Rh3DG048800

Trafficking protein particle complex subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0010961
Physical Location & Seq
Forward (+)
3274017 .. 3276495
2479 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG048800.1

Sequence Viewer

Length: 531 bp
ATGGGGAGAGAGGTCTCAGAGAGCTGCGTGGATAGTCTACTCACAGAGATGGTCTCCATGTACTGCAATCGCTTATACGCCAATAAGCCCGAGCTTGCTGCAAGTAGGATCGACGCTATTGGCTACCAGGTCGGCCATCAGCTCTCCGAGAGGTATACAATGGAGCGGCCTCGGTTTACTGATCATCTCGATGCAATTAAGTTCATATGCAAGGATTTCTGGTCTGAGCTTTTCAAGAAGCAGATAGACAACTTGAAGACCAATCATAGGGGTACCTTTGTGTTGCAAGATAATCGGTTTCGGTGGCTTTCACGCATGTCTCTTGATCCCTCTGCTGAAAATGGAGACGTGTCTCAAGAAACTTCTGAGGCCTCAGCTGAAAACAAGGCGGCACAAGTACCAAACATGCATCTCCATTTCTCTTGTGGAGTCATAAAAGGGGCTCTTCATAACTTGGGGATTGCTTGTGCTGTTTCTGCTGATACTTCCCACCTCCCTGCATGTTCATTTGTGGTTCGTATAAAACCCTGA
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

176

Amino Acids

19.81

Weight (kDa)

6.65

Isoelectric Point (pI)

44.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TRAPP PF04051 11 - 175 9.6e-41 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: OG0010961)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G05000
fragaria_vesca FvH4_6g04260
malus_domestica MD00G1052700.v1.1 MD12G1229300.v1.1 MD12G1230100.v1.1
prunus_persica Prupe.6G334800_v2.0.a1
pyrus_communis pycom04g18990 pycom12g21390
rosa_chinensis RchiOBHm_Chr3g0452951 RchiOBHm_Chr5g0055691
rosa_laevigata RLG00000025559
rosa_multiflora Rmu_sc0005888.1_g000018
rosa_roxburghii Rroxscaffold_6G00429950
rosa_rugosa Rorug02G0643800 Rorug05G0294600
rosa_samantha Rh3AG046800 Rh3BG049200 Rh3CG047900 Rh3DG048800
rosa_wichuraiana Rw3G003670

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 272
AccB1I GGYRCC 1 cut(s) 272
AccBSI CCGCTC 1 cut(s) 166
AccI GTMKAC 2 cut(s) 37, 155
AciI CCGC 2 cut(s) 166, 389
AclWI GGATC 2 cut(s) 116, 320
AcoI YGGCCR 1 cut(s) 133
AfaI GTAC 3 cut(s) 62, 274, 399
AfiI CCNNNNNNNGG 1 cut(s) 267
AflIII ACRYGT 1 cut(s) 348
AgsI TTSAA 2 cut(s) 235, 256
AjiI CACGTC 1 cut(s) 349
AjnI CCWGG 1 cut(s) 126
AluBI AGCT 5 cut(s) 24, 94, 142, 229, 377
AluI AGCT 5 cut(s) 24, 94, 142, 229, 377
Alw26I GTCTC 5 cut(s) 19, 58, 324, 339, 357
AlwI GGATC 2 cut(s) 116, 320
Ama87I CYCGRG 1 cut(s) 89
AoxI GGCC 3 cut(s) 133, 167, 369
ApeKI GCWGC 2 cut(s) 24, 98
Asp718I GGTACC 1 cut(s) 272
AvaI CYCGRG 1 cut(s) 89
BaeI ACNNNNGTAYC 2 cut(s) 264, 297
BanI GGYRCC 1 cut(s) 272
BanII GRGCYC 1 cut(s) 445
BbsI GAAGAC 1 cut(s) 263
BbvCI CCTCAGC 1 cut(s) 373
BbvI GCAGC 2 cut(s) 11, 85
BccI CCATC 2 cut(s) 43, 144
BcgI CGANNNNNNTGC 4 cut(s) 80, 114, 275, 309
BciT130I CCWGG 1 cut(s) 128
BclI TGATCA 1 cut(s) 181
BcoDI GTCTC 5 cut(s) 19, 58, 324, 339, 357
BisI GCNGC 4 cut(s) 25, 99, 167, 390
BlsI GCNGC 4 cut(s) 26, 100, 168, 391
Bme1390I CCNGG 1 cut(s) 128
BmeT110I CYCGRG 1 cut(s) 89
BmgBI CACGTC 1 cut(s) 349
BmiI GGNNCC 1 cut(s) 274
BmrFI CCNGG 1 cut(s) 128
BmsI GCATC 2 cut(s) 181, 418
BpiI GAAGAC 1 cut(s) 263
BplI GAGNNNNNCTC 2 cut(s) 38, 70
Bpu10I CCTNAGC 1 cut(s) 373
BpuEI CTTGAG 1 cut(s) 339
BsaI GGTCTC 2 cut(s) 19, 58
BsaJI CCNNGG 1 cut(s) 170
Bsc4I CCNNNNNNNGG 1 cut(s) 267
BseBI CCWGG 1 cut(s) 128
BseDI CCNNGG 1 cut(s) 170
BseLI CCNNNNNNNGG 1 cut(s) 267
BseMII CTCAG 4 cut(s) 30, 216, 357, 387
BseXI GCAGC 2 cut(s) 11, 85
BshFI GGCC 3 cut(s) 135, 169, 371
BshNI GGYRCC 1 cut(s) 272
BsiHKCI CYCGRG 1 cut(s) 89
BslI CCNNNNNNNGG 1 cut(s) 267
BsmAI GTCTC 5 cut(s) 19, 58, 324, 339, 357
BsmBI CGTCTC 1 cut(s) 339
BsnI GGCC 3 cut(s) 135, 169, 371
Bso31I GGTCTC 2 cut(s) 19, 58
BsoBI CYCGRG 1 cut(s) 89
Bsp1286I GDGCHC 1 cut(s) 445
Bsp143I GATC 3 cut(s) 108, 181, 325
BspACI CCGC 2 cut(s) 166, 389
BspANI GGCC 3 cut(s) 135, 169, 371
BspCNI CTCAG 4 cut(s) 29, 217, 358, 386
BspLI GGNNCC 1 cut(s) 274
BspPI GGATC 2 cut(s) 116, 320
BspQI GCTCTTC 1 cut(s) 450
BspT107I GGYRCC 1 cut(s) 272
BspTNI GGTCTC 2 cut(s) 19, 58
BsrBI CCGCTC 1 cut(s) 166
BssECI CCNNGG 1 cut(s) 170
BssMI GATC 3 cut(s) 108, 181, 325
BssNAI GTATAC 1 cut(s) 156
Bst1107I GTATAC 1 cut(s) 156
Bst2UI CCWGG 1 cut(s) 128
Bst6I CTCTTC 1 cut(s) 450
BstC8I GCNNGC 1 cut(s) 96
BstDEI CTNAG 4 cut(s) 16, 225, 366, 373
BstKTI GATC 3 cut(s) 111, 184, 328
BstMAI GTCTC 5 cut(s) 19, 58, 324, 339, 357
BstMBI GATC 3 cut(s) 108, 181, 325
BstMWI GCNNNNNNNGC 1 cut(s) 476
BstNI CCWGG 1 cut(s) 128
BstNSI RCATGY 3 cut(s) 319, 409, 504
BstSCI CCNGG 1 cut(s) 126
BstV1I GCAGC 2 cut(s) 11, 85
BstV2I GAAGAC 1 cut(s) 263
BstZ17I GTATAC 1 cut(s) 156
BsuRI GGCC 3 cut(s) 135, 169, 371
BtrI CACGTC 1 cut(s) 349
Cac8I GCNNGC 1 cut(s) 96
CseI GACGC 1 cut(s) 122
CsiI ACCWGGT 1 cut(s) 126
Csp6I GTAC 3 cut(s) 61, 273, 398
CviAII CATG 4 cut(s) 58, 316, 406, 501
CviQI GTAC 3 cut(s) 61, 273, 398
DdeI CTNAG 4 cut(s) 16, 225, 366, 373
DpnI GATC 3 cut(s) 110, 183, 327
DpnII GATC 3 cut(s) 108, 181, 325
EaeI YGGCCR 1 cut(s) 133
Eam1104I CTCTTC 1 cut(s) 450
EarI CTCTTC 1 cut(s) 450
Eco147I AGGCCT 1 cut(s) 371
Eco24I GRGCYC 1 cut(s) 445
Eco31I GGTCTC 2 cut(s) 19, 58
Eco88I CYCGRG 1 cut(s) 89
EcoRII CCWGG 1 cut(s) 126
EcoT22I ATGCAT 1 cut(s) 411
EcoT38I GRGCYC 1 cut(s) 445
Esp3I CGTCTC 1 cut(s) 339
FaeI CATG 4 cut(s) 61, 319, 409, 504
FalI AAGNNNNNCTT 2 cut(s) 429, 461
FatI CATG 4 cut(s) 57, 315, 405, 500
FauNDI CATATG 1 cut(s) 206
FbaI TGATCA 1 cut(s) 181
FblI GTMKAC 2 cut(s) 37, 155
Fnu4HI GCNGC 4 cut(s) 25, 99, 167, 390
FriOI GRGCYC 1 cut(s) 445
Fsp4HI GCNGC 4 cut(s) 25, 99, 167, 390
GluI GCNGC 4 cut(s) 25, 99, 167, 390
HaeIII GGCC 3 cut(s) 135, 169, 371
HgaI GACGC 1 cut(s) 122
Hin1II CATG 4 cut(s) 61, 319, 409, 504
HinfI GANTC 1 cut(s) 429
Hpy166II GTNNAC 3 cut(s) 38, 156, 177
Hpy188I TCNGA 4 cut(s) 19, 148, 226, 367
Hpy188III TCNNGA 4 cut(s) 188, 235, 323, 356
Hpy8I GTNNAC 3 cut(s) 38, 156, 177
Hpy99I CGWCG 1 cut(s) 116
HpyCH4IV ACGT 1 cut(s) 348
HpyCH4V TGCA 7 cut(s) 66, 101, 194, 210, 286, 409, 500
HpyF10VI GCNNNNNNNGC 1 cut(s) 476
HpyF3I CTNAG 4 cut(s) 16, 225, 366, 373
HpySE526I ACGT 1 cut(s) 348
Hsp92II CATG 4 cut(s) 61, 319, 409, 504
KpnI GGTACC 1 cut(s) 276
Ksp22I TGATCA 1 cut(s) 181
Kzo9I GATC 3 cut(s) 108, 181, 325
LguI GCTCTTC 1 cut(s) 450
LmnI GCTCC 1 cut(s) 163
LpnPI CCDG 4 cut(s) 113, 140, 205, 510
Lsp1109I GCAGC 2 cut(s) 11, 85
LweI GCATC 2 cut(s) 181, 418
MabI ACCWGGT 1 cut(s) 126
MaeII ACGT 1 cut(s) 348
MalI GATC 3 cut(s) 110, 183, 327
MbiI CCGCTC 1 cut(s) 166
MboI GATC 3 cut(s) 108, 181, 325
MboII GAAGA 2 cut(s) 268, 437
MhlI GDGCHC 1 cut(s) 445
MluCI AATT 1 cut(s) 195
MlyI GAGTC 1 cut(s) 438
MnlI CCTC 7 cut(s) 4, 144, 180, 340, 361, 382, 503
Mph1103I ATGCAT 1 cut(s) 411
MseI TTAA 1 cut(s) 198
MslI CAYNNNNRTG 2 cut(s) 47, 189
MspA1I CMGCKG 1 cut(s) 377
MspR9I CCNGG 1 cut(s) 128
MvaI CCWGG 1 cut(s) 128
MwoI GCNNNNNNNGC 1 cut(s) 476
NdeI CATATG 1 cut(s) 206
NdeII GATC 3 cut(s) 108, 181, 325
NlaIII CATG 4 cut(s) 61, 319, 409, 504
NlaIV GGNNCC 1 cut(s) 274
NsiI ATGCAT 1 cut(s) 411
NspI RCATGY 3 cut(s) 319, 409, 504
PceI AGGCCT 1 cut(s) 371
PciSI GCTCTTC 1 cut(s) 450
PkrI GCNGC 4 cut(s) 26, 100, 168, 391
PleI GAGTC 1 cut(s) 437
PpsI GAGTC 1 cut(s) 437
Psp6I CCWGG 1 cut(s) 126
PspGI CCWGG 1 cut(s) 126
PspN4I GGNNCC 1 cut(s) 274
PvuII CAGCTG 1 cut(s) 377
RsaI GTAC 3 cut(s) 62, 274, 399
RsaNI GTAC 3 cut(s) 61, 273, 398
RseI CAYNNNNRTG 2 cut(s) 47, 189
SapI GCTCTTC 1 cut(s) 450
SaqAI TTAA 1 cut(s) 198
SatI GCNGC 4 cut(s) 25, 99, 167, 390
Sau3AI GATC 3 cut(s) 108, 181, 325
SchI GAGTC 1 cut(s) 438
ScrFI CCNGG 1 cut(s) 128
SduI GDGCHC 1 cut(s) 445
SexAI ACCWGGT 1 cut(s) 126
SfaNI GCATC 2 cut(s) 181, 418
SmiMI CAYNNNNRTG 2 cut(s) 47, 189
SmlI CTYRAG 1 cut(s) 354
SmoI CTYRAG 1 cut(s) 354
Sse9I AATT 1 cut(s) 195
SseBI AGGCCT 1 cut(s) 371
SsiI CCGC 2 cut(s) 166, 389
StuI AGGCCT 1 cut(s) 371
StyD4I CCNGG 1 cut(s) 126
TaiI ACGT 1 cut(s) 351
TaqI TCGA 2 cut(s) 111, 189
TasI AATT 1 cut(s) 195
TatI WGTACW 1 cut(s) 60
TauI GCSGC 2 cut(s) 169, 392
Tru1I TTAA 1 cut(s) 198
Tru9I TTAA 1 cut(s) 198
TseI GCWGC 2 cut(s) 24, 98
TspDTI ATGAA 3 cut(s) 193, 437, 495
XceI RCATGY 3 cut(s) 319, 409, 504
XcmI CCANNNNNNNNNTGG 1 cut(s) 422
XmiI GTMKAC 2 cut(s) 37, 155
Zsp2I ATGCAT 1 cut(s) 411
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.