Rorug06G0380800

PHAX RNA-binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0008081
Physical Location & Seq
Reverse (-)
52676923 .. 52677564
642 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0380800.1

Sequence Viewer

Length: 642 bp
ATGGGCCCTCTGAAAGAATCAGAACAACATGTTGTGGTCTGGAACAAAGCAATCAACCCAAGACATCACCTTAGTTGTTATGCATGGCTGGAGGAATTTCAGAAAGCTAGAGCAGCTCCTGCAAAAGCTCCAAAGCAACAGAACCAAAGATGGAAGCCGGCGGAGAATGGAGCATTCAAACTCAATATTGATGCTTCCTTCTTATCGGATCAAACCAAAGGTGATACAGGCGGAGTACTCGGAAATGCTTCGGGTCAATTTATTGCTGCATTTGCTAGTCCGATTGCTCATACTGCATCTCCTAAACAATGTGAATTGCATGCAATCCGAGCCGGGTTAGATCTCTTAAATACTCTTCAAAATCAAAATGTAGTAGTCGAAAGTGATTGTACTGAAGCTATCTCTGAAGCTACGTGTCTGGACCATTCTTTGCTGGCTCATGGTGGTATCATTGATGACATTAAGGCTGCTGCACGAAGGATACCCTCTATGCAGATTGCCTTTGCACCTTGTTCATGCAACATGGTTGCACAGAAACTTGGAGGCATAGGTTTTGAAGCTCAACATAGCACAATGTGGCTAGACTATGTTCCTAGCTGCATCATTGATGTCATAAATACTGATTGTGAATACCTCAATTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03013 map03013
Pfam Domains
Protein Families
RNA_GG_bind

Protein Analysis

213

Amino Acids

23.14

Weight (kDa)

5.87

Isoelectric Point (pI)

42.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 62 - 180 1.8e-15 Reverse transcriptase-like
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 161, 231
AclWI GGATC 1 cut(s) 216
AcsI RAATTY 1 cut(s) 95
AcuI CTGAAG 2 cut(s) 414, 426
AdeI CACNNNGTG 1 cut(s) 576
AfaI GTAC 2 cut(s) 237, 391
AflIII ACRYGT 2 cut(s) 28, 413
AgsI TTSAA 3 cut(s) 178, 359, 557
AluBI AGCT 7 cut(s) 107, 116, 128, 398, 410, 560, 597
AluI AGCT 7 cut(s) 107, 116, 128, 398, 410, 560, 597
AlwI GGATC 1 cut(s) 216
AlwNI CAGNNNCTG 1 cut(s) 119
AoxI GGCC 1 cut(s) 4
ApaI GGGCCC 1 cut(s) 8
ApeKI GCWGC 5 cut(s) 113, 266, 467, 470, 597
ApoI RAATTY 1 cut(s) 95
Asp700I GAANNNNTTC 1 cut(s) 247
AspS9I GGNCC 3 cut(s) 4, 5, 421
AsuC2I CCSGG 1 cut(s) 334
AsuHPI GGTGA 2 cut(s) 59, 233
AvaII GGWCC 1 cut(s) 421
BaeGI GKGCMC 1 cut(s) 8
BanII GRGCYC 1 cut(s) 8
BbvI GCAGC 5 cut(s) 125, 253, 454, 457, 584
BccI CCATC 1 cut(s) 144
BciVI GTATCC 1 cut(s) 474
BcnI CCSGG 1 cut(s) 334
BfaI CTAG 4 cut(s) 108, 276, 581, 594
BfuI GTATCC 1 cut(s) 474
BglII AGATCT 1 cut(s) 340
BisI GCNGC 5 cut(s) 114, 267, 468, 471, 598
BlsI GCNGC 5 cut(s) 115, 268, 469, 472, 599
BmcAI AGTACT 1 cut(s) 237
Bme1390I CCNGG 1 cut(s) 334
Bme18I GGWCC 1 cut(s) 421
BmgT120I GGNCC 3 cut(s) 4, 5, 421
BmiI GGNNCC 1 cut(s) 6
BmrFI CCNGG 1 cut(s) 334
BmsI GCATC 3 cut(s) 181, 305, 609
BpmI CTGGAG 1 cut(s) 110
BpuMI CCSGG 1 cut(s) 334
BsaAI YACGTR 1 cut(s) 414
BsaXI ACNNNNNCTCC 2 cut(s) 283, 313
Bse118I RCCGGY 1 cut(s) 157
BseSI GKGCMC 1 cut(s) 8
BseXI GCAGC 5 cut(s) 125, 253, 454, 457, 584
BsgI GTGCAG 1 cut(s) 456
BshFI GGCC 1 cut(s) 6
BsiSI CCGG 2 cut(s) 158, 333
BsmI GAATGC 1 cut(s) 173
BsnI GGCC 1 cut(s) 6
Bsp120I GGGCCC 1 cut(s) 4
Bsp1286I GDGCHC 1 cut(s) 8
Bsp143I GATC 2 cut(s) 208, 340
BspACI CCGC 2 cut(s) 161, 231
BspANI GGCC 1 cut(s) 6
BspLI GGNNCC 1 cut(s) 6
BspPI GGATC 1 cut(s) 216
BsrFI RCCGGY 1 cut(s) 157
BssAI RCCGGY 1 cut(s) 157
BssMI GATC 2 cut(s) 208, 340
Bst6I CTCTTC 1 cut(s) 360
BstAPI GCANNNNNTGC 1 cut(s) 119
BstBAI YACGTR 1 cut(s) 414
BstC8I GCNNGC 3 cut(s) 159, 321, 435
BstDEI CTNAG 1 cut(s) 71
BstKTI GATC 2 cut(s) 211, 343
BstMBI GATC 2 cut(s) 208, 340
BstMWI GCNNNNNNNGC 5 cut(s) 113, 119, 272, 293, 329
BstNSI RCATGY 2 cut(s) 32, 323
BstSCI CCNGG 1 cut(s) 332
BstSLI GKGCMC 1 cut(s) 8
BstV1I GCAGC 5 cut(s) 125, 253, 454, 457, 584
BstX2I RGATCY 1 cut(s) 340
BstYI RGATCY 1 cut(s) 340
BsuI GTATCC 1 cut(s) 474
BsuRI GGCC 1 cut(s) 6
Cac8I GCNNGC 3 cut(s) 159, 321, 435
CaiI CAGNNNCTG 1 cut(s) 119
Cfr10I RCCGGY 1 cut(s) 157
Cfr13I GGNCC 3 cut(s) 4, 5, 421
Csp6I GTAC 2 cut(s) 236, 390
CviAII CATG 6 cut(s) 29, 84, 320, 440, 516, 523
CviQI GTAC 2 cut(s) 236, 390
DdeI CTNAG 1 cut(s) 71
DpnI GATC 2 cut(s) 210, 342
DpnII GATC 2 cut(s) 208, 340
DraIII CACNNNGTG 1 cut(s) 576
Eam1104I CTCTTC 1 cut(s) 360
EarI CTCTTC 1 cut(s) 360
EciI GGCGGA 2 cut(s) 176, 246
Eco24I GRGCYC 1 cut(s) 8
Eco47I GGWCC 1 cut(s) 421
Eco57I CTGAAG 2 cut(s) 414, 426
EcoO109I RGGNCCY 1 cut(s) 5
EcoT22I ATGCAT 1 cut(s) 85
EcoT38I GRGCYC 1 cut(s) 8
FaeI CATG 6 cut(s) 32, 87, 323, 443, 519, 526
FatI CATG 6 cut(s) 28, 83, 319, 439, 515, 522
Fnu4HI GCNGC 5 cut(s) 114, 267, 468, 471, 598
FriOI GRGCYC 1 cut(s) 8
Fsp4HI GCNGC 5 cut(s) 114, 267, 468, 471, 598
FspBI CTAG 4 cut(s) 108, 276, 581, 594
GluI GCNGC 5 cut(s) 114, 267, 468, 471, 598
GsuI CTGGAG 1 cut(s) 110
HaeIII GGCC 1 cut(s) 6
HapII CCGG 2 cut(s) 158, 333
Hin1II CATG 6 cut(s) 32, 87, 323, 443, 519, 526
HinfI GANTC 1 cut(s) 17
HpaII CCGG 2 cut(s) 158, 333
HphI GGTGA 2 cut(s) 59, 233
Hpy188I TCNGA 8 cut(s) 12, 22, 102, 208, 242, 282, 329, 406
Hpy188III TCNNGA 2 cut(s) 40, 419
HpyAV CCTTC 2 cut(s) 208, 471
HpyCH4IV ACGT 1 cut(s) 413
HpyF10VI GCNNNNNNNGC 5 cut(s) 113, 119, 272, 293, 329
HpyF3I CTNAG 1 cut(s) 71
HpySE526I ACGT 1 cut(s) 413
Hsp92II CATG 6 cut(s) 32, 87, 323, 443, 519, 526
KroI GCCGGC 1 cut(s) 157
KroNI GCCGGC 1 cut(s) 159
Kzo9I GATC 2 cut(s) 208, 340
LmnI GCTCC 3 cut(s) 121, 133, 170
LpnPI CCDG 8 cut(s) 25, 74, 132, 171, 213, 346, 404, 419
Lsp1109I GCAGC 5 cut(s) 125, 253, 454, 457, 584
LweI GCATC 3 cut(s) 181, 305, 609
MaeI CTAG 4 cut(s) 108, 276, 581, 594
MaeII ACGT 1 cut(s) 413
MalI GATC 2 cut(s) 210, 342
MboI GATC 2 cut(s) 208, 340
MboII GAAGA 1 cut(s) 347
MfeI CAATTG 1 cut(s) 637
MflI RGATCY 1 cut(s) 340
MhlI GDGCHC 1 cut(s) 8
MluCI AATT 4 cut(s) 95, 257, 314, 637
MnlI CCTC 4 cut(s) 18, 85, 496, 536
Mph1103I ATGCAT 1 cut(s) 85
MroNI GCCGGC 1 cut(s) 157
MroXI GAANNNNTTC 1 cut(s) 247
MseI TTAA 2 cut(s) 347, 462
MspI CCGG 2 cut(s) 158, 333
MspR9I CCNGG 1 cut(s) 334
MunI CAATTG 1 cut(s) 637
Mva1269I GAATGC 1 cut(s) 173
MwoI GCNNNNNNNGC 5 cut(s) 113, 119, 272, 293, 329
NaeI GCCGGC 1 cut(s) 159
NciI CCSGG 1 cut(s) 334
NdeII GATC 2 cut(s) 208, 340
NgoMIV GCCGGC 1 cut(s) 157
NlaIII CATG 6 cut(s) 32, 87, 323, 443, 519, 526
NlaIV GGNNCC 1 cut(s) 6
NsiI ATGCAT 1 cut(s) 85
NspI RCATGY 2 cut(s) 32, 323
PaeI GCATGC 1 cut(s) 323
PciI ACATGT 1 cut(s) 28
PctI GAATGC 1 cut(s) 173
PdiI GCCGGC 1 cut(s) 159
PdmI GAANNNNTTC 1 cut(s) 247
PfeI GAWTC 1 cut(s) 17
PkrI GCNGC 5 cut(s) 115, 268, 469, 472, 599
Ppu21I YACGTR 1 cut(s) 414
PscI ACATGT 1 cut(s) 28
PspN4I GGNNCC 1 cut(s) 6
PspOMI GGGCCC 1 cut(s) 4
PspPI GGNCC 3 cut(s) 4, 5, 421
PstNI CAGNNNCTG 1 cut(s) 119
PsuI RGATCY 1 cut(s) 340
RsaI GTAC 2 cut(s) 237, 391
RsaNI GTAC 2 cut(s) 236, 390
SaqAI TTAA 2 cut(s) 347, 462
SatI GCNGC 5 cut(s) 114, 267, 468, 471, 598
Sau3AI GATC 2 cut(s) 208, 340
Sau96I GGNCC 3 cut(s) 4, 5, 421
ScaI AGTACT 1 cut(s) 237
ScrFI CCNGG 1 cut(s) 334
SduI GDGCHC 1 cut(s) 8
SfaNI GCATC 3 cut(s) 181, 305, 609
SinI GGWCC 1 cut(s) 421
SphI GCATGC 1 cut(s) 323
Sse9I AATT 4 cut(s) 95, 257, 314, 637
SsiI CCGC 2 cut(s) 161, 231
SspI AATATT 1 cut(s) 187
SspMI CTAG 4 cut(s) 108, 276, 581, 594
StyD4I CCNGG 1 cut(s) 332
TaiI ACGT 1 cut(s) 416
TaqI TCGA 1 cut(s) 378
TasI AATT 4 cut(s) 95, 257, 314, 637
TatI WGTACW 2 cut(s) 235, 389
TfiI GAWTC 1 cut(s) 17
Tru1I TTAA 2 cut(s) 347, 462
Tru9I TTAA 2 cut(s) 347, 462
TseI GCWGC 5 cut(s) 113, 266, 467, 470, 597
TspDTI ATGAA 1 cut(s) 504
VpaK11BI GGWCC 1 cut(s) 421
XapI RAATTY 1 cut(s) 95
XceI RCATGY 2 cut(s) 32, 323
XmnI GAANNNNTTC 1 cut(s) 247
XspI CTAG 4 cut(s) 108, 276, 581, 594
ZrmI AGTACT 1 cut(s) 237
Zsp2I ATGCAT 1 cut(s) 85
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.