Rroxscaffold_6G00429510

SEC-C motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0011179
Physical Location & Seq
Reverse (-)
49766594 .. 49770393
3800 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00429510.1

Sequence Viewer

Length: 606 bp
ATGAAGGTGCTTTGCGGTGTTGTGTTCCTTGCAATCTACGACTTGAAACTGTTGAGGAAGCTAGCTAATGAAGTTCAAAAATACAGTGGGGTCTTCACCGGCAATAAGACCTCCCCAGATGAACCCAAGCTCAGCTCCGACTCATTCACCCTGCTCCGATTTGCGGATGAGATGAAGACTGCTAGAAGAGTGGGGGCATTCAAGCAATACATTGTTGGGAGAAGCAGTGAAGCGACTTTTGTCGATGCATTTGAGAAGCAGGAATCGATAATACGATATCTCGGAGGATTTGATTCTACTGGAGAGAATCTCCAAATCATGCAAAAACAAGAAGCAGCAAAGCATTGTAAATGCACAATAGCTGATGTTGAGAATGCACTTGCAAAGTTCACCTGGGCTAGAGAAGCACACAACAAGATGGAAAAGTTGAAGGCAGAAGGGAAACCAATTCCAACAAACATTGGCGAGGTGCAAAAGTTGATGGGTACGACCCCATTTGACCTTGCTCAGTCTAATTTAGCCAAGAGTGGGCAAATTAGTAGGAATGCGCTTTGTCCATGTGGTTCCAAGAAGAGATACAAGCGGTGCTGTGGAAAGGATAAGTGA
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

201

Amino Acids

22.4

Weight (kDa)

9.41

Isoelectric Point (pI)

37.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SEC-C PF02810 181 - 199 1e-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)
AciI CCGC 3 cut(s) 15, 164, 583
AfaI GTAC 1 cut(s) 487
AfiI CCNNNNNNNGG 2 cut(s) 163, 528
AgsI TTSAA 4 cut(s) 46, 77, 202, 430
AjnI CCWGG 1 cut(s) 392
AluBI AGCT 5 cut(s) 61, 65, 130, 135, 362
AluI AGCT 5 cut(s) 61, 65, 130, 135, 362
ApeKI GCWGC 1 cut(s) 335
AspLEI GCGC 1 cut(s) 550
AsuHPI GGTGA 3 cut(s) 88, 139, 382
AsuNHI GCTAGC 1 cut(s) 61
BbsI GAAGAC 2 cut(s) 85, 182
BbvI GCAGC 1 cut(s) 347
BccI CCATC 2 cut(s) 412, 475
BciT130I CCWGG 1 cut(s) 394
BfaI CTAG 3 cut(s) 62, 183, 399
BisI GCNGC 1 cut(s) 336
BlpI GCTNAGC 1 cut(s) 131
BlsI GCNGC 1 cut(s) 337
Bme1390I CCNGG 1 cut(s) 394
BmiI GGNNCC 1 cut(s) 565
BmrFI CCNGG 1 cut(s) 394
BmsI GCATC 1 cut(s) 235
BmtI GCTAGC 1 cut(s) 65
BoxI GACNNNNGTC 1 cut(s) 239
BpiI GAAGAC 2 cut(s) 85, 182
BplI GAGNNNNNCTC 2 cut(s) 294, 326
BpmI CTGGAG 1 cut(s) 321
Bpu1102I GCTNAGC 1 cut(s) 131
Bsa29I ATCGAT 1 cut(s) 266
BsaJI CCNNGG 1 cut(s) 393
BsaXI ACNNNNNCTCC 2 cut(s) 211, 241
Bsc4I CCNNNNNNNGG 2 cut(s) 163, 528
Bse118I RCCGGY 1 cut(s) 98
Bse1I ACTGG 1 cut(s) 304
BseBI CCWGG 1 cut(s) 394
BseCI ATCGAT 1 cut(s) 266
BseDI CCNNGG 1 cut(s) 393
BseGI GGATG 1 cut(s) 172
BseLI CCNNNNNNNGG 2 cut(s) 163, 528
BseMII CTCAG 2 cut(s) 145, 521
BseNI ACTGG 1 cut(s) 304
BseXI GCAGC 1 cut(s) 347
BshVI ATCGAT 1 cut(s) 266
BsiSI CCGG 1 cut(s) 99
BslI CCNNNNNNNGG 2 cut(s) 163, 528
BsmI GAATGC 3 cut(s) 197, 379, 550
Bsp1720I GCTNAGC 1 cut(s) 131
BspACI CCGC 3 cut(s) 15, 164, 583
BspCNI CTCAG 2 cut(s) 144, 520
BspDI ATCGAT 1 cut(s) 266
BspLI GGNNCC 1 cut(s) 565
BspOI GCTAGC 1 cut(s) 65
BsrFI RCCGGY 1 cut(s) 98
BsrI ACTGG 1 cut(s) 304
BssAI RCCGGY 1 cut(s) 98
BssECI CCNNGG 1 cut(s) 393
Bst2UI CCWGG 1 cut(s) 394
Bst4CI ACNGT 2 cut(s) 51, 86
Bst6I CTCTTC 2 cut(s) 181, 566
BstC8I GCNNGC 1 cut(s) 63
BstDEI CTNAG 2 cut(s) 131, 507
BstF5I GGATG 1 cut(s) 172
BstHHI GCGC 1 cut(s) 550
BstMWI GCNNNNNNNGC 1 cut(s) 404
BstNI CCWGG 1 cut(s) 394
BstPAI GACNNNNGTC 1 cut(s) 239
BstSCI CCNGG 1 cut(s) 392
BstV1I GCAGC 1 cut(s) 347
BstV2I GAAGAC 2 cut(s) 85, 182
Bsu15I ATCGAT 1 cut(s) 266
BsuTUI ATCGAT 1 cut(s) 266
BtsCI GGATG 1 cut(s) 172
BtsI GCAGTG 1 cut(s) 232
BtsIMutI CAGTG 2 cut(s) 91, 232
Cac8I GCNNGC 1 cut(s) 63
CfoI GCGC 1 cut(s) 550
Cfr10I RCCGGY 1 cut(s) 98
ClaI ATCGAT 1 cut(s) 266
Csp6I GTAC 1 cut(s) 486
CviAII CATG 2 cut(s) 319, 558
CviJI RGCY 7 cut(s) 61, 65, 130, 135, 362, 398, 521
CviKI_1 RGCY 7 cut(s) 61, 65, 130, 135, 362, 398, 521
CviQI GTAC 1 cut(s) 486
DdeI CTNAG 2 cut(s) 131, 507
Eam1104I CTCTTC 2 cut(s) 181, 566
EarI CTCTTC 2 cut(s) 181, 566
Eco32I GATATC 1 cut(s) 278
EcoRII CCWGG 1 cut(s) 392
EcoRV GATATC 1 cut(s) 278
EcoT22I ATGCAT 1 cut(s) 250
FaeI CATG 2 cut(s) 322, 561
FaiI YATR 2 cut(s) 320, 559
FatI CATG 2 cut(s) 318, 557
Fnu4HI GCNGC 1 cut(s) 336
FokI GGATG 1 cut(s) 179
Fsp4HI GCNGC 1 cut(s) 336
FspBI CTAG 3 cut(s) 62, 183, 399
GlaI GCGC 1 cut(s) 549
GluI GCNGC 1 cut(s) 336
GsuI CTGGAG 1 cut(s) 321
HapII CCGG 1 cut(s) 99
HhaI GCGC 1 cut(s) 550
Hin1II CATG 2 cut(s) 322, 561
Hin6I GCGC 1 cut(s) 548
HinP1I GCGC 1 cut(s) 548
HinfI GANTC 4 cut(s) 140, 263, 293, 307
HpaII CCGG 1 cut(s) 99
HphI GGTGA 3 cut(s) 88, 139, 382
Hpy166II GTNNAC 1 cut(s) 390
Hpy188I TCNGA 3 cut(s) 139, 158, 284
Hpy8I GTNNAC 1 cut(s) 390
HpyAV CCTTC 2 cut(s) 424, 431
HpyCH4III ACNGT 2 cut(s) 51, 86
HpyCH4V TGCA 7 cut(s) 32, 248, 322, 354, 377, 383, 472
HpyF10VI GCNNNNNNNGC 1 cut(s) 404
HpyF3I CTNAG 2 cut(s) 131, 507
Hsp92II CATG 2 cut(s) 322, 561
HspAI GCGC 1 cut(s) 548
LmnI GCTCC 2 cut(s) 140, 159
LpnPI CCDG 7 cut(s) 112, 129, 164, 245, 285, 379, 406
Lsp1109I GCAGC 1 cut(s) 347
LweI GCATC 1 cut(s) 235
MaeI CTAG 3 cut(s) 62, 183, 399
MboII GAAGA 4 cut(s) 85, 187, 198, 583
MluCI AATT 3 cut(s) 447, 514, 534
MlyI GAGTC 1 cut(s) 134
MmeI TCCRAC 2 cut(s) 162, 476
MnlI CCTC 4 cut(s) 48, 121, 278, 460
Mph1103I ATGCAT 1 cut(s) 250
MspI CCGG 1 cut(s) 99
MspR9I CCNGG 1 cut(s) 394
Mva1269I GAATGC 3 cut(s) 197, 379, 550
MvaI CCWGG 1 cut(s) 394
MwoI GCNNNNNNNGC 1 cut(s) 404
NheI GCTAGC 1 cut(s) 61
NlaIII CATG 2 cut(s) 322, 561
NlaIV GGNNCC 1 cut(s) 565
NsiI ATGCAT 1 cut(s) 250
PctI GAATGC 3 cut(s) 197, 379, 550
PfeI GAWTC 3 cut(s) 263, 293, 307
PkrI GCNGC 1 cut(s) 337
PleI GAGTC 1 cut(s) 134
PpsI GAGTC 1 cut(s) 134
PshAI GACNNNNGTC 1 cut(s) 239
Psp6I CCWGG 1 cut(s) 392
PspGI CCWGG 1 cut(s) 392
PspN4I GGNNCC 1 cut(s) 565
RsaI GTAC 1 cut(s) 487
RsaNI GTAC 1 cut(s) 486
SatI GCNGC 1 cut(s) 336
SchI GAGTC 1 cut(s) 134
ScrFI CCNGG 1 cut(s) 394
SfaNI GCATC 1 cut(s) 235
Sse9I AATT 3 cut(s) 447, 514, 534
SsiI CCGC 3 cut(s) 15, 164, 583
SspMI CTAG 3 cut(s) 62, 183, 399
StyD4I CCNGG 1 cut(s) 392
TaaI ACNGT 2 cut(s) 51, 86
TaqI TCGA 2 cut(s) 243, 266
TasI AATT 3 cut(s) 447, 514, 534
TfiI GAWTC 3 cut(s) 263, 293, 307
TscAI CASTG 2 cut(s) 91, 232
TseI GCWGC 1 cut(s) 335
TspDTI ATGAA 4 cut(s) 17, 84, 135, 188
TspRI CASTG 2 cut(s) 91, 232
XspI CTAG 3 cut(s) 62, 183, 399
Zsp2I ATGCAT 1 cut(s) 250
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.