Rroxscaffold_3G00254260

Hydrophobic seed protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0016484
Physical Location & Seq
Reverse (-)
48403909 .. 48405107
1199 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00254260.1

Sequence Viewer

Length: 504 bp
ATGGCTTCCAGAAGCACTGCCTCACTTGCTCTCTTCCTGGCACTCAATCTCCTCTTCTTCACCATGGTTGCTAATGCCTGCAACACATGCCCTCAGCCGAAGCCAAGGCCGAATCCGAATCCCAATCCCAATCCCAATCCGAATCCGAATCCGAATCCCAATCCCAATCCCAATCCGAATCCCAATCCCAATCCCAATCCGAATCCCAATCCCAATCCCAATCCAAACCCCACCCCATCCAGGGGTACTTGCCCTAGGGATACCCTAAAATTGGGGGTTTGTGCTAATGTCCTCAACGGGTTGCTTAACCTCACCATTGGCAGACCTCCAGTTAGACCTTGCTGCGCTCTCATCCAAGGCCTTGCTGACCTTGAAGCTGCTGTATGCCTCTGCACTGCCATCAGAGCCAACATTCTGGGCATCAACCTCAACATTCCGATTTCTCTCAGCTTGCTTCTTAATGTCTGTGGAAACCGGGTCCCAAGAGGGTTCCAATGTGCCTAG
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
Hydrophob_seed

Protein Analysis

167

Amino Acids

17.61

Weight (kDa)

9.3

Isoelectric Point (pI)

27.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Trypan_PARP PF05887 25 - 91 4.5e-06 Procyclic acidic repetitive protein (PARP)
LTP_2 PF14368 75 - 166 9.2e-07 Probable lipid transfer
Hydrophob_seed PF14547 83 - 167 1.1e-28 Hydrophobic seed protein
Tryp_alpha_amyl PF00234 84 - 166 9e-17 Protease inhibitor/seed storage/LTP family
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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Orthologous Genes (Group: OG0016484)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G12090 AT1G62510
fragaria_vesca FvH4_5g18321
malus_domestica MD04G1087300.v1.1 MD06G1062000.v1.1
prunus_persica Prupe.5G073200_v2.0.a1
rosa_chinensis RchiOBHm_Chr7g0202791
rosa_laevigata RLG00000003571
rosa_multiflora Rmu_sc0002590.1_g000022 Rmu_sc0003429.1_g000015
rosa_roxburghii Rroxscaffold_3G00254260
rosa_rugosa Rorug07G0073200
rosa_samantha Rh7AG200900
rosa_wichuraiana Rw7G017570

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AfaI GTAC 1 cut(s) 247
AfiI CCNNNNNNNGG 4 cut(s) 240, 241, 242, 271
AgsI TTSAA 1 cut(s) 374
AjnI CCWGG 2 cut(s) 36, 239
AluBI AGCT 2 cut(s) 377, 450
AluI AGCT 2 cut(s) 377, 450
AoxI GGCC 2 cut(s) 107, 358
ApeKI GCWGC 2 cut(s) 342, 377
AspA2I CCTAGG 1 cut(s) 254
AspLEI GCGC 1 cut(s) 347
AspS9I GGNCC 1 cut(s) 478
AsuC2I CCSGG 1 cut(s) 476
AsuHPI GGTGA 2 cut(s) 52, 304
AvaII GGWCC 1 cut(s) 478
AvrII CCTAGG 1 cut(s) 254
BbvCI CCTCAGC 1 cut(s) 93
BbvI GCAGC 2 cut(s) 329, 364
BccI CCATC 2 cut(s) 244, 407
BciT130I CCWGG 2 cut(s) 38, 241
BciVI GTATCC 1 cut(s) 253
BcnI CCSGG 1 cut(s) 476
BfaI CTAG 2 cut(s) 255, 502
BfuI GTATCC 1 cut(s) 253
BisI GCNGC 2 cut(s) 343, 378
BlnI CCTAGG 1 cut(s) 254
BlsI GCNGC 2 cut(s) 344, 379
Bme1390I CCNGG 3 cut(s) 38, 241, 476
Bme18I GGWCC 1 cut(s) 478
BmgT120I GGNCC 1 cut(s) 478
BmiI GGNNCC 3 cut(s) 479, 480, 491
BmrFI CCNGG 3 cut(s) 38, 241, 476
BmsI GCATC 1 cut(s) 429
BpmI CTGGAG 1 cut(s) 312
Bpu10I CCTNAGC 1 cut(s) 93
BpuMI CCSGG 1 cut(s) 476
BsaJI CCNNGG 5 cut(s) 63, 104, 240, 254, 355
BsaXI ACNNNNNCTCC 2 cut(s) 33, 63
Bsc4I CCNNNNNNNGG 4 cut(s) 240, 241, 242, 271
Bse1I ACTGG 1 cut(s) 329
BseBI CCWGG 2 cut(s) 38, 241
BseDI CCNNGG 5 cut(s) 63, 104, 240, 254, 355
BseGI GGATG 2 cut(s) 236, 351
BseLI CCNNNNNNNGG 4 cut(s) 240, 241, 242, 271
BseMII CTCAG 2 cut(s) 107, 460
BseNI ACTGG 1 cut(s) 329
BseRI GAGGAG 1 cut(s) 41
BseXI GCAGC 2 cut(s) 329, 364
BsgI GTGCAG 1 cut(s) 376
BshFI GGCC 2 cut(s) 109, 360
BsiSI CCGG 1 cut(s) 475
BslFI GGGAC 1 cut(s) 464
BslI CCNNNNNNNGG 4 cut(s) 240, 241, 242, 271
BsmFI GGGAC 1 cut(s) 464
BsnI GGCC 2 cut(s) 109, 360
Bsp19I CCATGG 1 cut(s) 63
BspANI GGCC 2 cut(s) 109, 360
BspCNI CTCAG 2 cut(s) 106, 459
BspLI GGNNCC 3 cut(s) 479, 480, 491
BsrI ACTGG 1 cut(s) 329
BssECI CCNNGG 5 cut(s) 63, 104, 240, 254, 355
BssT1I CCWWGG 4 cut(s) 63, 104, 254, 355
Bst2UI CCWGG 2 cut(s) 38, 241
Bst6I CTCTTC 2 cut(s) 38, 59
BstAPI GCANNNNNTGC 1 cut(s) 87
BstC8I GCNNGC 2 cut(s) 79, 452
BstDEI CTNAG 2 cut(s) 93, 446
BstDSI CCRYGG 1 cut(s) 63
BstF5I GGATG 2 cut(s) 236, 351
BstHHI GCGC 1 cut(s) 347
BstMWI GCNNNNNNNGC 3 cut(s) 26, 87, 404
BstNI CCWGG 2 cut(s) 38, 241
BstNSI RCATGY 1 cut(s) 90
BstSCI CCNGG 3 cut(s) 36, 239, 474
BstV1I GCAGC 2 cut(s) 329, 364
BstXI CCANNNNNNTGG 1 cut(s) 415
BsuI GTATCC 1 cut(s) 253
BsuRI GGCC 2 cut(s) 109, 360
BtgI CCRYGG 1 cut(s) 63
BtsCI GGATG 2 cut(s) 236, 351
BtsI GCAGTG 2 cut(s) 15, 393
BtsIMutI CAGTG 2 cut(s) 15, 393
Cac8I GCNNGC 2 cut(s) 79, 452
CfoI GCGC 1 cut(s) 347
Cfr13I GGNCC 1 cut(s) 478
Csp6I GTAC 1 cut(s) 246
CviAII CATG 2 cut(s) 64, 87
CviJI RGCY 8 cut(s) 5, 97, 103, 109, 360, 377, 407, 450
CviKI_1 RGCY 8 cut(s) 5, 97, 103, 109, 360, 377, 407, 450
CviQI GTAC 1 cut(s) 246
DdeI CTNAG 2 cut(s) 93, 446
Eam1104I CTCTTC 2 cut(s) 38, 59
EarI CTCTTC 2 cut(s) 38, 59
Eco130I CCWWGG 4 cut(s) 63, 104, 254, 355
Eco147I AGGCCT 1 cut(s) 360
Eco47I GGWCC 1 cut(s) 478
EcoO109I RGGNCCY 1 cut(s) 478
EcoRII CCWGG 2 cut(s) 36, 239
EcoT14I CCWWGG 4 cut(s) 63, 104, 254, 355
ErhI CCWWGG 4 cut(s) 63, 104, 254, 355
FaeI CATG 2 cut(s) 67, 90
FaiI YATR 3 cut(s) 65, 88, 385
FaqI GGGAC 1 cut(s) 464
FatI CATG 2 cut(s) 63, 86
Fnu4HI GCNGC 2 cut(s) 343, 378
FokI GGATG 2 cut(s) 223, 338
Fsp4HI GCNGC 2 cut(s) 343, 378
FspBI CTAG 2 cut(s) 255, 502
GlaI GCGC 1 cut(s) 346
GluI GCNGC 2 cut(s) 343, 378
GsuI CTGGAG 1 cut(s) 312
HaeIII GGCC 2 cut(s) 109, 360
HapII CCGG 1 cut(s) 475
HhaI GCGC 1 cut(s) 347
Hin1II CATG 2 cut(s) 67, 90
Hin6I GCGC 1 cut(s) 345
HinP1I GCGC 1 cut(s) 345
HinfI GANTC 7 cut(s) 112, 118, 142, 148, 154, 178, 202
HpaII CCGG 1 cut(s) 475
HphI GGTGA 2 cut(s) 52, 304
Hpy188I TCNGA 8 cut(s) 117, 141, 147, 153, 177, 201, 404, 438
Hpy188III TCNNGA 1 cut(s) 9
HpyCH4V TGCA 2 cut(s) 81, 393
HpyF10VI GCNNNNNNNGC 3 cut(s) 26, 87, 404
HpyF3I CTNAG 2 cut(s) 93, 446
Hsp92II CATG 2 cut(s) 67, 90
HspAI GCGC 1 cut(s) 345
KflI GGGWCCC 1 cut(s) 478
LpnPI CCDG 9 cut(s) 22, 23, 50, 91, 226, 253, 342, 401, 488
Lsp1109I GCAGC 2 cut(s) 329, 364
LweI GCATC 1 cut(s) 429
MaeI CTAG 2 cut(s) 255, 502
MboII GAAGA 3 cut(s) 25, 46, 49
MluCI AATT 1 cut(s) 269
MnlI CCTC 9 cut(s) 31, 62, 102, 302, 320, 336, 398, 437, 479
MseI TTAA 2 cut(s) 306, 459
MspI CCGG 1 cut(s) 475
MspR9I CCNGG 3 cut(s) 38, 241, 476
MvaI CCWGG 2 cut(s) 38, 241
MwoI GCNNNNNNNGC 3 cut(s) 26, 87, 404
NciI CCSGG 1 cut(s) 476
NcoI CCATGG 1 cut(s) 63
NlaIII CATG 2 cut(s) 67, 90
NlaIV GGNNCC 3 cut(s) 479, 480, 491
NspI RCATGY 1 cut(s) 90
PceI AGGCCT 1 cut(s) 360
PfeI GAWTC 7 cut(s) 112, 118, 142, 148, 154, 178, 202
PkrI GCNGC 2 cut(s) 344, 379
PpuMI RGGWCCY 1 cut(s) 478
Psp5II RGGWCCY 1 cut(s) 478
Psp6I CCWGG 2 cut(s) 36, 239
PspGI CCWGG 2 cut(s) 36, 239
PspN4I GGNNCC 3 cut(s) 479, 480, 491
PspPI GGNCC 1 cut(s) 478
PspPPI RGGWCCY 1 cut(s) 478
RsaI GTAC 1 cut(s) 247
RsaNI GTAC 1 cut(s) 246
SaqAI TTAA 2 cut(s) 306, 459
SatI GCNGC 2 cut(s) 343, 378
Sau96I GGNCC 1 cut(s) 478
ScrFI CCNGG 3 cut(s) 38, 241, 476
SetI ASST 7 cut(s) 312, 328, 340, 372, 379, 429, 452
SfaNI GCATC 1 cut(s) 429
SinI GGWCC 1 cut(s) 478
Sse9I AATT 1 cut(s) 269
SseBI AGGCCT 1 cut(s) 360
SspMI CTAG 2 cut(s) 255, 502
StuI AGGCCT 1 cut(s) 360
StyD4I CCNGG 3 cut(s) 36, 239, 474
StyI CCWWGG 4 cut(s) 63, 104, 254, 355
TasI AATT 1 cut(s) 269
TfiI GAWTC 7 cut(s) 112, 118, 142, 148, 154, 178, 202
Tru1I TTAA 2 cut(s) 306, 459
Tru9I TTAA 2 cut(s) 306, 459
TscAI CASTG 2 cut(s) 22, 400
TseI GCWGC 2 cut(s) 342, 377
TspRI CASTG 2 cut(s) 22, 400
VpaK11BI GGWCC 1 cut(s) 478
XceI RCATGY 1 cut(s) 90
XmaJI CCTAGG 1 cut(s) 254
XspI CTAG 2 cut(s) 255, 502
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.