Rorug04G0122100

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0009810
Physical Location & Seq
Reverse (-)
19355459 .. 19355878
420 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0122100.1

Sequence Viewer

Length: 420 bp
ATGTATTCTGTTCGGAGTGGCTATCACACTTTTCGTTCAACTGAGAACCTAACTGAGCATGCTTCTACGTCAAATAGTTCAGGAAGAGGTGGACTTGATAAGTGGATGATTGCATGGCATGCATGTGTGCCACCAAAGGTACGTTCTTTTACTTGGAGGCTCCTAAAAGGCATATTGCCCACTAAAGGGGCCCTAGCTAAAAGGTGCAAGATAGATGATTTGAATTGTGTGTTTTGTCACCAAGCTTTGGAGGATGATCTGCATGTTATTCGCAATTGCAAAAGGGTGGAGGAATATTGGTTTTTTGGACCACTTAGCTTGAAGACAAGGATGGTGCATGTTGACAACCTTGCTGCATGGGTACTTGATGTTGCTGAAACACTAACCCAACAACAGCGTGATGTTTTCTACTTTTCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000166 GO:0000959 GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003697 GO:0003723 GO:0005488 GO:0005507 GO:0005524 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006139 GO:0006355 GO:0006725 GO:0006807 GO:0006950 GO:0006970 GO:0007275 GO:0008144 GO:0008150 GO:0008152 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009451 GO:0009628 GO:0009631 GO:0009651 GO:0009791 GO:0009845 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010035 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0016070 GO:0017076 GO:0019219 GO:0019222 GO:0030554 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031554 GO:0032501 GO:0032502 GO:0032553 GO:0032555 GO:0032559 GO:0034336 GO:0034641 GO:0035639 GO:0036094 GO:0042221 GO:0043167 GO:0043168 GO:0043169 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043242 GO:0043244 GO:0043412 GO:0044237 GO:0044238 GO:0044424 GO:0044444 GO:0044464 GO:0045892 GO:0045934 GO:0046483 GO:0046872 GO:0046914 GO:0048519 GO:0048523 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051129 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0060567 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090351 GO:0097159 GO:0097367 GO:1900864 GO:1901265 GO:1901360 GO:1901363 GO:1901700 GO:1902679 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RRM_1

Protein Analysis

139

Amino Acids

16.07

Weight (kDa)

8.88

Isoelectric Point (pI)

43.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 2 - 100 4e-14 zinc-binding in reverse transcriptase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 247
AfaI GTAC 2 cut(s) 141, 363
AfiI CCNNNNNNNGG 3 cut(s) 185, 186, 247
AgsI TTSAA 3 cut(s) 39, 223, 322
AjuI GAANNNNNNNTTGG 2 cut(s) 127, 159
AluBI AGCT 3 cut(s) 197, 245, 318
AluI AGCT 3 cut(s) 197, 245, 318
AoxI GGCC 1 cut(s) 189
ApaI GGGCCC 1 cut(s) 193
ApeKI GCWGC 1 cut(s) 353
AspS9I GGNCC 3 cut(s) 189, 190, 308
AsuHPI GGTGA 1 cut(s) 230
AvaII GGWCC 1 cut(s) 308
BaeGI GKGCMC 1 cut(s) 193
BanII GRGCYC 1 cut(s) 193
BbsI GAAGAC 1 cut(s) 329
BbvI GCAGC 1 cut(s) 340
BccI CCATC 1 cut(s) 325
BcgI CGANNNNNNTGC 2 cut(s) 251, 285
BfaI CTAG 1 cut(s) 194
BisI GCNGC 1 cut(s) 354
BlsI GCNGC 1 cut(s) 355
Bme18I GGWCC 1 cut(s) 308
BmgT120I GGNCC 3 cut(s) 189, 190, 308
BmiI GGNNCC 3 cut(s) 161, 190, 191
BpiI GAAGAC 1 cut(s) 329
Bsc4I CCNNNNNNNGG 3 cut(s) 185, 186, 247
BseGI GGATG 3 cut(s) 111, 259, 336
BseLI CCNNNNNNNGG 3 cut(s) 185, 186, 247
BseMII CTCAG 2 cut(s) 33, 45
BseSI GKGCMC 1 cut(s) 193
BseXI GCAGC 1 cut(s) 340
BshFI GGCC 1 cut(s) 191
BslI CCNNNNNNNGG 3 cut(s) 185, 186, 247
BsnI GGCC 1 cut(s) 191
Bsp120I GGGCCC 1 cut(s) 189
Bsp1286I GDGCHC 1 cut(s) 193
Bsp143I GATC 1 cut(s) 256
BspANI GGCC 1 cut(s) 191
BspCNI CTCAG 2 cut(s) 34, 46
BspLI GGNNCC 3 cut(s) 161, 190, 191
BssMI GATC 1 cut(s) 256
Bst6I CTCTTC 1 cut(s) 79
BstAPI GCANNNNNTGC 1 cut(s) 119
BstC8I GCNNGC 2 cut(s) 60, 120
BstDEI CTNAG 3 cut(s) 42, 54, 314
BstF5I GGATG 3 cut(s) 111, 259, 336
BstKTI GATC 1 cut(s) 259
BstMBI GATC 1 cut(s) 256
BstMWI GCNNNNNNNGC 1 cut(s) 119
BstNSI RCATGY 5 cut(s) 62, 122, 126, 266, 341
BstSLI GKGCMC 1 cut(s) 193
BstV1I GCAGC 1 cut(s) 340
BstV2I GAAGAC 1 cut(s) 329
BsuRI GGCC 1 cut(s) 191
BtsCI GGATG 3 cut(s) 111, 259, 336
Cac8I GCNNGC 2 cut(s) 60, 120
Cfr13I GGNCC 3 cut(s) 189, 190, 308
Csp6I GTAC 2 cut(s) 140, 362
CspCI CAANNNNNGTGG 2 cut(s) 300, 335
CviAII CATG 7 cut(s) 59, 114, 119, 123, 263, 338, 357
CviJI RGCY 6 cut(s) 21, 160, 191, 197, 245, 318
CviKI_1 RGCY 6 cut(s) 21, 160, 191, 197, 245, 318
CviQI GTAC 2 cut(s) 140, 362
DdeI CTNAG 3 cut(s) 42, 54, 314
DpnI GATC 1 cut(s) 258
DpnII GATC 1 cut(s) 256
Eam1104I CTCTTC 1 cut(s) 79
EarI CTCTTC 1 cut(s) 79
Eco24I GRGCYC 1 cut(s) 193
Eco47I GGWCC 1 cut(s) 308
EcoO109I RGGNCCY 2 cut(s) 189, 190
EcoT22I ATGCAT 1 cut(s) 124
EcoT38I GRGCYC 1 cut(s) 193
FaeI CATG 7 cut(s) 62, 117, 122, 126, 266, 341, 360
FaiI YATR 8 cut(s) 60, 115, 120, 124, 173, 264, 339, 358
FatI CATG 7 cut(s) 58, 113, 118, 122, 262, 337, 356
Fnu4HI GCNGC 1 cut(s) 354
FokI GGATG 3 cut(s) 118, 266, 343
FriOI GRGCYC 1 cut(s) 193
Fsp4HI GCNGC 1 cut(s) 354
FspBI CTAG 1 cut(s) 194
GluI GCNGC 1 cut(s) 354
HaeIII GGCC 1 cut(s) 191
Hin1II CATG 7 cut(s) 62, 117, 122, 126, 266, 341, 360
HincII GTYRAC 1 cut(s) 343
HindII GTYRAC 1 cut(s) 343
HindIII AAGCTT 1 cut(s) 243
HphI GGTGA 1 cut(s) 230
Hpy166II GTNNAC 2 cut(s) 92, 343
Hpy188I TCNGA 1 cut(s) 15
Hpy188III TCNNGA 2 cut(s) 81, 417
Hpy8I GTNNAC 2 cut(s) 92, 343
HpyCH4IV ACGT 2 cut(s) 68, 142
HpyCH4V TGCA 7 cut(s) 113, 122, 207, 262, 279, 337, 356
HpyF10VI GCNNNNNNNGC 1 cut(s) 119
HpyF3I CTNAG 3 cut(s) 42, 54, 314
HpySE526I ACGT 2 cut(s) 68, 142
Hsp92II CATG 7 cut(s) 62, 117, 122, 126, 266, 341, 360
Kzo9I GATC 1 cut(s) 256
LmnI GCTCC 1 cut(s) 165
LpnPI CCDG 1 cut(s) 66
Lsp1109I GCAGC 1 cut(s) 340
MaeI CTAG 1 cut(s) 194
MaeII ACGT 2 cut(s) 68, 142
MaeIII GTNAC 1 cut(s) 236
MalI GATC 1 cut(s) 258
MboI GATC 1 cut(s) 256
MboII GAAGA 2 cut(s) 96, 334
MfeI CAATTG 1 cut(s) 274
MhlI GDGCHC 1 cut(s) 193
MluCI AATT 2 cut(s) 223, 274
MnlI CCTC 4 cut(s) 80, 150, 244, 283
Mph1103I ATGCAT 1 cut(s) 124
MslI CAYNNNNRTG 1 cut(s) 123
MunI CAATTG 1 cut(s) 274
MwoI GCNNNNNNNGC 1 cut(s) 119
NdeII GATC 1 cut(s) 256
NlaIII CATG 7 cut(s) 62, 117, 122, 126, 266, 341, 360
NlaIV GGNNCC 3 cut(s) 161, 190, 191
NmuCI GTSAC 1 cut(s) 236
NsiI ATGCAT 1 cut(s) 124
NspI RCATGY 5 cut(s) 62, 122, 126, 266, 341
PaeI GCATGC 2 cut(s) 62, 122
PflMI CCANNNNNTGG 1 cut(s) 247
PkrI GCNGC 1 cut(s) 355
PspN4I GGNNCC 3 cut(s) 161, 190, 191
PspOMI GGGCCC 1 cut(s) 189
PspPI GGNCC 3 cut(s) 189, 190, 308
RsaI GTAC 2 cut(s) 141, 363
RsaNI GTAC 2 cut(s) 140, 362
RseI CAYNNNNRTG 1 cut(s) 123
SatI GCNGC 1 cut(s) 354
Sau3AI GATC 1 cut(s) 256
Sau96I GGNCC 3 cut(s) 189, 190, 308
SduI GDGCHC 1 cut(s) 193
SinI GGWCC 1 cut(s) 308
SmiMI CAYNNNNRTG 1 cut(s) 123
SphI GCATGC 2 cut(s) 62, 122
Sse9I AATT 2 cut(s) 223, 274
SspI AATATT 1 cut(s) 296
SspMI CTAG 1 cut(s) 194
TaiI ACGT 2 cut(s) 71, 145
TasI AATT 2 cut(s) 223, 274
TseFI GTSAC 1 cut(s) 236
TseI GCWGC 1 cut(s) 353
Tsp45I GTSAC 1 cut(s) 236
Van91I CCANNNNNTGG 1 cut(s) 247
VpaK11BI GGWCC 1 cut(s) 308
XceI RCATGY 5 cut(s) 62, 122, 126, 266, 341
XspI CTAG 1 cut(s) 194
Zsp2I ATGCAT 1 cut(s) 124
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.