Rh3DG044100

SEC-C motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0011179
Physical Location & Seq
Reverse (-)
2891895 .. 2894907
3013 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG044100.1

Sequence Viewer

Length: 594 bp
ATGCATTCTTCACGAATCCTAAGCACAACATTAAGCAAGAAAAGCTGGAGTTTCCTGTCCTCTCTATCCGGCTATTCTCACAGTGACAGTCACCACACTCCATCACTGCACCGCTCGATCTTCTCCACGACGCAACTAGACAACTCATGGGTGAACAAGATCAAAGGGGTCTTCACCGGCAATAAGACCTCCCCAGATGAGCCTAAGCTCAGCTCCGACTCATTCACCCTGCTCCGATTTGCGGATGAGATGAAGACTGCTAGAAGAGTAGGGGCATTCAAGCAATACATTGTTGGGAGAAGCAGTGAAGCGACTTTTGCCAATGCATTCGAGAAGCAGGAATCGATAATACGATATCTCGGAGGATTTGATTCTACTGGAGAGAATCTCCAAATCACGCAAAAACAAGAAGCAGCAAAGCATTGTAAATGCACAATAGCTGATGTTGAGAATGCACTTGCAAAGTTCACCTGGGCCAGAGAAGCACACAACAAGATGGAAAAGTTGAAAGCAGAAGGGAAACCAATTCCAACAAACATTGGCGAGGTATTATATCCTAAATTTTGCTTTCCTTCATACATCCCAGGTTATTGA
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
SEC-C

Protein Analysis

197

Amino Acids

22.09

Weight (kDa)

9.3

Isoelectric Point (pI)

42.75

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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Orthologous Genes (Group: OG0011179)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G04950
fragaria_vesca FvH4_6g03930
malus_domestica MD12G1234200.v1.1
prunus_persica Prupe.6G337300_v2.0.a1
pyrus_communis pycom04g19330 pycom12g21660
rosa_chinensis RchiOBHm_Chr3g0452481 RchiOBHm_Chr3g0452521
rosa_laevigata RLG00000025595 RLG00000025598
rosa_multiflora Rmu_co8297771.1_g000001 Rmu_sc0011680.1_g000004
rosa_roxburghii Rroxscaffold_6G00429510
rosa_rugosa Rorug02G0641200
rosa_samantha Rh3AG043000 Rh3BG044700 Rh3CG043300 Rh3DG044100
rosa_wichuraiana Rw3G003330 Rw3G003360

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 114
AciI CCGC 2 cut(s) 112, 242
AcsI RAATTY 1 cut(s) 560
AfiI CCNNNNNNNGG 1 cut(s) 241
AgsI TTSAA 2 cut(s) 280, 508
AjnI CCWGG 2 cut(s) 470, 583
AluBI AGCT 4 cut(s) 45, 208, 213, 440
AluI AGCT 4 cut(s) 45, 208, 213, 440
AoxI GGCC 1 cut(s) 474
ApeKI GCWGC 1 cut(s) 413
ApoI RAATTY 1 cut(s) 560
AspS9I GGNCC 1 cut(s) 474
AsuHPI GGTGA 5 cut(s) 83, 163, 166, 217, 460
BbsI GAAGAC 2 cut(s) 163, 260
BbvI GCAGC 1 cut(s) 425
BccI CCATC 2 cut(s) 109, 490
BciT130I CCWGG 2 cut(s) 472, 585
BfaI CTAG 2 cut(s) 137, 261
BisI GCNGC 1 cut(s) 414
BlpI GCTNAGC 1 cut(s) 209
BlsI GCNGC 1 cut(s) 415
Bme1390I CCNGG 2 cut(s) 472, 585
BmgT120I GGNCC 1 cut(s) 474
BmrFI CCNGG 2 cut(s) 472, 585
BpiI GAAGAC 2 cut(s) 163, 260
BplI GAGNNNNNCTC 2 cut(s) 372, 404
BpmI CTGGAG 2 cut(s) 67, 399
Bpu10I CCTNAGC 2 cut(s) 20, 204
Bpu1102I GCTNAGC 1 cut(s) 209
Bsa29I ATCGAT 1 cut(s) 344
BsaJI CCNNGG 2 cut(s) 471, 583
BsaXI ACNNNNNCTCC 2 cut(s) 289, 319
Bsc4I CCNNNNNNNGG 1 cut(s) 241
Bse118I RCCGGY 1 cut(s) 176
Bse1I ACTGG 1 cut(s) 382
BseBI CCWGG 2 cut(s) 472, 585
BseCI ATCGAT 1 cut(s) 344
BseDI CCNNGG 2 cut(s) 471, 583
BseGI GGATG 2 cut(s) 250, 579
BseLI CCNNNNNNNGG 1 cut(s) 241
BseMII CTCAG 1 cut(s) 223
BseNI ACTGG 1 cut(s) 382
BseXI GCAGC 1 cut(s) 425
BsgI GTGCAG 1 cut(s) 92
BshFI GGCC 1 cut(s) 476
BshVI ATCGAT 1 cut(s) 344
BsiSI CCGG 2 cut(s) 69, 177
BslI CCNNNNNNNGG 1 cut(s) 241
BsmI GAATGC 4 cut(s) 4, 275, 326, 457
BsnI GGCC 1 cut(s) 476
Bsp143I GATC 2 cut(s) 117, 159
Bsp1720I GCTNAGC 1 cut(s) 209
BspACI CCGC 2 cut(s) 112, 242
BspANI GGCC 1 cut(s) 476
BspCNI CTCAG 1 cut(s) 222
BspDI ATCGAT 1 cut(s) 344
BsrBI CCGCTC 1 cut(s) 114
BsrFI RCCGGY 1 cut(s) 176
BsrI ACTGG 1 cut(s) 382
BssAI RCCGGY 1 cut(s) 176
BssECI CCNNGG 2 cut(s) 471, 583
BssMI GATC 2 cut(s) 117, 159
Bst2UI CCWGG 2 cut(s) 472, 585
Bst4CI ACNGT 2 cut(s) 83, 89
Bst6I CTCTTC 1 cut(s) 259
BstDEI CTNAG 3 cut(s) 20, 204, 209
BstF5I GGATG 2 cut(s) 250, 579
BstKTI GATC 2 cut(s) 120, 162
BstMBI GATC 2 cut(s) 117, 159
BstMWI GCNNNNNNNGC 3 cut(s) 42, 317, 482
BstNI CCWGG 2 cut(s) 472, 585
BstSCI CCNGG 2 cut(s) 470, 583
BstV1I GCAGC 1 cut(s) 425
BstV2I GAAGAC 2 cut(s) 163, 260
Bsu15I ATCGAT 1 cut(s) 344
BsuRI GGCC 1 cut(s) 476
BsuTUI ATCGAT 1 cut(s) 344
BtsCI GGATG 2 cut(s) 250, 579
BtsI GCAGTG 2 cut(s) 104, 310
BtsIMutI CAGTG 3 cut(s) 88, 104, 310
Cfr10I RCCGGY 1 cut(s) 176
Cfr13I GGNCC 1 cut(s) 474
ClaI ATCGAT 1 cut(s) 344
CseI GACGC 1 cut(s) 139
CviAII CATG 1 cut(s) 147
CviJI RGCY 7 cut(s) 45, 72, 202, 208, 213, 440, 476
CviKI_1 RGCY 7 cut(s) 45, 72, 202, 208, 213, 440, 476
DdeI CTNAG 3 cut(s) 20, 204, 209
DpnI GATC 2 cut(s) 119, 161
DpnII GATC 2 cut(s) 117, 159
Eam1104I CTCTTC 1 cut(s) 259
EarI CTCTTC 1 cut(s) 259
Eco32I GATATC 1 cut(s) 356
EcoRII CCWGG 2 cut(s) 470, 583
EcoRV GATATC 1 cut(s) 356
EcoT22I ATGCAT 2 cut(s) 6, 328
FaeI CATG 1 cut(s) 150
FaiI YATR 3 cut(s) 148, 553, 577
FatI CATG 1 cut(s) 146
Fnu4HI GCNGC 1 cut(s) 414
FokI GGATG 2 cut(s) 257, 566
Fsp4HI GCNGC 1 cut(s) 414
FspBI CTAG 2 cut(s) 137, 261
GluI GCNGC 1 cut(s) 414
GsuI CTGGAG 2 cut(s) 67, 399
HaeIII GGCC 1 cut(s) 476
HapII CCGG 2 cut(s) 69, 177
HgaI GACGC 1 cut(s) 139
Hin1II CATG 1 cut(s) 150
HinfI GANTC 5 cut(s) 15, 218, 341, 371, 385
HpaII CCGG 2 cut(s) 69, 177
HphI GGTGA 5 cut(s) 83, 163, 166, 217, 460
Hpy166II GTNNAC 2 cut(s) 154, 468
Hpy188I TCNGA 3 cut(s) 217, 236, 362
Hpy188III TCNNGA 2 cut(s) 12, 331
Hpy8I GTNNAC 2 cut(s) 154, 468
Hpy99I CGWCG 1 cut(s) 133
HpyAV CCTTC 2 cut(s) 509, 582
HpyCH4III ACNGT 2 cut(s) 83, 89
HpyCH4V TGCA 6 cut(s) 4, 109, 326, 432, 455, 461
HpyF10VI GCNNNNNNNGC 3 cut(s) 42, 317, 482
HpyF3I CTNAG 3 cut(s) 20, 204, 209
Hsp92II CATG 1 cut(s) 150
Kzo9I GATC 2 cut(s) 117, 159
LmnI GCTCC 2 cut(s) 218, 237
Lsp1109I GCAGC 1 cut(s) 425
MaeI CTAG 2 cut(s) 137, 261
MaeIII GTNAC 2 cut(s) 83, 89
MalI GATC 2 cut(s) 119, 161
MbiI CCGCTC 1 cut(s) 114
MboI GATC 2 cut(s) 117, 159
MboII GAAGA 4 cut(s) 112, 163, 265, 276
MluCI AATT 2 cut(s) 525, 560
MlyI GAGTC 1 cut(s) 212
MmeI TCCRAC 2 cut(s) 240, 554
MnlI CCTC 4 cut(s) 70, 199, 356, 538
Mph1103I ATGCAT 2 cut(s) 6, 328
MseI TTAA 1 cut(s) 32
MspI CCGG 2 cut(s) 69, 177
MspR9I CCNGG 2 cut(s) 472, 585
Mva1269I GAATGC 4 cut(s) 4, 275, 326, 457
MvaI CCWGG 2 cut(s) 472, 585
MwoI GCNNNNNNNGC 3 cut(s) 42, 317, 482
NdeII GATC 2 cut(s) 117, 159
NlaIII CATG 1 cut(s) 150
NmuCI GTSAC 2 cut(s) 83, 89
NsiI ATGCAT 2 cut(s) 6, 328
PctI GAATGC 4 cut(s) 4, 275, 326, 457
PfeI GAWTC 4 cut(s) 15, 341, 371, 385
PkrI GCNGC 1 cut(s) 415
PleI GAGTC 1 cut(s) 212
PpsI GAGTC 1 cut(s) 212
Psp6I CCWGG 2 cut(s) 470, 583
PspGI CCWGG 2 cut(s) 470, 583
PspPI GGNCC 1 cut(s) 474
SaqAI TTAA 1 cut(s) 32
SatI GCNGC 1 cut(s) 414
Sau3AI GATC 2 cut(s) 117, 159
Sau96I GGNCC 1 cut(s) 474
SchI GAGTC 1 cut(s) 212
ScrFI CCNGG 2 cut(s) 472, 585
SetI ASST 8 cut(s) 47, 191, 210, 215, 442, 473, 549, 589
Sse9I AATT 2 cut(s) 525, 560
SsiI CCGC 2 cut(s) 112, 242
SspMI CTAG 2 cut(s) 137, 261
StyD4I CCNGG 2 cut(s) 470, 583
TaaI ACNGT 2 cut(s) 83, 89
TaqI TCGA 3 cut(s) 116, 330, 344
TasI AATT 2 cut(s) 525, 560
TfiI GAWTC 4 cut(s) 15, 341, 371, 385
Tru1I TTAA 1 cut(s) 32
Tru9I TTAA 1 cut(s) 32
TscAI CASTG 3 cut(s) 88, 111, 310
TseFI GTSAC 2 cut(s) 83, 89
TseI GCWGC 1 cut(s) 413
Tsp45I GTSAC 2 cut(s) 83, 89
TspDTI ATGAA 2 cut(s) 266, 564
TspRI CASTG 3 cut(s) 88, 111, 310
XapI RAATTY 1 cut(s) 560
XspI CTAG 2 cut(s) 137, 261
Zsp2I ATGCAT 2 cut(s) 6, 328
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.