Rroxscaffold_3G00240880

source UniProtKB

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000321
Physical Location & Seq
Forward (+)
32742571 .. 32743215
645 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00240880.1

Sequence Viewer

Length: 354 bp
ATGATGAGAGAGACAGCCACATTGGAAGATGACAATGTGATAACATCAACAGAGAAATCATATATTCCTATTCGGACAACAAATACTGTAAAAAAGGGAAATAAATGCAAGCTAGCTGTAGACACTAAAGATAACATTGTTGCAATGGGAACTGTAATAATGTTGGATGGGCCGATACATGGAGTGCCCCTAGGAGCAGAAAATGTACGTATCTCGGTTGATGTGCCTATCAAGGAAGATGCTCATCTCCCAAACCCAAATGTGTCGGGTGACATATTTACGGTAAAGCAAGCCATCGGTACTCATGTTGCTTCGCCTCGACATCTTGTTTTAATGTCACATGAAGAGGTATAG
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
Peptidase_C48 Transposase_24

Protein Analysis

117

Amino Acids

12.7

Weight (kDa)

5.9

Isoelectric Point (pI)

24.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8039 PF26133 29 - 112 3.1e-12 Domain of unknown function (DUF8039)
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: OG0000321)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g20221 FvH4_1g20221 FvH4_1g20221 FvH4_1g20221 FvH4_1g20221 FvH4_1g20221 FvH4_1g20221 FvH4_1g20221
prunus_persica Prupe.6G157700_v2.0.a1 Prupe.6G193600_v2.0.a1 Prupe.6G193600_v2.0.a1 Prupe.6G193600_v2.0.a1 Prupe.6G193600_v2.0.a1 Prupe.6G193600_v2.0.a1 Prupe.6G193600_v2.0.a1 Prupe.6G193600_v2.0.a1 Prupe.6G193600_v2.0.a1 Prupe.6G193600_v2.0.a1 Prupe.6G193600_v2.0.a1
pyrus_communis pycom03g09490 pycom03g19580 pycom07g21940 pycom07g27440 pycom14g09710
rosa_chinensis RchiOBHm_Chr1g0318231 RchiOBHm_Chr1g0318241 RchiOBHm_Chr1g0325001 RchiOBHm_Chr1g0325021 RchiOBHm_Chr2g0112301 RchiOBHm_Chr3g0482281 RchiOBHm_Chr3g0482291 RchiOBHm_Chr4g0390561 RchiOBHm_Chr4g0390571 RchiOBHm_Chr4g0417951 RchiOBHm_Chr7g0232611 RchiOBHm_Chr7g0240601
rosa_laevigata RLG00000001069 RLG00000013674 RLG00000018830 RLG00000020747
rosa_multiflora Rmu_co8364947.1_g000001 Rmu_co8416715.1_g000001 Rmu_sc0001348.1_g000014 Rmu_sc0002986.1_g000026 Rmu_sc0004003.1_g000007 Rmu_sc0005137.1_g000014 Rmu_sc0006583.1_g000016
rosa_roxburghii Rroxscaffold_159G00432800 Rroxscaffold_174G00435170 Rroxscaffold_1G00001870 Rroxscaffold_1G00044480 Rroxscaffold_2G00111880 Rroxscaffold_2G00111890 Rroxscaffold_2G00119670 Rroxscaffold_2G00129450 Rroxscaffold_2G00131520 Rroxscaffold_3G00240880 Rroxscaffold_5G00337440 Rroxscaffold_5G00356220 Rroxscaffold_5G00362390 Rroxscaffold_5G00368260 Rroxscaffold_7G00196230 Rroxscaffold_7G00196240 Rroxscaffold_7G00202020
rosa_rugosa Rorug01G0094700 Rorug02G0050500 Rorug02G0179800 Rorug05G0042800 Rorug05G0043000 Rorug05G0043100 Rorug05G0043200 Rorug06G0045300 Rorug06G0045600 Rorug06G0069400 Rorug07G0213000 Rorug07G0213000
rosa_samantha Rh1AG031600 Rh1DG131700 Rh1DG134800 Rh1DG288000 Rh1DG288100 Rh2AG218500 Rh2AG232500 Rh2BG245900 Rh2CG236700 Rh2DG224300 Rh2DG224400 Rh2DG240200 Rh3AG247300 Rh3BG126600 Rh3BG126700 Rh3BG333600 Rh5AG440500 Rh5AG440600 Rh5BG457800 Rh5DG472700 Rh5DG472800 Rh6BG138000 Rh6BG138100 Rh6BG171500 Rh6BG188400 Rh6BG230000 Rh6CG135600 Rh6CG135700 Rh6CG186300 Rh6CG450300 Rh7AG376100 Rh7CG394800 Rh7CG426100 Rh7CG426200 Rh7DG247700 Rh7DG322600 Rh7DG334300 Rh7DG364700
rosa_wichuraiana Rw2G018040

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 120
AfaI GTAC 2 cut(s) 207, 301
AfiI CCNNNNNNNGG 1 cut(s) 179
AluBI AGCT 2 cut(s) 112, 116
AluI AGCT 2 cut(s) 112, 116
Alw26I GTCTC 1 cut(s) 5
AoxI GGCC 1 cut(s) 170
AspA2I CCTAGG 1 cut(s) 190
AspS9I GGNCC 1 cut(s) 170
AsuHPI GGTGA 1 cut(s) 281
AsuNHI GCTAGC 1 cut(s) 112
AvrII CCTAGG 1 cut(s) 190
BaeGI GKGCMC 1 cut(s) 189
BaeI ACNNNNGTAYC 2 cut(s) 291, 324
BccI CCATC 2 cut(s) 161, 302
BcoDI GTCTC 1 cut(s) 5
BfaI CTAG 2 cut(s) 113, 191
BfmI CTRYAG 1 cut(s) 117
BlnI CCTAGG 1 cut(s) 190
BmgT120I GGNCC 1 cut(s) 170
BmsI GCATC 1 cut(s) 229
BmtI GCTAGC 1 cut(s) 116
BsaAI YACGTR 1 cut(s) 209
BsaBI GATNNNNATC 1 cut(s) 243
BsaJI CCNNGG 1 cut(s) 190
Bsc4I CCNNNNNNNGG 1 cut(s) 179
Bse3DI GCAATG 1 cut(s) 150
Bse8I GATNNNNATC 1 cut(s) 243
BseDI CCNNGG 1 cut(s) 190
BseGI GGATG 1 cut(s) 172
BseJI GATNNNNATC 1 cut(s) 243
BseLI CCNNNNNNNGG 1 cut(s) 179
BseMI GCAATG 1 cut(s) 150
BseSI GKGCMC 1 cut(s) 189
BshFI GGCC 1 cut(s) 172
BslI CCNNNNNNNGG 1 cut(s) 179
BsmAI GTCTC 1 cut(s) 5
BsnI GGCC 1 cut(s) 172
Bsp1286I GDGCHC 1 cut(s) 189
BspANI GGCC 1 cut(s) 172
BspOI GCTAGC 1 cut(s) 116
BsrDI GCAATG 1 cut(s) 150
BssECI CCNNGG 1 cut(s) 190
BssT1I CCWWGG 1 cut(s) 190
Bst4CI ACNGT 3 cut(s) 88, 154, 283
Bst6I CTCTTC 1 cut(s) 339
BstBAI YACGTR 1 cut(s) 209
BstC8I GCNNGC 3 cut(s) 110, 114, 291
BstF5I GGATG 1 cut(s) 172
BstMAI GTCTC 1 cut(s) 5
BstSFI CTRYAG 1 cut(s) 117
BstSLI GKGCMC 1 cut(s) 189
BstSNI TACGTA 1 cut(s) 209
BsuRI GGCC 1 cut(s) 172
BtsCI GGATG 1 cut(s) 172
Cac8I GCNNGC 3 cut(s) 110, 114, 291
Cfr13I GGNCC 1 cut(s) 170
Csp6I GTAC 2 cut(s) 206, 300
CviAII CATG 3 cut(s) 179, 305, 341
CviJI RGCY 5 cut(s) 17, 112, 116, 172, 293
CviKI_1 RGCY 5 cut(s) 17, 112, 116, 172, 293
CviQI GTAC 2 cut(s) 206, 300
Eam1104I CTCTTC 1 cut(s) 339
EarI CTCTTC 1 cut(s) 339
Eco105I TACGTA 1 cut(s) 209
Eco130I CCWWGG 1 cut(s) 190
EcoT14I CCWWGG 1 cut(s) 190
ErhI CCWWGG 1 cut(s) 190
FaeI CATG 3 cut(s) 182, 308, 344
FaiI YATR 7 cut(s) 61, 63, 180, 275, 306, 342, 352
FatI CATG 3 cut(s) 178, 304, 340
FblI GTMKAC 1 cut(s) 120
FokI GGATG 1 cut(s) 179
FspBI CTAG 2 cut(s) 113, 191
HaeIII GGCC 1 cut(s) 172
Hin1II CATG 3 cut(s) 182, 308, 344
HphI GGTGA 1 cut(s) 281
Hpy166II GTNNAC 1 cut(s) 121
Hpy188I TCNGA 1 cut(s) 75
Hpy8I GTNNAC 1 cut(s) 121
HpyCH4III ACNGT 3 cut(s) 88, 154, 283
HpyCH4IV ACGT 1 cut(s) 208
HpyCH4V TGCA 2 cut(s) 108, 143
HpySE526I ACGT 1 cut(s) 208
Hsp92II CATG 3 cut(s) 182, 308, 344
LmnI GCTCC 1 cut(s) 194
LweI GCATC 1 cut(s) 229
MaeI CTAG 2 cut(s) 113, 191
MaeII ACGT 1 cut(s) 208
MaeIII GTNAC 2 cut(s) 269, 336
MboII GAAGA 2 cut(s) 38, 248
MhlI GDGCHC 1 cut(s) 189
MmeI TCCRAC 1 cut(s) 144
MnlI CCTC 2 cut(s) 327, 340
MseI TTAA 1 cut(s) 332
NheI GCTAGC 1 cut(s) 112
NlaIII CATG 3 cut(s) 182, 308, 344
NmuCI GTSAC 2 cut(s) 269, 336
Ppu21I YACGTR 1 cut(s) 209
PspPI GGNCC 1 cut(s) 170
RsaI GTAC 2 cut(s) 207, 301
RsaNI GTAC 2 cut(s) 206, 300
SaqAI TTAA 1 cut(s) 332
Sau96I GGNCC 1 cut(s) 170
SduI GDGCHC 1 cut(s) 189
SetI ASST 4 cut(s) 114, 118, 211, 351
SfaNI GCATC 1 cut(s) 229
SfcI CTRYAG 1 cut(s) 117
SnaBI TACGTA 1 cut(s) 209
SspMI CTAG 2 cut(s) 113, 191
StyI CCWWGG 1 cut(s) 190
TaaI ACNGT 3 cut(s) 88, 154, 283
TaiI ACGT 1 cut(s) 211
TaqI TCGA 1 cut(s) 319
Tru1I TTAA 1 cut(s) 332
Tru9I TTAA 1 cut(s) 332
TseFI GTSAC 2 cut(s) 269, 336
Tsp45I GTSAC 2 cut(s) 269, 336
XmaJI CCTAGG 1 cut(s) 190
XmiI GTMKAC 1 cut(s) 120
XspI CTAG 2 cut(s) 113, 191
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.