Rroxscaffold_1G00043170

Trafficking protein particle complex subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0011907
Physical Location & Seq
Forward (+)
61478764 .. 61483303
4540 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00043170.1

Sequence Viewer

Length: 561 bp
ATGCCTCCCGTTGGTCCTCGATCCGGTGATGCAATCTTCGCTAACGTCGAACGCGTGAATGCGGAGCTGTTTACATTGACCTATGGTGCCATTGTGCGCCAGCTGCTCACTGATCTTGAGGAGGTTGAAGAGGTCAACAAGCAGCTTGATCAAATGGGCTATAATATTGGGATTCGTCTAATTGATGAGTTTCTAGCAAAATCTAATGTTTCTAGATGCGTTGACTTCAAAGAGACAGCTGAAGTAATTGCAAAGATTGGCTTCAAAATGTTCTTGGGGGTCACAGCATCTGTTACAAATTGGGATGCTGATGGAACATGCTGCAGTATTGTTCTGGAGGACAATCCTCTGGTTGATTTTGTTGAGCTTCCAGATACTTGTCAAGGACTGTACTACTGTAACATCTTAAGTGGAGTCGTAAGAGGTGCCTTAGAAATGGTATCAATGAAAACTGAAATCACCTGGATCCGGGATATGCTTAGAGGTGATGATGCATTCGAGTTGCAAGTTAAACTCCTGAAGCAAGTTCCAGAGGAGTACCCGTACAAAGATGATGAGTAA
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
TRAPP

Protein Analysis

186

Amino Acids

20.9

Weight (kDa)

4.36

Isoelectric Point (pI)

28.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TRAPP PF04051 24 - 171 5.9e-42 Transport protein particle (TRAPP) component
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: OG0011907)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G54750 AT5G54750
fragaria_vesca FvH4_3g21920
malus_domestica MD03G1210500.v1.1 MD11G1225200.v1.1
prunus_persica Prupe.4G204700_v2.0.a1
pyrus_communis pycom03g15920 pycom11g19870
rosa_chinensis RchiOBHm_Chr5g0037731
rosa_laevigata RLG00000033805
rosa_multiflora Rmu_sc0006558.1_g000039
rosa_roxburghii Rroxscaffold_1G00043170
rosa_rugosa Rorug05G0166800 Rorug05G0166900
rosa_samantha Rh5AG256100 Rh5BG258300 Rh5CG291600 Rh5DG268000
rosa_wichuraiana Rw5G023740

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 86, 425
AccII CGCG 1 cut(s) 54
AciI CCGC 1 cut(s) 62
AclWI GGATC 3 cut(s) 15, 460, 473
AcuI CTGAAG 2 cut(s) 261, 539
AfaI GTAC 3 cut(s) 392, 539, 545
AfiI CCNNNNNNNGG 3 cut(s) 11, 23, 468
AflII CTTAAG 1 cut(s) 406
AflIII ACRYGT 1 cut(s) 52
AgsI TTSAA 3 cut(s) 128, 229, 265
AjnI CCWGG 1 cut(s) 461
AluBI AGCT 5 cut(s) 67, 103, 145, 239, 367
AluI AGCT 5 cut(s) 67, 103, 145, 239, 367
Alw26I GTCTC 1 cut(s) 227
AlwI GGATC 3 cut(s) 15, 460, 473
AlwNI CAGNNNCTG 1 cut(s) 290
ApeKI GCWGC 3 cut(s) 103, 142, 321
AspLEI GCGC 1 cut(s) 99
AspS9I GGNCC 1 cut(s) 14
AsuC2I CCSGG 1 cut(s) 470
AsuHPI GGTGA 3 cut(s) 38, 451, 497
AvaII GGWCC 1 cut(s) 14
BamHI GGATCC 1 cut(s) 465
BanI GGYRCC 2 cut(s) 86, 425
BbvI GCAGC 3 cut(s) 90, 154, 308
BccI CCATC 1 cut(s) 305
BciT130I CCWGG 1 cut(s) 463
BclI TGATCA 1 cut(s) 148
BcnI CCSGG 1 cut(s) 470
BcoDI GTCTC 1 cut(s) 227
BfaI CTAG 2 cut(s) 194, 213
BfmI CTRYAG 1 cut(s) 322
BfrI CTTAAG 1 cut(s) 406
BisI GCNGC 3 cut(s) 104, 143, 322
BlsI GCNGC 3 cut(s) 105, 144, 323
Bme1390I CCNGG 2 cut(s) 463, 470
Bme18I GGWCC 1 cut(s) 14
BmgT120I GGNCC 1 cut(s) 14
BmiI GGNNCC 3 cut(s) 88, 427, 467
BmrFI CCNGG 2 cut(s) 463, 470
BmsI GCATC 5 cut(s) 19, 206, 295, 296, 481
BpmI CTGGAG 1 cut(s) 356
BpuEI CTTGAG 1 cut(s) 137
BpuMI CCSGG 1 cut(s) 470
BsaWI WCCGGW 1 cut(s) 23
BsaXI ACNNNNNCTCC 2 cut(s) 527, 557
Bsc4I CCNNNNNNNGG 3 cut(s) 11, 23, 468
BseBI CCWGG 1 cut(s) 463
BseGI GGATG 1 cut(s) 310
BseLI CCNNNNNNNGG 3 cut(s) 11, 23, 468
BseRI GAGGAG 2 cut(s) 134, 548
BseXI GCAGC 3 cut(s) 90, 154, 308
Bsh1236I CGCG 1 cut(s) 54
BshNI GGYRCC 2 cut(s) 86, 425
BsiSI CCGG 2 cut(s) 24, 469
BslI CCNNNNNNNGG 3 cut(s) 11, 23, 468
BsmAI GTCTC 1 cut(s) 227
BsmI GAATGC 2 cut(s) 64, 494
Bsp143I GATC 4 cut(s) 20, 112, 148, 465
BspACI CCGC 1 cut(s) 62
BspFNI CGCG 1 cut(s) 54
BspLI GGNNCC 3 cut(s) 88, 427, 467
BspMAI CTGCAG 1 cut(s) 326
BspPI GGATC 3 cut(s) 15, 460, 473
BspT107I GGYRCC 2 cut(s) 86, 425
BspTI CTTAAG 1 cut(s) 406
BssMI GATC 4 cut(s) 20, 112, 148, 465
Bst2UI CCWGG 1 cut(s) 463
Bst4CI ACNGT 2 cut(s) 390, 398
Bst6I CTCTTC 1 cut(s) 123
BstAFI CTTAAG 1 cut(s) 406
BstC8I GCNNGC 1 cut(s) 101
BstDEI CTNAG 2 cut(s) 430, 479
BstF5I GGATG 1 cut(s) 310
BstFNI CGCG 1 cut(s) 54
BstHHI GCGC 1 cut(s) 99
BstKTI GATC 4 cut(s) 23, 115, 151, 468
BstMAI GTCTC 1 cut(s) 227
BstMBI GATC 4 cut(s) 20, 112, 148, 465
BstMWI GCNNNNNNNGC 2 cut(s) 38, 103
BstNI CCWGG 1 cut(s) 463
BstNSI RCATGY 1 cut(s) 321
BstSCI CCNGG 2 cut(s) 461, 468
BstSFI CTRYAG 1 cut(s) 322
BstUI CGCG 1 cut(s) 54
BstV1I GCAGC 3 cut(s) 90, 154, 308
BstX2I RGATCY 1 cut(s) 465
BstYI RGATCY 1 cut(s) 465
BtsCI GGATG 1 cut(s) 310
BtsIMutI CAGTG 1 cut(s) 108
Cac8I GCNNGC 1 cut(s) 101
CaiI CAGNNNCTG 1 cut(s) 290
CfoI GCGC 1 cut(s) 99
Cfr13I GGNCC 1 cut(s) 14
Csp6I GTAC 3 cut(s) 391, 538, 544
CviAII CATG 1 cut(s) 318
CviJI RGCY 7 cut(s) 67, 103, 145, 159, 239, 261, 367
CviKI_1 RGCY 7 cut(s) 67, 103, 145, 159, 239, 261, 367
CviQI GTAC 3 cut(s) 391, 538, 544
DdeI CTNAG 2 cut(s) 430, 479
DpnI GATC 4 cut(s) 22, 114, 150, 467
DpnII GATC 4 cut(s) 20, 112, 148, 465
Eam1104I CTCTTC 1 cut(s) 123
EarI CTCTTC 1 cut(s) 123
Eco47I GGWCC 1 cut(s) 14
Eco57I CTGAAG 2 cut(s) 261, 539
EcoRII CCWGG 1 cut(s) 461
EcoT22I ATGCAT 1 cut(s) 496
FaeI CATG 1 cut(s) 321
FaiI YATR 4 cut(s) 84, 162, 319, 476
FalI AAGNNNNNCTT 2 cut(s) 245, 277
FatI CATG 1 cut(s) 317
FbaI TGATCA 1 cut(s) 148
Fnu4HI GCNGC 3 cut(s) 104, 143, 322
FokI GGATG 1 cut(s) 317
Fsp4HI GCNGC 3 cut(s) 104, 143, 322
FspBI CTAG 2 cut(s) 194, 213
GlaI GCGC 1 cut(s) 98
GluI GCNGC 3 cut(s) 104, 143, 322
GsuI CTGGAG 1 cut(s) 356
HapII CCGG 2 cut(s) 24, 469
HhaI GCGC 1 cut(s) 99
Hin1II CATG 1 cut(s) 321
Hin6I GCGC 1 cut(s) 97
HinP1I GCGC 1 cut(s) 97
HincII GTYRAC 2 cut(s) 136, 223
HindII GTYRAC 2 cut(s) 136, 223
HinfI GANTC 2 cut(s) 172, 414
HpaII CCGG 2 cut(s) 24, 469
HphI GGTGA 3 cut(s) 38, 451, 497
Hpy166II GTNNAC 3 cut(s) 72, 136, 223
Hpy188III TCNNGA 6 cut(s) 116, 213, 335, 371, 517, 530
Hpy8I GTNNAC 3 cut(s) 72, 136, 223
Hpy99I CGWCG 1 cut(s) 50
HpyCH4III ACNGT 2 cut(s) 390, 398
HpyCH4IV ACGT 1 cut(s) 45
HpyCH4V TGCA 5 cut(s) 32, 251, 324, 494, 505
HpyF10VI GCNNNNNNNGC 2 cut(s) 38, 103
HpyF3I CTNAG 2 cut(s) 430, 479
HpySE526I ACGT 1 cut(s) 45
Hsp92II CATG 1 cut(s) 321
HspAI GCGC 1 cut(s) 97
Ksp22I TGATCA 1 cut(s) 148
Kzo9I GATC 4 cut(s) 20, 112, 148, 465
LmnI GCTCC 1 cut(s) 64
Lsp1109I GCAGC 3 cut(s) 90, 154, 308
LweI GCATC 5 cut(s) 19, 206, 295, 296, 481
MaeI CTAG 2 cut(s) 194, 213
MaeII ACGT 1 cut(s) 45
MaeIII GTNAC 3 cut(s) 280, 292, 398
MalI GATC 4 cut(s) 22, 114, 150, 467
MboI GATC 4 cut(s) 20, 112, 148, 465
MboII GAAGA 2 cut(s) 28, 140
MflI RGATCY 1 cut(s) 465
MluCI AATT 3 cut(s) 180, 246, 298
MluI ACGCGT 1 cut(s) 52
MlyI GAGTC 1 cut(s) 423
Mph1103I ATGCAT 1 cut(s) 496
MseI TTAA 2 cut(s) 407, 510
MspA1I CMGCKG 2 cut(s) 103, 239
MspCI CTTAAG 1 cut(s) 406
MspI CCGG 2 cut(s) 24, 469
MspR9I CCNGG 2 cut(s) 463, 470
Mva1269I GAATGC 2 cut(s) 64, 494
MvaI CCWGG 1 cut(s) 463
MvnI CGCG 1 cut(s) 54
MwoI GCNNNNNNNGC 2 cut(s) 38, 103
NciI CCSGG 1 cut(s) 470
NdeII GATC 4 cut(s) 20, 112, 148, 465
NlaIII CATG 1 cut(s) 321
NlaIV GGNNCC 3 cut(s) 88, 427, 467
NmuCI GTSAC 1 cut(s) 280
NsiI ATGCAT 1 cut(s) 496
NspI RCATGY 1 cut(s) 321
PcsI WCGNNNNNNNCGW 2 cut(s) 45, 51
PctI GAATGC 2 cut(s) 64, 494
PfeI GAWTC 1 cut(s) 172
PfoI TCCNGGA 1 cut(s) 468
PkrI GCNGC 3 cut(s) 105, 144, 323
PleI GAGTC 1 cut(s) 422
PpsI GAGTC 1 cut(s) 422
Psp6I CCWGG 1 cut(s) 461
PspGI CCWGG 1 cut(s) 461
PspN4I GGNNCC 3 cut(s) 88, 427, 467
PspPI GGNCC 1 cut(s) 14
PstI CTGCAG 1 cut(s) 326
PstNI CAGNNNCTG 1 cut(s) 290
PsuI RGATCY 1 cut(s) 465
PvuII CAGCTG 2 cut(s) 103, 239
RsaI GTAC 3 cut(s) 392, 539, 545
RsaNI GTAC 3 cut(s) 391, 538, 544
SaqAI TTAA 2 cut(s) 407, 510
SatI GCNGC 3 cut(s) 104, 143, 322
Sau3AI GATC 4 cut(s) 20, 112, 148, 465
Sau96I GGNCC 1 cut(s) 14
SchI GAGTC 1 cut(s) 423
ScrFI CCNGG 2 cut(s) 463, 470
SfaNI GCATC 5 cut(s) 19, 206, 295, 296, 481
SfcI CTRYAG 1 cut(s) 322
SinI GGWCC 1 cut(s) 14
SmlI CTYRAG 2 cut(s) 116, 406
SmoI CTYRAG 2 cut(s) 116, 406
Sse9I AATT 3 cut(s) 180, 246, 298
SsiI CCGC 1 cut(s) 62
SspI AATATT 1 cut(s) 166
SspMI CTAG 2 cut(s) 194, 213
StyD4I CCNGG 2 cut(s) 461, 468
TaaI ACNGT 2 cut(s) 390, 398
TaiI ACGT 1 cut(s) 48
TaqI TCGA 3 cut(s) 19, 48, 498
TasI AATT 3 cut(s) 180, 246, 298
TatI WGTACW 1 cut(s) 390
TfiI GAWTC 1 cut(s) 172
Tru1I TTAA 2 cut(s) 407, 510
Tru9I TTAA 2 cut(s) 407, 510
TscAI CASTG 1 cut(s) 115
TseFI GTSAC 1 cut(s) 280
TseI GCWGC 3 cut(s) 103, 142, 321
Tsp45I GTSAC 1 cut(s) 280
TspDTI ATGAA 1 cut(s) 461
TspRI CASTG 1 cut(s) 115
Vha464I CTTAAG 1 cut(s) 406
VpaK11BI GGWCC 1 cut(s) 14
XbaI TCTAGA 1 cut(s) 212
XceI RCATGY 1 cut(s) 321
XspI CTAG 2 cut(s) 194, 213
Zsp2I ATGCAT 1 cut(s) 496
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.