RchiOBHm_Chr3g0452481

SEC-C motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0011179
Physical Location & Seq
Reverse (-)
3070679 .. 3073701
3023 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 684 bp
ATGCATTCTTCGCGAATCCTAAGCACAACATTAAGCAAGAAAAGCTGGAGTTTCCTGTCCTCTCTATCCGGCTATTCTCACAGTGACAGTCACCACACTCCATCACTGCACCGCTCGATCTTCTCGACGACGCAACTAGACAACTCATGGGTAAACAAGATCAAAGGGGTCTTCACCGGCAATAAGACCTCCCCAGATGAGCCCAAGCTCAACTCCGACTCATTCACCCTGCTCCGATTTGCGGATGAGATGAAGACTGCTAGAAGAGTAGGGGCATTCAAGCAATACATTGTTGGGAGAAGCAGTGAAGCAACTTTTGCCGATGCGTTCGAGAAGCAGGAATCGATAATACGATATCTCGGAGGATTTGATTCTACTGGAGAGAATCTCCAAATCACGCAAAAACAAGAAGCAGCAAAGCATTGTAAATGCACAATAGCTGATGTTGAGAATGCACTTGCAAAGTTCACCTGGGCCAGAGAAGCACACAACAAGATGGAAAAGTTGAAAGCAGAAGGGAAACCAATTCCAACAAACATTGGCGAGGTGCAAAAGTTGATGGGTTCAACCCCATTTGACCTTGCTCAGTCTAATTTGGCTAAGAGTGGGCAAATTAGTAGGAATGCACTTTGTCCGTGTGGTTCCAAGAAAAGATACAAGCGGTGCTGTGGAAAGGAGAAGTGA
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

227

Amino Acids

25.26

Weight (kDa)

9.55

Isoelectric Point (pI)

42.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SEC-C PF02810 207 - 225 1.2e-06 SEC-C motif
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
AccII CGCG 1 cut(s) 13
AciI CCGC 3 cut(s) 112, 242, 661
AfiI CCNNNNNNNGG 1 cut(s) 241
AgsI TTSAA 3 cut(s) 280, 508, 567
AjnI CCWGG 1 cut(s) 470
AluBI AGCT 3 cut(s) 45, 208, 440
AluI AGCT 3 cut(s) 45, 208, 440
AoxI GGCC 1 cut(s) 474
ApeKI GCWGC 1 cut(s) 413
AspS9I GGNCC 1 cut(s) 474
AsuHPI GGTGA 4 cut(s) 83, 166, 217, 460
BanII GRGCYC 1 cut(s) 204
BbsI GAAGAC 2 cut(s) 163, 260
BbvI GCAGC 1 cut(s) 425
BccI CCATC 3 cut(s) 109, 490, 553
BciT130I CCWGG 1 cut(s) 472
BfaI CTAG 2 cut(s) 137, 261
BisI GCNGC 1 cut(s) 414
BlsI GCNGC 1 cut(s) 415
Bme1390I CCNGG 1 cut(s) 472
BmgT120I GGNCC 1 cut(s) 474
BmiI GGNNCC 1 cut(s) 643
BmrFI CCNGG 1 cut(s) 472
BmsI GCATC 1 cut(s) 313
BpiI GAAGAC 2 cut(s) 163, 260
BplI GAGNNNNNCTC 2 cut(s) 372, 404
BpmI CTGGAG 2 cut(s) 67, 399
Bpu10I CCTNAGC 1 cut(s) 20
Bsa29I ATCGAT 1 cut(s) 344
BsaJI CCNNGG 1 cut(s) 471
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 1 cut(s) 472
BseCI ATCGAT 1 cut(s) 344
BseDI CCNNGG 1 cut(s) 471
BseGI GGATG 1 cut(s) 250
BseLI CCNNNNNNNGG 1 cut(s) 241
BseMII CTCAG 1 cut(s) 599
BseNI ACTGG 1 cut(s) 382
BseXI GCAGC 1 cut(s) 425
BsgI GTGCAG 1 cut(s) 92
Bsh1236I CGCG 1 cut(s) 13
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, 457, 628
BsnI GGCC 1 cut(s) 476
Bsp1286I GDGCHC 1 cut(s) 204
Bsp143I GATC 2 cut(s) 117, 159
Bsp68I TCGCGA 1 cut(s) 13
BspACI CCGC 3 cut(s) 112, 242, 661
BspANI GGCC 1 cut(s) 476
BspCNI CTCAG 1 cut(s) 598
BspDI ATCGAT 1 cut(s) 344
BspFNI CGCG 1 cut(s) 13
BspLI GGNNCC 1 cut(s) 643
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 1 cut(s) 471
BssMI GATC 2 cut(s) 117, 159
Bst2UI CCWGG 1 cut(s) 472
Bst4CI ACNGT 2 cut(s) 83, 89
Bst6I CTCTTC 1 cut(s) 259
BstAPI GCANNNNNTGC 1 cut(s) 317
BstDEI CTNAG 3 cut(s) 20, 585, 600
BstF5I GGATG 1 cut(s) 250
BstFNI CGCG 1 cut(s) 13
BstKTI GATC 2 cut(s) 120, 162
BstMBI GATC 2 cut(s) 117, 159
BstMWI GCNNNNNNNGC 4 cut(s) 10, 42, 317, 482
BstNI CCWGG 1 cut(s) 472
BstSCI CCNGG 1 cut(s) 470
BstUI CGCG 1 cut(s) 13
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 1 cut(s) 250
BtsI GCAGTG 2 cut(s) 104, 310
BtsIMutI CAGTG 3 cut(s) 88, 104, 310
BtuMI TCGCGA 1 cut(s) 13
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, 440, 476, 599
CviKI_1 RGCY 7 cut(s) 45, 72, 202, 208, 440, 476, 599
DdeI CTNAG 3 cut(s) 20, 585, 600
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
Eco24I GRGCYC 1 cut(s) 204
Eco32I GATATC 1 cut(s) 356
EcoRII CCWGG 1 cut(s) 470
EcoRV GATATC 1 cut(s) 356
EcoT22I ATGCAT 1 cut(s) 6
EcoT38I GRGCYC 1 cut(s) 204
FaeI CATG 1 cut(s) 150
FaiI YATR 1 cut(s) 148
FatI CATG 1 cut(s) 146
Fnu4HI GCNGC 1 cut(s) 414
FokI GGATG 1 cut(s) 257
FriOI GRGCYC 1 cut(s) 204
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 4 cut(s) 83, 166, 217, 460
Hpy166II GTNNAC 2 cut(s) 154, 468
Hpy188I TCNGA 3 cut(s) 217, 236, 362
Hpy188III TCNNGA 3 cut(s) 12, 124, 331
Hpy8I GTNNAC 2 cut(s) 154, 468
Hpy99I CGWCG 2 cut(s) 130, 133
HpyAV CCTTC 1 cut(s) 509
HpyCH4III ACNGT 2 cut(s) 83, 89
HpyCH4V TGCA 7 cut(s) 4, 109, 432, 455, 461, 550, 626
HpyF10VI GCNNNNNNNGC 4 cut(s) 10, 42, 317, 482
HpyF3I CTNAG 3 cut(s) 20, 585, 600
Hsp92II CATG 1 cut(s) 150
Kzo9I GATC 2 cut(s) 117, 159
LmnI GCTCC 1 cut(s) 237
Lsp1109I GCAGC 1 cut(s) 425
LweI GCATC 1 cut(s) 313
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
MhlI GDGCHC 1 cut(s) 204
MluCI AATT 3 cut(s) 525, 592, 612
MlyI GAGTC 1 cut(s) 212
MmeI TCCRAC 2 cut(s) 240, 554
MnlI CCTC 4 cut(s) 70, 199, 356, 538
Mph1103I ATGCAT 1 cut(s) 6
MseI TTAA 1 cut(s) 32
MspI CCGG 2 cut(s) 69, 177
MspR9I CCNGG 1 cut(s) 472
Mva1269I GAATGC 4 cut(s) 4, 275, 457, 628
MvaI CCWGG 1 cut(s) 472
MvnI CGCG 1 cut(s) 13
MwoI GCNNNNNNNGC 4 cut(s) 10, 42, 317, 482
NdeII GATC 2 cut(s) 117, 159
NlaIII CATG 1 cut(s) 150
NlaIV GGNNCC 1 cut(s) 643
NmuCI GTSAC 2 cut(s) 83, 89
NruI TCGCGA 1 cut(s) 13
NsiI ATGCAT 1 cut(s) 6
PcsI WCGNNNNNNNCGW 1 cut(s) 122
PctI GAATGC 4 cut(s) 4, 275, 457, 628
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 1 cut(s) 470
PspGI CCWGG 1 cut(s) 470
PspN4I GGNNCC 1 cut(s) 643
PspPI GGNCC 1 cut(s) 474
RruI TCGCGA 1 cut(s) 13
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 1 cut(s) 472
SduI GDGCHC 1 cut(s) 204
SetI ASST 7 cut(s) 47, 191, 210, 442, 473, 549, 582
SfaNI GCATC 1 cut(s) 313
Sse9I AATT 3 cut(s) 525, 592, 612
SsiI CCGC 3 cut(s) 112, 242, 661
SspMI CTAG 2 cut(s) 137, 261
StyD4I CCNGG 1 cut(s) 470
TaaI ACNGT 2 cut(s) 83, 89
TaqI TCGA 4 cut(s) 116, 125, 330, 344
TasI AATT 3 cut(s) 525, 592, 612
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 1 cut(s) 266
TspGWI ACGGA 1 cut(s) 624
TspRI CASTG 3 cut(s) 88, 111, 310
XspI CTAG 2 cut(s) 137, 261
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.