
AspS9I GGNCC 1 cut(s) 172
AsuC2I CCSGG 1 cut(s) 222
AvaII GGWCC 1 cut(s) 172
BbvI GCAGC 2 cut(s) 149, 252
BccI CCATC 1 cut(s) 270
BceAI ACGGC 1 cut(s) 150
BcgI CGANNNNNNTGC 2 cut(s) 144, 178
BcnI CCSGG 1 cut(s) 222
BcoDI GTCTC 2 cut(s) 197, 237
BisI GCNGC 2 cut(s) 163, 266
BlsI GCNGC 2 cut(s) 164, 267
Bme1390I CCNGG 1 cut(s) 222
Bme18I GGWCC 1 cut(s) 172
BmgT120I GGNCC 1 cut(s) 172
BmiI GGNNCC 1 cut(s) 198
BmrFI CCNGG 1 cut(s) 222
BpuMI CCSGG 1 cut(s) 222
Bsa29I ATCGAT 1 cut(s) 274
BsaJI CCNNGG 1 cut(s) 179
BsaWI WCCGGW 1 cut(s) 199
Bse1I ACTGG 1 cut(s) 37
BseAI TCCGGA 1 cut(s) 199
BseCI ATCGAT 1 cut(s) 274
BseDI CCNNGG 1 cut(s) 179
BseNI ACTGG 1 cut(s) 37
BseRI GAGGAG 1 cut(s) 80
BseXI GCAGC 2 cut(s) 149, 252
BshVI ATCGAT 1 cut(s) 274
BsiSI CCGG 2 cut(s) 200, 222
BsmAI GTCTC 2 cut(s) 197, 237
Bsp13I TCCGGA 1 cut(s) 199
BspDI ATCGAT 1 cut(s) 274
BspEI TCCGGA 1 cut(s) 199
BspLI GGNNCC 1 cut(s) 198
BsrI ACTGG 1 cut(s) 37
BssECI CCNNGG 1 cut(s) 179
Bst4CI ACNGT 1 cut(s) 22
BstAPI GCANNNNNTGC 1 cut(s) 265
BstC8I GCNNGC 1 cut(s) 218
BstMAI GTCTC 2 cut(s) 197, 237
BstMWI GCNNNNNNNGC 3 cut(s) 159, 226, 265
BstNSI RCATGY 2 cut(s) 92, 220
BstSCI CCNGG 1 cut(s) 220
BstV1I GCAGC 2 cut(s) 149, 252
BstXI CCANNNNNNTGG 1 cut(s) 276
Bsu15I ATCGAT 1 cut(s) 274
BsuTUI ATCGAT 1 cut(s) 274
BtsIMutI CAGTG 2 cut(s) 30, 206
Cac8I GCNNGC 1 cut(s) 218
Cfr13I GGNCC 1 cut(s) 172
ClaI ATCGAT 1 cut(s) 274
CviAII CATG 3 cut(s) 38, 89, 217
CviJI RGCY 2 cut(s) 125, 153
CviKI_1 RGCY 2 cut(s) 125, 153
DraI TTTAAA 1 cut(s) 109
Eco47I GGWCC 1 cut(s) 172
Eco57I CTGAAG 1 cut(s) 230
FaeI CATG 3 cut(s) 41, 92, 220
FaiI YATR 5 cut(s) 39, 90, 132, 218, 240
FatI CATG 3 cut(s) 37, 88, 216
FblI GTMKAC 1 cut(s) 17
Fnu4HI GCNGC 2 cut(s) 163, 266
Fsp4HI GCNGC 2 cut(s) 163, 266
GluI GCNGC 2 cut(s) 163, 266
HapII CCGG 2 cut(s) 200, 222
Hin1II CATG 3 cut(s) 41, 92, 220
HpaII CCGG 2 cut(s) 200, 222
Hpy166II GTNNAC 1 cut(s) 18
Hpy188I TCNGA 2 cut(s) 147, 180
Hpy188III TCNNGA 2 cut(s) 170, 200
Hpy8I GTNNAC 1 cut(s) 18
HpyAV CCTTC 3 cut(s) 49, 76, 185
HpyCH4III ACNGT 1 cut(s) 22
HpyCH4V TGCA 2 cut(s) 216, 259
HpyF10VI GCNNNNNNNGC 3 cut(s) 159, 226, 265
Hsp92II CATG 3 cut(s) 41, 92, 220
Kpn2I TCCGGA 1 cut(s) 199
LmnI GCTCC 1 cut(s) 85
LpnPI CCDG 5 cut(s) 18, 155, 213, 218, 235
Lsp1109I GCAGC 2 cut(s) 149, 252
MaeIII GTNAC 1 cut(s) 28
MluCI AATT 1 cut(s) 110
MnlI CCTC 2 cut(s) 58, 174
MroI TCCGGA 1 cut(s) 199
MseI TTAA 2 cut(s) 9, 108
MslI CAYNNNNRTG 2 cut(s) 211, 274
MspI CCGG 2 cut(s) 200, 222
MspR9I CCNGG 1 cut(s) 222
MwoI GCNNNNNNNGC 3 cut(s) 159, 226, 265
NciI CCSGG 1 cut(s) 222
NlaIII CATG 3 cut(s) 41, 92, 220
NlaIV GGNNCC 1 cut(s) 198
NmuCI GTSAC 1 cut(s) 28
NspI RCATGY 2 cut(s) 92, 220
OliI CACNNNNGTG 1 cut(s) 211
PaeI GCATGC 1 cut(s) 220
PkrI GCNGC 2 cut(s) 164, 267
PspN4I GGNNCC 1 cut(s) 198
PspPI GGNCC 1 cut(s) 172
RseI CAYNNNNRTG 2 cut(s) 211, 274
SaqAI TTAA 2 cut(s) 9, 108
SatI GCNGC 2 cut(s) 163, 266
Sau96I GGNCC 1 cut(s) 172
ScrFI CCNGG 1 cut(s) 222
SetI ASST 7 cut(s) 60, 107, 141, 160, 177, 185, 198
SinI GGWCC 1 cut(s) 172
SmiMI CAYNNNNRTG 2 cut(s) 211, 274
SphI GCATGC 1 cut(s) 220
Sse9I AATT 1 cut(s) 110
StyD4I CCNGG 1 cut(s) 220
TaaI ACNGT 1 cut(s) 22
TaqI TCGA 2 cut(s) 63, 274
TasI AATT 1 cut(s) 110
Tru1I TTAA 2 cut(s) 9, 108
Tru9I TTAA 2 cut(s) 9, 108
TscAI CASTG 2 cut(s) 37, 213
TseFI GTSAC 1 cut(s) 28
TseI GCWGC 2 cut(s) 162, 265
Tsp45I GTSAC 1 cut(s) 28
TspDTI ATGAA 1 cut(s) 239
TspRI CASTG 2 cut(s) 37, 213
VpaK11BI GGWCC 1 cut(s) 172
XapI RAATTY 1 cut(s) 110
XceI RCATGY 2 cut(s) 92, 220
XmiI GTMKAC 1 cut(s) 17
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.