Rorug02G0287200

Retrotransposon gag protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000002
OG0000790
Physical Location & Seq
Forward (+)
31346134 .. 31348905
2772 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug02G0287200.1

Sequence Viewer

Length: 576 bp
ATGAGAGTCAAGATGGCCATGGAGACTGATGACTCGAATTGGCCGGTTTCAGGGCACTCTGTCTTCCGCCTTTGTTCCGGAGAATGGGCCTTGGAAGGGATCTCCATGGCGTGTGCTTCAGGAGAAGTGGGAATGAACGAGTTTCTTGATCAATACCTCTATGATATTCTGCAGAATGCTAAGAGGGTGAGCCCATGGCAAGTTGACTTTGTTGCATCAACACCTTCTCTTCATACTGTACCTTCGCTTCATACTGTATATCCCCCCACAAAGAGACTCAGAGCTCCACTGAATCCTGGGCTGCTGAGAAATGGAGACGAAGAATTCATGATACCTATGACCGGAGCAGAAAATTCACCAATGGAGAAATTCAATGCTTCCTTGTTGAACCGTAACATTTTTCCTGCTGGCATGCAGGGAGCCAGGCAAGATCTATTCTGTGTATCCAATGTATCTCATTTATTAAATGAAAATTCTCCTCGGATGTGCACCTGTAATTCCTTTGGCAACAACAACATGGTGCCAAGGTTGAAGAGGGTGTCTACTGAGTTGAACATTGGAAGTCCACAGGCCTGA
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
Retrotrans_gag

Protein Analysis

191

Amino Acids

21.21

Weight (kDa)

6.07

Isoelectric Point (pI)

46.13

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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 520
AccI GTMKAC 1 cut(s) 542
AccIII TCCGGA 1 cut(s) 77
AciI CCGC 1 cut(s) 67
AclWI GGATC 1 cut(s) 107
AcoI YGGCCR 2 cut(s) 15, 41
AcsI RAATTY 4 cut(s) 323, 352, 368, 472
AcuI CTGAAG 1 cut(s) 102
AfaI GTAC 1 cut(s) 240
AfiI CCNNNNNNNGG 4 cut(s) 50, 84, 96, 341
AgsI TTSAA 4 cut(s) 373, 388, 532, 553
AjnI CCWGG 2 cut(s) 295, 422
AluBI AGCT 1 cut(s) 284
AluI AGCT 1 cut(s) 284
Alw21I GWGCWC 2 cut(s) 286, 491
Alw26I GTCTC 3 cut(s) 17, 268, 309
Alw44I GTGCAC 1 cut(s) 487
AlwI GGATC 1 cut(s) 107
Aor13HI TCCGGA 1 cut(s) 77
AoxI GGCC 4 cut(s) 15, 41, 87, 570
ApaLI GTGCAC 1 cut(s) 487
ApeKI GCWGC 1 cut(s) 301
ApoI RAATTY 4 cut(s) 323, 352, 368, 472
AspS9I GGNCC 1 cut(s) 87
AsuHPI GGTGA 2 cut(s) 199, 348
BaeGI GKGCMC 2 cut(s) 57, 491
BalI TGGCCA 1 cut(s) 17
BanI GGYRCC 1 cut(s) 520
BanII GRGCYC 2 cut(s) 194, 286
BarI GAAGNNNNNNTAC 2 cut(s) 231, 263
BbsI GAAGAC 1 cut(s) 55
Bbv12I GWGCWC 2 cut(s) 286, 491
BbvI GCAGC 1 cut(s) 288
BccI CCATC 1 cut(s) 7
BciT130I CCWGG 2 cut(s) 297, 424
BciVI GTATCC 1 cut(s) 454
BclI TGATCA 1 cut(s) 148
BcoDI GTCTC 3 cut(s) 17, 268, 309
BfmI CTRYAG 1 cut(s) 170
BfuI GTATCC 1 cut(s) 454
BglII AGATCT 1 cut(s) 430
BisI GCNGC 1 cut(s) 302
BlsI GCNGC 1 cut(s) 303
Bme1390I CCNGG 2 cut(s) 297, 424
BmgT120I GGNCC 1 cut(s) 87
BmiI GGNNCC 2 cut(s) 421, 522
BmrFI CCNGG 2 cut(s) 297, 424
BmsI GCATC 1 cut(s) 224
BpiI GAAGAC 1 cut(s) 55
BsaJI CCNNGG 7 cut(s) 18, 90, 105, 194, 296, 479, 524
BsaWI WCCGGW 2 cut(s) 77, 341
Bsc4I CCNNNNNNNGG 4 cut(s) 50, 84, 96, 341
Bse118I RCCGGY 1 cut(s) 43
BseAI TCCGGA 1 cut(s) 77
BseBI CCWGG 2 cut(s) 297, 424
BseDI CCNNGG 7 cut(s) 18, 90, 105, 194, 296, 479, 524
BseGI GGATG 1 cut(s) 489
BseLI CCNNNNNNNGG 4 cut(s) 50, 84, 96, 341
BseMII CTCAG 3 cut(s) 292, 296, 537
BseRI GAGGAG 1 cut(s) 468
BseSI GKGCMC 2 cut(s) 57, 491
BseXI GCAGC 1 cut(s) 288
BshFI GGCC 4 cut(s) 17, 43, 89, 572
BshNI GGYRCC 1 cut(s) 520
BsiHKAI GWGCWC 2 cut(s) 286, 491
BsiSI CCGG 3 cut(s) 44, 78, 342
BslI CCNNNNNNNGG 4 cut(s) 50, 84, 96, 341
BsmAI GTCTC 3 cut(s) 17, 268, 309
BsmBI CGTCTC 1 cut(s) 309
BsmI GAATGC 1 cut(s) 181
BsnI GGCC 4 cut(s) 17, 43, 89, 572
Bsp1286I GDGCHC 4 cut(s) 57, 194, 286, 491
Bsp13I TCCGGA 1 cut(s) 77
Bsp143I GATC 3 cut(s) 99, 148, 430
Bsp19I CCATGG 3 cut(s) 18, 105, 194
BspACI CCGC 1 cut(s) 67
BspANI GGCC 4 cut(s) 17, 43, 89, 572
BspCNI CTCAG 3 cut(s) 291, 297, 538
BspEI TCCGGA 1 cut(s) 77
BspHI TCATGA 1 cut(s) 327
BspLI GGNNCC 2 cut(s) 421, 522
BspMAI CTGCAG 1 cut(s) 174
BspPI GGATC 1 cut(s) 107
BspT107I GGYRCC 1 cut(s) 520
BsrFI RCCGGY 1 cut(s) 43
BssAI RCCGGY 1 cut(s) 43
BssECI CCNNGG 7 cut(s) 18, 90, 105, 194, 296, 479, 524
BssMI GATC 3 cut(s) 99, 148, 430
BssT1I CCWWGG 5 cut(s) 18, 90, 105, 194, 524
Bst2UI CCWGG 2 cut(s) 297, 424
Bst4CI ACNGT 3 cut(s) 238, 256, 392
Bst6I CTCTTC 2 cut(s) 234, 527
BstC8I GCNNGC 2 cut(s) 409, 413
BstDEI CTNAG 4 cut(s) 180, 278, 305, 546
BstDSI CCRYGG 3 cut(s) 18, 105, 194
BstF5I GGATG 1 cut(s) 489
BstKTI GATC 3 cut(s) 102, 151, 433
BstMAI GTCTC 3 cut(s) 17, 268, 309
BstMBI GATC 3 cut(s) 99, 148, 430
BstNI CCWGG 2 cut(s) 297, 424
BstNSI RCATGY 1 cut(s) 415
BstSCI CCNGG 2 cut(s) 295, 422
BstSFI CTRYAG 1 cut(s) 170
BstSLI GKGCMC 2 cut(s) 57, 491
BstV1I GCAGC 1 cut(s) 288
BstV2I GAAGAC 1 cut(s) 55
BstX2I RGATCY 2 cut(s) 99, 430
BstYI RGATCY 2 cut(s) 99, 430
BsuI GTATCC 1 cut(s) 454
BsuRI GGCC 4 cut(s) 17, 43, 89, 572
BtgI CCRYGG 3 cut(s) 18, 105, 194
BtsCI GGATG 1 cut(s) 489
BtsIMutI CAGTG 1 cut(s) 287
Cac8I GCNNGC 2 cut(s) 409, 413
CciI TCATGA 1 cut(s) 327
Cfr10I RCCGGY 1 cut(s) 43
Cfr13I GGNCC 1 cut(s) 87
Csp6I GTAC 1 cut(s) 239
CviAII CATG 6 cut(s) 19, 106, 195, 328, 412, 517
CviJI RGCY 8 cut(s) 17, 43, 89, 192, 284, 301, 422, 572
CviKI_1 RGCY 8 cut(s) 17, 43, 89, 192, 284, 301, 422, 572
CviQI GTAC 1 cut(s) 239
DdeI CTNAG 4 cut(s) 180, 278, 305, 546
DpnI GATC 3 cut(s) 101, 150, 432
DpnII GATC 3 cut(s) 99, 148, 430
EaeI YGGCCR 2 cut(s) 15, 41
Eam1104I CTCTTC 2 cut(s) 234, 527
EarI CTCTTC 2 cut(s) 234, 527
EciI GGCGGA 1 cut(s) 56
Ecl136II GAGCTC 1 cut(s) 284
Eco130I CCWWGG 5 cut(s) 18, 90, 105, 194, 524
Eco147I AGGCCT 1 cut(s) 572
Eco24I GRGCYC 2 cut(s) 194, 286
Eco53kI GAGCTC 1 cut(s) 284
Eco57I CTGAAG 1 cut(s) 102
EcoICRI GAGCTC 1 cut(s) 284
EcoRI GAATTC 1 cut(s) 323
EcoRII CCWGG 2 cut(s) 295, 422
EcoT14I CCWWGG 5 cut(s) 18, 90, 105, 194, 524
EcoT38I GRGCYC 2 cut(s) 194, 286
ErhI CCWWGG 5 cut(s) 18, 90, 105, 194, 524
Esp3I CGTCTC 1 cut(s) 309
FaeI CATG 6 cut(s) 22, 109, 198, 331, 415, 520
FatI CATG 6 cut(s) 18, 105, 194, 327, 411, 516
FbaI TGATCA 1 cut(s) 148
FblI GTMKAC 1 cut(s) 542
Fnu4HI GCNGC 1 cut(s) 302
FokI GGATG 1 cut(s) 496
FriOI GRGCYC 2 cut(s) 194, 286
Fsp4HI GCNGC 1 cut(s) 302
GluI GCNGC 1 cut(s) 302
HaeIII GGCC 4 cut(s) 17, 43, 89, 572
HapII CCGG 3 cut(s) 44, 78, 342
Hin1II CATG 6 cut(s) 22, 109, 198, 331, 415, 520
HincII GTYRAC 1 cut(s) 205
HindII GTYRAC 1 cut(s) 205
HinfI GANTC 4 cut(s) 6, 32, 276, 292
HpaII CCGG 3 cut(s) 44, 78, 342
HphI GGTGA 2 cut(s) 199, 348
Hpy166II GTNNAC 4 cut(s) 205, 489, 543, 566
Hpy188I TCNGA 2 cut(s) 281, 483
Hpy188III TCNNGA 5 cut(s) 10, 78, 120, 146, 328
Hpy8I GTNNAC 4 cut(s) 205, 489, 543, 566
HpyAV CCTTC 3 cut(s) 89, 234, 252
HpyCH4III ACNGT 3 cut(s) 238, 256, 392
HpyCH4V TGCA 4 cut(s) 172, 215, 415, 489
HpyF3I CTNAG 4 cut(s) 180, 278, 305, 546
Hsp92II CATG 6 cut(s) 22, 109, 198, 331, 415, 520
Kpn2I TCCGGA 1 cut(s) 77
Ksp22I TGATCA 1 cut(s) 148
Kzo9I GATC 3 cut(s) 99, 148, 430
LmnI GCTCC 3 cut(s) 289, 344, 419
Lsp1109I GCAGC 1 cut(s) 288
LweI GCATC 1 cut(s) 224
MaeIII GTNAC 1 cut(s) 392
MalI GATC 3 cut(s) 101, 150, 432
MboI GATC 3 cut(s) 99, 148, 430
MboII GAAGA 4 cut(s) 55, 221, 332, 544
MflI RGATCY 2 cut(s) 99, 430
MhlI GDGCHC 4 cut(s) 57, 194, 286, 491
MlsI TGGCCA 1 cut(s) 17
MluCI AATT 6 cut(s) 37, 323, 352, 368, 472, 496
MluNI TGGCCA 1 cut(s) 17
MlyI GAGTC 3 cut(s) 15, 26, 270
MnlI CCTC 4 cut(s) 167, 177, 489, 528
Mox20I TGGCCA 1 cut(s) 17
MroI TCCGGA 1 cut(s) 77
MscI TGGCCA 1 cut(s) 17
MseI TTAA 1 cut(s) 464
Msp20I TGGCCA 1 cut(s) 17
MspI CCGG 3 cut(s) 44, 78, 342
MspR9I CCNGG 2 cut(s) 297, 424
Mva1269I GAATGC 1 cut(s) 181
MvaI CCWGG 2 cut(s) 297, 424
NcoI CCATGG 3 cut(s) 18, 105, 194
NdeII GATC 3 cut(s) 99, 148, 430
NlaIII CATG 6 cut(s) 22, 109, 198, 331, 415, 520
NlaIV GGNNCC 2 cut(s) 421, 522
NspI RCATGY 1 cut(s) 415
PaeI GCATGC 1 cut(s) 415
PagI TCATGA 1 cut(s) 327
PceI AGGCCT 1 cut(s) 572
PctI GAATGC 1 cut(s) 181
PfeI GAWTC 1 cut(s) 292
PkrI GCNGC 1 cut(s) 303
PleI GAGTC 3 cut(s) 14, 26, 270
PpsI GAGTC 3 cut(s) 14, 26, 270
Psp124BI GAGCTC 1 cut(s) 286
Psp6I CCWGG 2 cut(s) 295, 422
PspGI CCWGG 2 cut(s) 295, 422
PspN4I GGNNCC 2 cut(s) 421, 522
PspPI GGNCC 1 cut(s) 87
PstI CTGCAG 1 cut(s) 174
PsuI RGATCY 2 cut(s) 99, 430
RsaI GTAC 1 cut(s) 240
RsaNI GTAC 1 cut(s) 239
SacI GAGCTC 1 cut(s) 286
SaqAI TTAA 1 cut(s) 464
SatI GCNGC 1 cut(s) 302
Sau3AI GATC 3 cut(s) 99, 148, 430
Sau96I GGNCC 1 cut(s) 87
SchI GAGTC 3 cut(s) 15, 26, 270
ScrFI CCNGG 2 cut(s) 297, 424
SduI GDGCHC 4 cut(s) 57, 194, 286, 491
SetI ASST 7 cut(s) 159, 226, 244, 286, 337, 494, 530
SfaNI GCATC 1 cut(s) 224
SfcI CTRYAG 1 cut(s) 170
SphI GCATGC 1 cut(s) 415
Sse9I AATT 6 cut(s) 37, 323, 352, 368, 472, 496
SseBI AGGCCT 1 cut(s) 572
SsiI CCGC 1 cut(s) 67
SstI GAGCTC 1 cut(s) 286
StuI AGGCCT 1 cut(s) 572
StyD4I CCNGG 2 cut(s) 295, 422
StyI CCWWGG 5 cut(s) 18, 90, 105, 194, 524
TaaI ACNGT 3 cut(s) 238, 256, 392
TaqI TCGA 1 cut(s) 35
TasI AATT 6 cut(s) 37, 323, 352, 368, 472, 496
TfiI GAWTC 1 cut(s) 292
Tru1I TTAA 1 cut(s) 464
Tru9I TTAA 1 cut(s) 464
TscAI CASTG 1 cut(s) 294
TseI GCWGC 1 cut(s) 301
TspDTI ATGAA 5 cut(s) 149, 221, 239, 316, 483
TspRI CASTG 1 cut(s) 294
VneI GTGCAC 1 cut(s) 487
XapI RAATTY 4 cut(s) 323, 352, 368, 472
XceI RCATGY 1 cut(s) 415
XmiI GTMKAC 1 cut(s) 542
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.