Rw5G011130

transposition

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0018704
Physical Location & Seq
Reverse (-)
12554961 .. 12555580
620 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G011130.1

Sequence Viewer

Length: 432 bp
ATGTCTCATCCTATTCAGCTGATGATCAAGTTCAAGTTGGACAAGGTGACAGGCAAGGTGCTGTTTCAAGGCCTCAGTGAGAATGGACTTTACCCTATACCTGTATCAACGTCGAGAAATCTCTTCAACCCATCTTCCAATTCAGAGTCAGCTTTTCTTGGATCAAAGGTCACTCAGTCGCTATGGCATAAAAGATTGGGCCATCCTTCCAATGCTATTACATCATCTATGTTAGCAAAGTCTAGAGACCTTTTCAGTTTGTTGAGTCATCTAGTGTTTGTGAGTCTTGTCTTGCAGGCAAGTTTACTAAACTGCCTTTTCCTACATCTTGTACTAGGTCATCTACACCTTTTCATACAGTTCATTCTGATGTATGGGGTCCCTCTCCACATGTATCCATTGAAGGTTTTAAGTACTATCTCACCTTCATAG
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
HTH_21 rve

Protein Analysis

143

Amino Acids

15.93

Weight (kDa)

9.93

Isoelectric Point (pI)

41.55

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
gag_pre-integrs PF13976 30 - 80 4.4e-06 GAG-pre-integrase domain
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: OG0018704)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G03940
malus_domestica MD17G1120000.v1.1
pyrus_communis pycom03g19420 pycom10g09460 pycom10g21720 pycom13g28160 pycom14g05170
rosa_chinensis RchiOBHm_Chr3g0491631
rosa_wichuraiana Rw5G011130

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 169
AfaI GTAC 2 cut(s) 333, 415
AflIII ACRYGT 1 cut(s) 390
AgsI TTSAA 4 cut(s) 34, 68, 127, 403
AluBI AGCT 2 cut(s) 19, 152
AluI AGCT 2 cut(s) 19, 152
Alw26I GTCTC 2 cut(s) 9, 240
AlwI GGATC 1 cut(s) 169
AoxI GGCC 2 cut(s) 70, 199
AspS9I GGNCC 2 cut(s) 199, 379
AsuHPI GGTGA 2 cut(s) 58, 414
AvaII GGWCC 1 cut(s) 379
BccI CCATC 2 cut(s) 139, 210
BciVI GTATCC 1 cut(s) 405
BclI TGATCA 1 cut(s) 24
BcoDI GTCTC 2 cut(s) 9, 240
BfaI CTAG 3 cut(s) 243, 272, 335
BfuI GTATCC 1 cut(s) 405
BmcAI AGTACT 1 cut(s) 415
Bme18I GGWCC 1 cut(s) 379
BmgT120I GGNCC 2 cut(s) 199, 379
BmiI GGNNCC 2 cut(s) 380, 381
BsaI GGTCTC 1 cut(s) 240
BseGI GGATG 2 cut(s) 7, 202
BseMII CTCAG 2 cut(s) 88, 188
BshFI GGCC 2 cut(s) 72, 201
BslFI GGGAC 1 cut(s) 365
BsmAI GTCTC 2 cut(s) 9, 240
BsmFI GGGAC 1 cut(s) 365
BsnI GGCC 2 cut(s) 72, 201
Bso31I GGTCTC 1 cut(s) 240
Bsp143I GATC 2 cut(s) 24, 161
BspANI GGCC 2 cut(s) 72, 201
BspCNI CTCAG 2 cut(s) 87, 187
BspLI GGNNCC 2 cut(s) 380, 381
BspPI GGATC 1 cut(s) 169
BspTNI GGTCTC 1 cut(s) 240
BssMI GATC 2 cut(s) 24, 161
Bst4CI ACNGT 1 cut(s) 360
Bst6I CTCTTC 1 cut(s) 128
BstC8I GCNNGC 1 cut(s) 297
BstDEI CTNAG 2 cut(s) 74, 174
BstF5I GGATG 2 cut(s) 7, 202
BstKTI GATC 2 cut(s) 27, 164
BstMAI GTCTC 2 cut(s) 9, 240
BstMBI GATC 2 cut(s) 24, 161
BstNSI RCATGY 1 cut(s) 394
BsuI GTATCC 1 cut(s) 405
BsuRI GGCC 2 cut(s) 72, 201
BtsCI GGATG 2 cut(s) 7, 202
BtsIMutI CAGTG 1 cut(s) 82
Cac8I GCNNGC 1 cut(s) 297
Cfr13I GGNCC 2 cut(s) 199, 379
Csp6I GTAC 2 cut(s) 332, 414
CviAII CATG 1 cut(s) 391
CviJI RGCY 4 cut(s) 19, 72, 152, 201
CviKI_1 RGCY 4 cut(s) 19, 72, 152, 201
CviQI GTAC 2 cut(s) 332, 414
DdeI CTNAG 2 cut(s) 74, 174
DpnI GATC 2 cut(s) 26, 163
DpnII GATC 2 cut(s) 24, 161
Eam1104I CTCTTC 1 cut(s) 128
EarI CTCTTC 1 cut(s) 128
Eco147I AGGCCT 1 cut(s) 72
Eco31I GGTCTC 1 cut(s) 240
Eco47I GGWCC 1 cut(s) 379
EcoO109I RGGNCCY 1 cut(s) 379
FaeI CATG 1 cut(s) 394
FaiI YATR 8 cut(s) 98, 184, 189, 230, 356, 375, 392, 430
FaqI GGGAC 1 cut(s) 365
FatI CATG 1 cut(s) 390
FbaI TGATCA 1 cut(s) 24
FokI GGATG 1 cut(s) 189
FspBI CTAG 3 cut(s) 243, 272, 335
HaeIII GGCC 2 cut(s) 72, 201
Hin1II CATG 1 cut(s) 394
HinfI GANTC 3 cut(s) 146, 265, 283
HphI GGTGA 2 cut(s) 58, 414
Hpy166II GTNNAC 1 cut(s) 305
Hpy188I TCNGA 2 cut(s) 145, 369
Hpy188III TCNNGA 2 cut(s) 114, 243
Hpy8I GTNNAC 1 cut(s) 305
Hpy99I CGWCG 1 cut(s) 115
HpyAV CCTTC 2 cut(s) 216, 397
HpyCH4III ACNGT 1 cut(s) 360
HpyCH4IV ACGT 1 cut(s) 110
HpyCH4V TGCA 1 cut(s) 295
HpyF3I CTNAG 2 cut(s) 74, 174
HpySE526I ACGT 1 cut(s) 110
Hsp92II CATG 1 cut(s) 394
KflI GGGWCCC 1 cut(s) 379
Ksp22I TGATCA 1 cut(s) 24
Kzo9I GATC 2 cut(s) 24, 161
LpnPI CCDG 3 cut(s) 36, 114, 281
MaeI CTAG 3 cut(s) 243, 272, 335
MaeII ACGT 1 cut(s) 110
MaeIII GTNAC 2 cut(s) 46, 169
MalI GATC 2 cut(s) 26, 163
MboI GATC 2 cut(s) 24, 161
MboII GAAGA 2 cut(s) 115, 126
MluCI AATT 1 cut(s) 139
MlyI GAGTC 3 cut(s) 155, 274, 292
MmeI TCCRAC 1 cut(s) 18
MnlI CCTC 2 cut(s) 83, 393
MseI TTAA 1 cut(s) 410
MslI CAYNNNNRTG 1 cut(s) 368
MspA1I CMGCKG 1 cut(s) 19
NdeII GATC 2 cut(s) 24, 161
NlaIII CATG 1 cut(s) 394
NlaIV GGNNCC 2 cut(s) 380, 381
NmuCI GTSAC 2 cut(s) 46, 169
NspI RCATGY 1 cut(s) 394
PceI AGGCCT 1 cut(s) 72
PciI ACATGT 1 cut(s) 390
PleI GAGTC 3 cut(s) 154, 273, 291
PpsI GAGTC 3 cut(s) 154, 273, 291
PpuMI RGGWCCY 1 cut(s) 379
PscI ACATGT 1 cut(s) 390
Psp5II RGGWCCY 1 cut(s) 379
PspN4I GGNNCC 2 cut(s) 380, 381
PspPI GGNCC 2 cut(s) 199, 379
PspPPI RGGWCCY 1 cut(s) 379
PvuII CAGCTG 1 cut(s) 19
RsaI GTAC 2 cut(s) 333, 415
RsaNI GTAC 2 cut(s) 332, 414
RseI CAYNNNNRTG 1 cut(s) 368
SaqAI TTAA 1 cut(s) 410
Sau3AI GATC 2 cut(s) 24, 161
Sau96I GGNCC 2 cut(s) 199, 379
ScaI AGTACT 1 cut(s) 415
SchI GAGTC 3 cut(s) 155, 274, 292
SinI GGWCC 1 cut(s) 379
SmiMI CAYNNNNRTG 1 cut(s) 368
Sse9I AATT 1 cut(s) 139
SseBI AGGCCT 1 cut(s) 72
SspMI CTAG 3 cut(s) 243, 272, 335
StuI AGGCCT 1 cut(s) 72
TaaI ACNGT 1 cut(s) 360
TaiI ACGT 1 cut(s) 113
TaqI TCGA 1 cut(s) 113
TasI AATT 1 cut(s) 139
TatI WGTACW 2 cut(s) 331, 413
Tru1I TTAA 1 cut(s) 410
Tru9I TTAA 1 cut(s) 410
TscAI CASTG 1 cut(s) 82
TseFI GTSAC 2 cut(s) 46, 169
Tsp45I GTSAC 2 cut(s) 46, 169
TspDTI ATGAA 3 cut(s) 343, 352, 417
TspRI CASTG 1 cut(s) 82
VpaK11BI GGWCC 1 cut(s) 379
XbaI TCTAGA 1 cut(s) 242
XceI RCATGY 1 cut(s) 394
XspI CTAG 3 cut(s) 243, 272, 335
ZrmI AGTACT 1 cut(s) 415
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.