Rroxscaffold_3G00219000

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000512
Physical Location & Seq
Reverse (-)
1220795 .. 1222822
2028 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00219000.1

Sequence Viewer

Length: 489 bp
ATGAAGTATACTAAAATTGATTTGAAGGCATTTGCCCTCCAAATTCTTACAAAACTCCGCTGGATTCATCATCCAGATGAAGAAGAAACTGATCGACCACCGGTAGCTAGAAACCGCAGCTTTGACTGGGCCAAGATATTTGTTATGTTTTGCTCAGCCTCCGCGATTGAAATGGCTCTCCTATCCGCCCAAATCCACTCCCAGCTCCCGGCAATCTTTTGCTTCCTCGGACTGACCATCATAATATCCTTTACTTGCTTTTTTGTTAGCAATTCCATTCACTTCAACTATCTGATGGTGGCTGATGTGCTCGAGCGAGTTGGCATTTTTTTGGAGTCACGGCAATCTTCATATCCATCACTATTCCATTTCCCTTGTGGTTCAAATGTGCCACCTGCTTCATCTATGTCCTCTGTTGATGTTACCGCATTGATCTCACTTCTACAGCCGGCACTAGAGACATTTGATCTCTTTGATGAGTTATCTTAA
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

162

Amino Acids

18.32

Weight (kDa)

5.42

Isoelectric Point (pI)

55.53

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: OG0000512)

Species Orthologous Gene IDs
fragaria_vesca FvH4_5g13130 FvH4_5g13140 FvH4_5g13141 FvH4_5g13170 FvH4_5g13220 FvH4_5g13221 FvH4_5g13222 FvH4_5g13223 FvH4_5g13230
malus_domestica MD03G1009100.v1.1 MD03G1009500.v1.1 MD03G1009600.v1.1 MD03G1010100.v1.1 MD03G1011400.v1.1 MD11G1013400.v1.1 MD11G1013900.v1.1 MD12G1151700.v1.1 MD12G1151900.v1.1 MD14G1141800.v1.1
prunus_persica Prupe.1G109400_v2.0.a1 Prupe.3G028900_v2.0.a1 Prupe.6G011200_v2.0.a1 Prupe.6G011700_v2.0.a1 Prupe.6G011800_v2.0.a1
pyrus_communis pycom03g01000 pycom07g22580 pycom11g00910 pycom11g00930
rosa_chinensis RchiOBHm_Chr7g0240781 RchiOBHm_Chr7g0241491
rosa_laevigata RLG00000000572 RLG00000005009 RLG00000014262 RLG00000021010 RLG00000021011 RLG00000026751
rosa_multiflora Rmu_sc0000215.1_g000008 Rmu_sc0001275.1_g000010 Rmu_sc0002761.1_g000010 Rmu_sc0003825.1_g000034 Rmu_sc0004712.1_g000019 Rmu_sc0004712.1_g000020 Rmu_sc0004712.1_g000025 Rmu_sc0004712.1_g000028 Rmu_sc0004712.1_g000030 Rmu_sc0004821.1_g000003 Rmu_sc0005888.1_g000011 Rmu_sc0007533.1_g000008 Rmu_sc0007533.1_g000010 Rmu_sc0008698.1_g000006 Rmu_sc0010322.1_g000017 Rmu_sc0010483.1_g000002 Rmu_sc0013122.1_g000003
rosa_roxburghii Rroxscaffold_176G00431730 Rroxscaffold_3G00219000 Rroxscaffold_3G00269990 Rroxscaffold_3G00270040 Rroxscaffold_3G00270050 Rroxscaffold_3G00270060 Rroxscaffold_4G00283100 Rroxscaffold_6G00430000
rosa_rugosa Rorug01G0382000 Rorug02G0463100 Rorug02G0644300 Rorug06G0011800 Rorug06G0461600 Rorug07G0344600 Rorug07G0344700
rosa_samantha Rh2AG527500 Rh2AG527800 Rh2CG512000 Rh2CG512200 Rh2DG550800 Rh2DG551000 Rh3CG048300 Rh3DG049200 Rh7AG062500 Rh7AG062700 Rh7AG062800 Rh7BG062900 Rh7BG063000 Rh7BG063100 Rh7BG469800 Rh7DG062500 Rh7DG062800 Rh7DG063400 Rh7DG063500

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 403
Acc36I ACCTGC 1 cut(s) 403
AccI GTMKAC 1 cut(s) 8
AccII CGCG 1 cut(s) 164
AciI CCGC 5 cut(s) 58, 115, 162, 186, 426
AcsI RAATTY 1 cut(s) 42
AfiI CCNNNNNNNGG 1 cut(s) 208
AgeI ACCGGT 1 cut(s) 100
AgsI TTSAA 4 cut(s) 25, 170, 286, 384
AluBI AGCT 3 cut(s) 107, 120, 205
AluI AGCT 3 cut(s) 107, 120, 205
Alw21I GWGCWC 1 cut(s) 312
Alw26I GTCTC 1 cut(s) 452
Ama87I CYCGRG 1 cut(s) 311
AoxI GGCC 1 cut(s) 129
ApeKI GCWGC 1 cut(s) 117
ApoI RAATTY 1 cut(s) 42
AsiGI ACCGGT 1 cut(s) 100
AspS9I GGNCC 1 cut(s) 129
AsuC2I CCSGG 1 cut(s) 209
AvaI CYCGRG 1 cut(s) 311
Bbv12I GWGCWC 1 cut(s) 312
BbvI GCAGC 1 cut(s) 129
BccI CCATC 3 cut(s) 245, 289, 364
BceAI ACGGC 1 cut(s) 356
BcnI CCSGG 1 cut(s) 209
BcoDI GTCTC 1 cut(s) 452
BfaI CTAG 2 cut(s) 108, 455
BfmI CTRYAG 1 cut(s) 443
BfuAI ACCTGC 1 cut(s) 403
BisI GCNGC 1 cut(s) 118
BlpI GCTNAGC 1 cut(s) 154
BlsI GCNGC 1 cut(s) 119
Bme1390I CCNGG 1 cut(s) 209
BmeT110I CYCGRG 1 cut(s) 311
BmgT120I GGNCC 1 cut(s) 129
BmrFI CCNGG 1 cut(s) 209
BmrI ACTGGG 1 cut(s) 136
BmuI ACTGGG 1 cut(s) 136
Bpu1102I GCTNAGC 1 cut(s) 154
BpuMI CCSGG 1 cut(s) 209
BsaJI CCNNGG 1 cut(s) 226
BsaWI WCCGGW 1 cut(s) 100
Bsc4I CCNNNNNNNGG 1 cut(s) 208
Bse118I RCCGGY 2 cut(s) 100, 448
Bse1I ACTGG 1 cut(s) 131
BseDI CCNNGG 1 cut(s) 226
BseGI GGATG 1 cut(s) 70
BseLI CCNNNNNNNGG 1 cut(s) 208
BseMII CTCAG 1 cut(s) 168
BseNI ACTGG 1 cut(s) 131
BseXI GCAGC 1 cut(s) 129
BseYI CCCAGC 1 cut(s) 201
Bsh1236I CGCG 1 cut(s) 164
BshFI GGCC 1 cut(s) 131
BshTI ACCGGT 1 cut(s) 100
BsiHKAI GWGCWC 1 cut(s) 312
BsiHKCI CYCGRG 1 cut(s) 311
BsiSI CCGG 3 cut(s) 101, 209, 449
BslI CCNNNNNNNGG 1 cut(s) 208
BsmAI GTCTC 1 cut(s) 452
BsnI GGCC 1 cut(s) 131
BsoBI CYCGRG 1 cut(s) 311
Bsp1286I GDGCHC 1 cut(s) 312
Bsp143I GATC 3 cut(s) 91, 432, 466
Bsp1720I GCTNAGC 1 cut(s) 154
BspACI CCGC 5 cut(s) 58, 115, 162, 186, 426
BspANI GGCC 1 cut(s) 131
BspCNI CTCAG 1 cut(s) 167
BspFNI CGCG 1 cut(s) 164
BspMI ACCTGC 1 cut(s) 403
BsrFI RCCGGY 2 cut(s) 100, 448
BsrI ACTGG 1 cut(s) 131
BssAI RCCGGY 2 cut(s) 100, 448
BssECI CCNNGG 1 cut(s) 226
BssMI GATC 3 cut(s) 91, 432, 466
BssNAI GTATAC 1 cut(s) 9
Bst1107I GTATAC 1 cut(s) 9
BstC8I GCNNGC 1 cut(s) 450
BstDEI CTNAG 1 cut(s) 154
BstF5I GGATG 1 cut(s) 70
BstFNI CGCG 1 cut(s) 164
BstKTI GATC 3 cut(s) 94, 435, 469
BstMAI GTCTC 1 cut(s) 452
BstMBI GATC 3 cut(s) 91, 432, 466
BstSCI CCNGG 1 cut(s) 207
BstSFI CTRYAG 1 cut(s) 443
BstUI CGCG 1 cut(s) 164
BstV1I GCAGC 1 cut(s) 129
BstZ17I GTATAC 1 cut(s) 9
BsuRI GGCC 1 cut(s) 131
BtsCI GGATG 1 cut(s) 70
BveI ACCTGC 1 cut(s) 403
Cac8I GCNNGC 1 cut(s) 450
Cfr10I RCCGGY 2 cut(s) 100, 448
Cfr13I GGNCC 1 cut(s) 129
CspAI ACCGGT 1 cut(s) 100
CviJI RGCY 8 cut(s) 107, 120, 131, 158, 176, 205, 302, 448
CviKI_1 RGCY 8 cut(s) 107, 120, 131, 158, 176, 205, 302, 448
DdeI CTNAG 1 cut(s) 154
DpnI GATC 3 cut(s) 93, 434, 468
DpnII GATC 3 cut(s) 91, 432, 466
EciI GGCGGA 1 cut(s) 175
Eco88I CYCGRG 1 cut(s) 311
FaiI YATR 5 cut(s) 9, 146, 242, 352, 407
FblI GTMKAC 1 cut(s) 8
Fnu4HI GCNGC 1 cut(s) 118
FokI GGATG 1 cut(s) 57
Fsp4HI GCNGC 1 cut(s) 118
FspBI CTAG 2 cut(s) 108, 455
GluI GCNGC 1 cut(s) 118
GsaI CCCAGC 1 cut(s) 205
HaeIII GGCC 1 cut(s) 131
HapII CCGG 3 cut(s) 101, 209, 449
HinfI GANTC 2 cut(s) 64, 335
HpaII CCGG 3 cut(s) 101, 209, 449
Hpy166II GTNNAC 1 cut(s) 9
Hpy188I TCNGA 2 cut(s) 230, 294
Hpy188III TCNNGA 1 cut(s) 74
Hpy8I GTNNAC 1 cut(s) 9
HpyAV CCTTC 1 cut(s) 19
HpyF3I CTNAG 1 cut(s) 154
KroI GCCGGC 1 cut(s) 448
KroNI GCCGGC 1 cut(s) 450
Kzo9I GATC 3 cut(s) 91, 432, 466
LmnI GCTCC 1 cut(s) 210
LpnPI CCDG 8 cut(s) 46, 87, 112, 114, 215, 222, 408, 462
Lsp1109I GCAGC 1 cut(s) 129
MaeI CTAG 2 cut(s) 108, 455
MaeIII GTNAC 2 cut(s) 336, 421
MalI GATC 3 cut(s) 93, 434, 468
MboI GATC 3 cut(s) 91, 432, 466
MboII GAAGA 3 cut(s) 92, 95, 339
MhlI GDGCHC 1 cut(s) 312
MluCI AATT 3 cut(s) 15, 42, 271
MlyI GAGTC 1 cut(s) 344
MnlI CCTC 4 cut(s) 47, 169, 236, 421
MroNI GCCGGC 1 cut(s) 448
MseI TTAA 1 cut(s) 487
MslI CAYNNNNRTG 1 cut(s) 75
MspA1I CMGCKG 1 cut(s) 60
MspI CCGG 3 cut(s) 101, 209, 449
MspR9I CCNGG 1 cut(s) 209
MvnI CGCG 1 cut(s) 164
NaeI GCCGGC 1 cut(s) 450
NciI CCSGG 1 cut(s) 209
NdeII GATC 3 cut(s) 91, 432, 466
NgoMIV GCCGGC 1 cut(s) 448
NmuCI GTSAC 1 cut(s) 336
PaeR7I CTCGAG 1 cut(s) 311
PaqCI CACCTGC 1 cut(s) 403
PdiI GCCGGC 1 cut(s) 450
PfeI GAWTC 1 cut(s) 64
PinAI ACCGGT 1 cut(s) 100
PkrI GCNGC 1 cut(s) 119
PleI GAGTC 1 cut(s) 343
PpsI GAGTC 1 cut(s) 343
PspFI CCCAGC 1 cut(s) 201
PspPI GGNCC 1 cut(s) 129
PspXI VCTCGAGB 1 cut(s) 311
RseI CAYNNNNRTG 1 cut(s) 75
SaqAI TTAA 1 cut(s) 487
SatI GCNGC 1 cut(s) 118
Sau3AI GATC 3 cut(s) 91, 432, 466
Sau96I GGNCC 1 cut(s) 129
SchI GAGTC 1 cut(s) 344
ScrFI CCNGG 1 cut(s) 209
SduI GDGCHC 1 cut(s) 312
SetI ASST 4 cut(s) 109, 122, 207, 397
SfcI CTRYAG 1 cut(s) 443
Sfr274I CTCGAG 1 cut(s) 311
SlaI CTCGAG 1 cut(s) 311
SmiMI CAYNNNNRTG 1 cut(s) 75
SmlI CTYRAG 1 cut(s) 311
SmoI CTYRAG 1 cut(s) 311
Sse9I AATT 3 cut(s) 15, 42, 271
SsiI CCGC 5 cut(s) 58, 115, 162, 186, 426
SspMI CTAG 2 cut(s) 108, 455
StyD4I CCNGG 1 cut(s) 207
TaqI TCGA 2 cut(s) 94, 312
TasI AATT 3 cut(s) 15, 42, 271
TfiI GAWTC 1 cut(s) 64
Tru1I TTAA 1 cut(s) 487
Tru9I TTAA 1 cut(s) 487
TseFI GTSAC 1 cut(s) 336
TseI GCWGC 1 cut(s) 117
Tsp45I GTSAC 1 cut(s) 336
TspDTI ATGAA 5 cut(s) 17, 56, 93, 339, 390
XapI RAATTY 1 cut(s) 42
XcmI CCANNNNNNNNNTGG 1 cut(s) 374
XhoI CTCGAG 1 cut(s) 311
XmiI GTMKAC 1 cut(s) 8
XspI CTAG 2 cut(s) 108, 455
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.