Rroxscaffold_3G00269990

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0000512
Physical Location & Seq
Reverse (-)
62687337 .. 62689762
2426 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00269990.1

Sequence Viewer

Length: 498 bp
ATGATGATTCAAGAACATTACAACAGCAACGACATGAAGTATACTAAAATTGATTTGAAGGCTTTTGCCCTCCAAATTCTTACAAAACTCGGCTGGATTCATCATCCAGATGAAGAAGAAACTGATCAACCACCGGTAGCTAGAAACCGCGGCTTAGACTGGCCGAAGATATTTGTTGTGTTTTGCTCGGCATCCGCTATTGACATGGCTCTCCTCTCCGTCCAAATCCACTCTCAGCTCCCTGCAATCTTTTGCTTCCTCGGATTAACCATCATACTTGCCTTTACTTGCTTCTCTGTAGGCAAATGTATTCACTCCAACTTTGAACAAGCAGCTCTGGTGCTCCAGCAATTCGGCCTTTTCTTTGGAGTCACGGCAATCTTCATATCCATCACCATTCCATTTCCTTTGTGGTTCAAATTTGTCACCTGCTTCATCTTTGTGCTATGCTGGCTCACAATCTTGATTTGTAATTACTTCCATTCTTACTTGGTATAA
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

165

Amino Acids

18.95

Weight (kDa)

6.26

Isoelectric Point (pI)

36.09

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) 437
Acc36I ACCTGC 1 cut(s) 437
AccI GTMKAC 1 cut(s) 41
AccII CGCG 1 cut(s) 150
AciI CCGC 3 cut(s) 148, 150, 195
AcoI YGGCCR 1 cut(s) 161
AcsI RAATTY 2 cut(s) 75, 419
AgeI ACCGGT 1 cut(s) 133
AgsI TTSAA 4 cut(s) 11, 58, 326, 418
AluBI AGCT 3 cut(s) 140, 238, 335
AluI AGCT 3 cut(s) 140, 238, 335
Alw21I GWGCWC 1 cut(s) 345
AoxI GGCC 2 cut(s) 161, 355
ApeKI GCWGC 1 cut(s) 332
ApoI RAATTY 2 cut(s) 75, 419
AsiGI ACCGGT 1 cut(s) 133
AsuHPI GGTGA 2 cut(s) 385, 418
Bbv12I GWGCWC 1 cut(s) 345
BbvI GCAGC 1 cut(s) 344
BccI CCATC 2 cut(s) 278, 398
BceAI ACGGC 1 cut(s) 390
BclI TGATCA 1 cut(s) 124
BfaI CTAG 1 cut(s) 141
BfmI CTRYAG 1 cut(s) 297
BfuAI ACCTGC 1 cut(s) 437
BisI GCNGC 2 cut(s) 151, 333
BlsI GCNGC 2 cut(s) 152, 334
BmsI GCATC 1 cut(s) 200
BpmI CTGGAG 1 cut(s) 329
BsaJI CCNNGG 2 cut(s) 148, 259
BsaWI WCCGGW 1 cut(s) 133
Bse118I RCCGGY 1 cut(s) 133
Bse1I ACTGG 1 cut(s) 164
BseDI CCNNGG 2 cut(s) 148, 259
BseGI GGATG 2 cut(s) 103, 191
BseMII CTCAG 1 cut(s) 248
BseNI ACTGG 1 cut(s) 164
BseRI GAGGAG 1 cut(s) 203
BseXI GCAGC 1 cut(s) 344
Bsh1236I CGCG 1 cut(s) 150
BshFI GGCC 2 cut(s) 163, 357
BshTI ACCGGT 1 cut(s) 133
BsiHKAI GWGCWC 1 cut(s) 345
BsiSI CCGG 1 cut(s) 134
BsnI GGCC 2 cut(s) 163, 357
Bsp1286I GDGCHC 1 cut(s) 345
Bsp143I GATC 1 cut(s) 124
BspACI CCGC 3 cut(s) 148, 150, 195
BspANI GGCC 2 cut(s) 163, 357
BspCNI CTCAG 1 cut(s) 247
BspFNI CGCG 1 cut(s) 150
BspMI ACCTGC 1 cut(s) 437
BsrFI RCCGGY 1 cut(s) 133
BsrI ACTGG 1 cut(s) 164
BssAI RCCGGY 1 cut(s) 133
BssECI CCNNGG 2 cut(s) 148, 259
BssMI GATC 1 cut(s) 124
BssNAI GTATAC 1 cut(s) 42
Bst1107I GTATAC 1 cut(s) 42
BstC8I GCNNGC 1 cut(s) 452
BstDEI CTNAG 2 cut(s) 154, 234
BstDSI CCRYGG 1 cut(s) 148
BstF5I GGATG 2 cut(s) 103, 191
BstFNI CGCG 1 cut(s) 150
BstKTI GATC 1 cut(s) 127
BstMBI GATC 1 cut(s) 124
BstMWI GCNNNNNNNGC 1 cut(s) 451
BstSFI CTRYAG 1 cut(s) 297
BstUI CGCG 1 cut(s) 150
BstV1I GCAGC 1 cut(s) 344
BstZ17I GTATAC 1 cut(s) 42
BsuRI GGCC 2 cut(s) 163, 357
BtgI CCRYGG 1 cut(s) 148
BtsCI GGATG 2 cut(s) 103, 191
BveI ACCTGC 1 cut(s) 437
Cac8I GCNNGC 1 cut(s) 452
Cfr10I RCCGGY 1 cut(s) 133
Cfr42I CCGCGG 1 cut(s) 151
CspAI ACCGGT 1 cut(s) 133
CviAII CATG 2 cut(s) 34, 205
DdeI CTNAG 2 cut(s) 154, 234
DpnI GATC 1 cut(s) 126
DpnII GATC 1 cut(s) 124
EaeI YGGCCR 1 cut(s) 161
FaeI CATG 2 cut(s) 37, 208
FaiI YATR 7 cut(s) 35, 42, 206, 275, 386, 448, 496
FatI CATG 2 cut(s) 33, 204
FbaI TGATCA 1 cut(s) 124
FblI GTMKAC 1 cut(s) 41
Fnu4HI GCNGC 2 cut(s) 151, 333
FokI GGATG 2 cut(s) 90, 178
Fsp4HI GCNGC 2 cut(s) 151, 333
FspBI CTAG 1 cut(s) 141
GluI GCNGC 2 cut(s) 151, 333
GsuI CTGGAG 1 cut(s) 329
HaeIII GGCC 2 cut(s) 163, 357
HapII CCGG 1 cut(s) 134
Hin1II CATG 2 cut(s) 37, 208
HinfI GANTC 3 cut(s) 7, 97, 369
HpaII CCGG 1 cut(s) 134
HphI GGTGA 2 cut(s) 385, 418
Hpy166II GTNNAC 1 cut(s) 42
Hpy188I TCNGA 1 cut(s) 263
Hpy188III TCNNGA 3 cut(s) 11, 107, 463
Hpy8I GTNNAC 1 cut(s) 42
HpyAV CCTTC 1 cut(s) 52
HpyCH4V TGCA 1 cut(s) 245
HpyF10VI GCNNNNNNNGC 1 cut(s) 451
HpyF3I CTNAG 2 cut(s) 154, 234
Hsp92II CATG 2 cut(s) 37, 208
Ksp22I TGATCA 1 cut(s) 124
KspI CCGCGG 1 cut(s) 151
Kzo9I GATC 1 cut(s) 124
LmnI GCTCC 2 cut(s) 243, 348
LpnPI CCDG 9 cut(s) 79, 120, 145, 147, 255, 323, 359, 436, 442
Lsp1109I GCAGC 1 cut(s) 344
LweI GCATC 1 cut(s) 200
MaeI CTAG 1 cut(s) 141
MaeIII GTNAC 2 cut(s) 370, 424
MalI GATC 1 cut(s) 126
MboI GATC 1 cut(s) 124
MboII GAAGA 4 cut(s) 125, 128, 178, 373
MhlI GDGCHC 1 cut(s) 345
MluCI AATT 5 cut(s) 48, 75, 350, 419, 472
MlyI GAGTC 1 cut(s) 378
MmeI TCCRAC 1 cut(s) 342
MnlI CCTC 3 cut(s) 80, 224, 269
MseI TTAA 1 cut(s) 266
MslI CAYNNNNRTG 2 cut(s) 108, 440
MspA1I CMGCKG 1 cut(s) 150
MspI CCGG 1 cut(s) 134
MvnI CGCG 1 cut(s) 150
MwoI GCNNNNNNNGC 1 cut(s) 451
NdeII GATC 1 cut(s) 124
NlaIII CATG 2 cut(s) 37, 208
NmeAIII GCCGAG 2 cut(s) 69, 167
NmuCI GTSAC 2 cut(s) 370, 424
PaqCI CACCTGC 1 cut(s) 437
PfeI GAWTC 2 cut(s) 7, 97
PinAI ACCGGT 1 cut(s) 133
PkrI GCNGC 2 cut(s) 152, 334
PleI GAGTC 1 cut(s) 377
PpsI GAGTC 1 cut(s) 377
RseI CAYNNNNRTG 2 cut(s) 108, 440
SacII CCGCGG 1 cut(s) 151
SaqAI TTAA 1 cut(s) 266
SatI GCNGC 2 cut(s) 151, 333
Sau3AI GATC 1 cut(s) 124
SchI GAGTC 1 cut(s) 378
SduI GDGCHC 1 cut(s) 345
SetI ASST 4 cut(s) 142, 240, 337, 431
SfaNI GCATC 1 cut(s) 200
SfcI CTRYAG 1 cut(s) 297
Sfr303I CCGCGG 1 cut(s) 151
SgrBI CCGCGG 1 cut(s) 151
SmiMI CAYNNNNRTG 2 cut(s) 108, 440
Sse9I AATT 5 cut(s) 48, 75, 350, 419, 472
SsiI CCGC 3 cut(s) 148, 150, 195
SspMI CTAG 1 cut(s) 141
TasI AATT 5 cut(s) 48, 75, 350, 419, 472
TauI GCSGC 1 cut(s) 153
TfiI GAWTC 2 cut(s) 7, 97
Tru1I TTAA 1 cut(s) 266
Tru9I TTAA 1 cut(s) 266
TseFI GTSAC 2 cut(s) 370, 424
TseI GCWGC 1 cut(s) 332
Tsp45I GTSAC 2 cut(s) 370, 424
TspDTI ATGAA 5 cut(s) 50, 89, 126, 373, 424
TspGWI ACGGA 1 cut(s) 208
XapI RAATTY 2 cut(s) 75, 419
XcmI CCANNNNNNNNNTGG 1 cut(s) 408
XmiI GTMKAC 1 cut(s) 41
XspI CTAG 1 cut(s) 141
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.