Rh6BG284300

viral capsid secondary envelopment

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0017987
Physical Location & Seq
Reverse (-)
50814939 .. 50817227
2289 bp
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UTR
Exon/CDS
Intron
Rh6BG284300.1

Sequence Viewer

Length: 603 bp
ATGGAGAAGCCGCCGGTGAAGAAAGCATGGAGGCGACTGAAGAAGTTTTTAGGTTTGTCAAGAGGAGATTTCAACACATCCAAGTGGGAAACTGCATTGGAGAAGGTAGTGGCTCGAACAGAGGTTCTGAAGCAACCGAGAGAGGAATACATGGGGCAGTTGAGAAAAGAAATTGTCCGTTCCCTCCGGAAGGGCCAATCACAAGAGGAGTGTGCTCTTATGCGGGCCGGGTACTTGATCACAGAAAAGGGGGCTGCTGATGCAAATGAGATCATAAGGGCTTCTTGTGAGAGCATATCTAACAGGCTTTGTAGAATCCGATGGCAAAGGAAATGCCCCGAGGATCTTAGAACGGAGTTTCAAAACTTGAGCTTCGCTGCCTCAAAATGTTTGGATATTCCAGAGCTAAAGACTCTCAAGAAAATTTTTGAGAAAGAATTTGGGAGAAACTTTGTGGCTGCAAGTAAGGATCTCCGAGGTGTACGTGAAGAGCTGTTTGTTTTGCTATCTACTAAAACTCCCACCCTTAAAGACAAGTTAAGGATATTGAATGAAATAGCAGAGGAGAACAATATTGATTGGAAGTACTCCAAAGAAGGTTGA

Protein Analysis

200

Amino Acids

23.28

Weight (kDa)

9.57

Isoelectric Point (pI)

49.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ist1 PF03398 31 - 193 1.4e-30 Regulator of Vps4 activity in the MVB pathway
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: OG0017987)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g19470
rosa_laevigata RLG00000012664
rosa_multiflora Rmu_sc0002535.1_g000006
rosa_roxburghii Rroxscaffold_7G00183450 Rroxscaffold_7G00183460 Rroxscaffold_7G00183570
rosa_samantha Rh6BG283800 Rh6BG284300 Rh6BG284400
rosa_wichuraiana Rw0G000380 Rw6G024340

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccIII TCCGGA 1 cut(s) 186
AciI CCGC 2 cut(s) 11, 223
AclWI GGATC 2 cut(s) 351, 477
AcsI RAATTY 2 cut(s) 423, 437
AcuI CTGAAG 2 cut(s) 59, 149
AfaI GTAC 3 cut(s) 233, 483, 587
AfiI CCNNNNNNNGG 1 cut(s) 190
AgsI TTSAA 3 cut(s) 73, 362, 550
AluBI AGCT 3 cut(s) 372, 406, 493
AluI AGCT 3 cut(s) 372, 406, 493
Alw21I GWGCWC 1 cut(s) 217
AlwI GGATC 2 cut(s) 351, 477
Ama87I CYCGRG 1 cut(s) 338
Aor13HI TCCGGA 1 cut(s) 186
AoxI GGCC 2 cut(s) 193, 225
ApeKI GCWGC 3 cut(s) 254, 377, 458
ApoI RAATTY 2 cut(s) 423, 437
AspS9I GGNCC 2 cut(s) 193, 225
AsuC2I CCSGG 1 cut(s) 229
AsuHPI GGTGA 1 cut(s) 28
AvaI CYCGRG 1 cut(s) 338
Bbv12I GWGCWC 1 cut(s) 217
BbvI GCAGC 3 cut(s) 241, 364, 445
BccI CCATC 1 cut(s) 315
BclI TGATCA 1 cut(s) 237
BcnI CCSGG 1 cut(s) 229
BisI GCNGC 4 cut(s) 11, 255, 378, 459
BlsI GCNGC 4 cut(s) 12, 256, 379, 460
BmcAI AGTACT 1 cut(s) 587
Bme1390I CCNGG 1 cut(s) 229
BmeT110I CYCGRG 1 cut(s) 338
BmgT120I GGNCC 2 cut(s) 193, 225
BmrFI CCNGG 1 cut(s) 229
BmsI GCATC 1 cut(s) 250
BpuEI CTTGAG 2 cut(s) 388, 401
BpuMI CCSGG 1 cut(s) 229
BsaAI YACGTR 1 cut(s) 485
BsaJI CCNNGG 2 cut(s) 339, 475
BsaWI WCCGGW 1 cut(s) 186
BsaXI ACNNNNNCTCC 2 cut(s) 502, 532
Bsc4I CCNNNNNNNGG 1 cut(s) 190
Bse118I RCCGGY 1 cut(s) 13
BseAI TCCGGA 1 cut(s) 186
BseDI CCNNGG 2 cut(s) 339, 475
BseGI GGATG 1 cut(s) 77
BseLI CCNNNNNNNGG 1 cut(s) 190
BseRI GAGGAG 3 cut(s) 78, 221, 578
BseXI GCAGC 3 cut(s) 241, 364, 445
BshFI GGCC 2 cut(s) 195, 227
BsiHKAI GWGCWC 1 cut(s) 217
BsiHKCI CYCGRG 1 cut(s) 338
BsiSI CCGG 3 cut(s) 14, 187, 228
BslI CCNNNNNNNGG 1 cut(s) 190
BsnI GGCC 2 cut(s) 195, 227
BsoBI CYCGRG 1 cut(s) 338
Bsp1286I GDGCHC 1 cut(s) 217
Bsp13I TCCGGA 1 cut(s) 186
Bsp143I GATC 4 cut(s) 237, 270, 343, 469
BspACI CCGC 2 cut(s) 11, 223
BspANI GGCC 2 cut(s) 195, 227
BspEI TCCGGA 1 cut(s) 186
BspPI GGATC 2 cut(s) 351, 477
BspQI GCTCTTC 1 cut(s) 483
BsrFI RCCGGY 1 cut(s) 13
BssAI RCCGGY 1 cut(s) 13
BssECI CCNNGG 2 cut(s) 339, 475
BssMI GATC 4 cut(s) 237, 270, 343, 469
Bst6I CTCTTC 1 cut(s) 483
BstBAI YACGTR 1 cut(s) 485
BstC8I GCNNGC 1 cut(s) 225
BstDEI CTNAG 1 cut(s) 347
BstENI CCTNNNNNAGG 1 cut(s) 188
BstF5I GGATG 1 cut(s) 77
BstKTI GATC 4 cut(s) 240, 273, 346, 472
BstMBI GATC 4 cut(s) 237, 270, 343, 469
BstMWI GCNNNNNNNGC 1 cut(s) 260
BstSCI CCNGG 1 cut(s) 227
BstV1I GCAGC 3 cut(s) 241, 364, 445
BstX2I RGATCY 2 cut(s) 343, 469
BstYI RGATCY 2 cut(s) 343, 469
BsuRI GGCC 2 cut(s) 195, 227
BtsCI GGATG 1 cut(s) 77
Cac8I GCNNGC 1 cut(s) 225
Cfr10I RCCGGY 1 cut(s) 13
Cfr13I GGNCC 2 cut(s) 193, 225
Csp6I GTAC 3 cut(s) 232, 482, 586
CviAII CATG 2 cut(s) 27, 151
CviQI GTAC 3 cut(s) 232, 482, 586
DdeI CTNAG 1 cut(s) 347
DpnI GATC 4 cut(s) 239, 272, 345, 471
DpnII GATC 4 cut(s) 237, 270, 343, 469
Eam1104I CTCTTC 1 cut(s) 483
EarI CTCTTC 1 cut(s) 483
Eco57I CTGAAG 2 cut(s) 59, 149
Eco88I CYCGRG 1 cut(s) 338
EcoNI CCTNNNNNAGG 1 cut(s) 188
FaeI CATG 2 cut(s) 30, 154
FaiI YATR 5 cut(s) 28, 152, 221, 275, 296
FalI AAGNNNNNCTT 2 cut(s) 268, 300
FatI CATG 2 cut(s) 26, 150
FauI CCCGC 1 cut(s) 216
FbaI TGATCA 1 cut(s) 237
Fnu4HI GCNGC 4 cut(s) 11, 255, 378, 459
FokI GGATG 1 cut(s) 64
Fsp4HI GCNGC 4 cut(s) 11, 255, 378, 459
GluI GCNGC 4 cut(s) 11, 255, 378, 459
HaeIII GGCC 2 cut(s) 195, 227
HapII CCGG 3 cut(s) 14, 187, 228
Hin1II CATG 2 cut(s) 30, 154
HinfI GANTC 2 cut(s) 315, 412
HpaII CCGG 3 cut(s) 14, 187, 228
HphI GGTGA 1 cut(s) 28
Hpy166II GTNNAC 1 cut(s) 482
Hpy188I TCNGA 3 cut(s) 129, 320, 476
Hpy188III TCNNGA 4 cut(s) 60, 187, 401, 418
Hpy8I GTNNAC 1 cut(s) 482
HpyAV CCTTC 3 cut(s) 97, 184, 590
HpyCH4IV ACGT 1 cut(s) 484
HpyCH4V TGCA 3 cut(s) 95, 263, 461
HpyF10VI GCNNNNNNNGC 1 cut(s) 260
HpyF3I CTNAG 1 cut(s) 347
HpySE526I ACGT 1 cut(s) 484
Hsp92II CATG 2 cut(s) 30, 154
Kpn2I TCCGGA 1 cut(s) 186
Ksp22I TGATCA 1 cut(s) 237
Kzo9I GATC 4 cut(s) 237, 270, 343, 469
LguI GCTCTTC 1 cut(s) 483
LpnPI CCDG 5 cut(s) 27, 200, 241, 289, 414
Lsp1109I GCAGC 3 cut(s) 241, 364, 445
LweI GCATC 1 cut(s) 250
MaeII ACGT 1 cut(s) 484
MalI GATC 4 cut(s) 239, 272, 345, 471
MboI GATC 4 cut(s) 237, 270, 343, 469
MboII GAAGA 3 cut(s) 31, 52, 500
MflI RGATCY 2 cut(s) 343, 469
MhlI GDGCHC 1 cut(s) 217
MluCI AATT 3 cut(s) 171, 423, 437
MlyI GAGTC 1 cut(s) 406
MroI TCCGGA 1 cut(s) 186
MseI TTAA 2 cut(s) 528, 539
MslI CAYNNNNRTG 1 cut(s) 82
MspI CCGG 3 cut(s) 14, 187, 228
MspR9I CCNGG 1 cut(s) 229
MwoI GCNNNNNNNGC 1 cut(s) 260
NciI CCSGG 1 cut(s) 229
NdeII GATC 4 cut(s) 237, 270, 343, 469
NlaIII CATG 2 cut(s) 30, 154
PciSI GCTCTTC 1 cut(s) 483
PfeI GAWTC 1 cut(s) 315
PkrI GCNGC 4 cut(s) 12, 256, 379, 460
PleI GAGTC 1 cut(s) 406
PpsI GAGTC 1 cut(s) 406
Ppu21I YACGTR 1 cut(s) 485
PspPI GGNCC 2 cut(s) 193, 225
PsuI RGATCY 2 cut(s) 343, 469
RsaI GTAC 3 cut(s) 233, 483, 587
RsaNI GTAC 3 cut(s) 232, 482, 586
RseI CAYNNNNRTG 1 cut(s) 82
SapI GCTCTTC 1 cut(s) 483
SaqAI TTAA 2 cut(s) 528, 539
SatI GCNGC 4 cut(s) 11, 255, 378, 459
Sau3AI GATC 4 cut(s) 237, 270, 343, 469
Sau96I GGNCC 2 cut(s) 193, 225
ScaI AGTACT 1 cut(s) 587
SchI GAGTC 1 cut(s) 406
ScrFI CCNGG 1 cut(s) 229
SduI GDGCHC 1 cut(s) 217
SetI ASST 9 cut(s) 55, 108, 126, 374, 408, 481, 487, 495, 601
SfaNI GCATC 1 cut(s) 250
SgrAI CRCCGGYG 1 cut(s) 13
SmiMI CAYNNNNRTG 1 cut(s) 82
SmlI CTYRAG 2 cut(s) 367, 416
SmoI CTYRAG 2 cut(s) 367, 416
Sse9I AATT 3 cut(s) 171, 423, 437
SsiI CCGC 2 cut(s) 11, 223
SspI AATATT 1 cut(s) 574
StyD4I CCNGG 1 cut(s) 227
TaiI ACGT 1 cut(s) 487
TaqI TCGA 1 cut(s) 115
TasI AATT 3 cut(s) 171, 423, 437
TatI WGTACW 1 cut(s) 585
TauI GCSGC 1 cut(s) 13
TfiI GAWTC 1 cut(s) 315
Tru1I TTAA 2 cut(s) 528, 539
Tru9I TTAA 2 cut(s) 528, 539
TseI GCWGC 3 cut(s) 254, 377, 458
TspDTI ATGAA 1 cut(s) 567
TspGWI ACGGA 2 cut(s) 167, 368
XagI CCTNNNNNAGG 1 cut(s) 188
XapI RAATTY 2 cut(s) 423, 437
ZrmI AGTACT 1 cut(s) 587
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.