Rroxscaffold_3G00237760

HORMA domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0003257
Physical Location & Seq
Reverse (-)
25449900 .. 25452259
2360 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00237760.1

Sequence Viewer

Length: 519 bp
ATGTTTAGTGGTGGTGGCTCTTGTGTCTCGAATCACCTATGGCTGCGAGACCGCAACCTCCGCCGCCGCCACCAACCCCAACTTGGTTTTGGGTTCGTCTTTGGCTTTGGATTGGGTACTCGAATCGCCGGGCTACATGTACGACGCTCTCTCAAATCCTTGTCTGCTCGTAGAATCTTGTCCTTTCGCTCTATCATTCATTCCAAGTCTCCTCCCAACATTCCTACACTCTCCCACCGTTTCGTAAGGAGTGAAGTGAAGCACCTAAAGGTTTTGAGGATGGCAGTGATTTACATGATGATGTATGTGCTGAATCTGTACGAGTACGCGAAGAAGAACTTGGGGCCTCCGAGATCGATTGTGTGGACTGTGGAGGTTGCTATGATCAATATTGTTGCTCCAATCTACTGGAGATTCAAAGGAGTGCCTGATGATTTCCTTGGTTTACTCAACATGAAGGTAAATCACTCTTATCCCTTCTTACAAGCAAAAGAAGAAATACAAACTGTATGGAAGTAA
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
HORMA NIF REF

Protein Analysis

172

Amino Acids

19.95

Weight (kDa)

11.0

Isoelectric Point (pI)

64.62

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
REF PF05755 84 - 158 1.5e-18 Rubber elongation factor protein (REF)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 329
AciI CCGC 4 cut(s) 52, 61, 64, 67
AfaI GTAC 4 cut(s) 118, 141, 320, 326
AfiI CCNNNNNNNGG 1 cut(s) 83
AflIII ACRYGT 1 cut(s) 136
AgsI TTSAA 1 cut(s) 418
AjuI GAANNNNNNNTTGG 2 cut(s) 323, 355
Alw26I GTCTC 3 cut(s) 31, 42, 213
AoxI GGCC 1 cut(s) 344
ApeKI GCWGC 1 cut(s) 43
AspS9I GGNCC 1 cut(s) 344
AsuC2I CCSGG 1 cut(s) 130
AsuHPI GGTGA 1 cut(s) 26
BbvI GCAGC 1 cut(s) 30
BccI CCATC 1 cut(s) 274
BclI TGATCA 1 cut(s) 384
BcnI CCSGG 1 cut(s) 130
BcoDI GTCTC 3 cut(s) 31, 42, 213
BisI GCNGC 3 cut(s) 44, 64, 67
BlsI GCNGC 3 cut(s) 45, 65, 68
Bme1390I CCNGG 1 cut(s) 130
BmgT120I GGNCC 1 cut(s) 344
BmiI GGNNCC 1 cut(s) 345
BmrFI CCNGG 1 cut(s) 130
BpmI CTGGAG 1 cut(s) 430
BpuMI CCSGG 1 cut(s) 130
Bsa29I ATCGAT 1 cut(s) 356
BsaI GGTCTC 1 cut(s) 42
BsaJI CCNNGG 1 cut(s) 439
Bsc4I CCNNNNNNNGG 1 cut(s) 83
Bse1I ACTGG 1 cut(s) 413
BseCI ATCGAT 1 cut(s) 356
BseDI CCNNGG 1 cut(s) 439
BseGI GGATG 1 cut(s) 285
BseLI CCNNNNNNNGG 1 cut(s) 83
BseNI ACTGG 1 cut(s) 413
BseRI GAGGAG 1 cut(s) 201
BseXI GCAGC 1 cut(s) 30
Bsh1236I CGCG 1 cut(s) 329
BshFI GGCC 1 cut(s) 346
BshVI ATCGAT 1 cut(s) 356
BsiSI CCGG 1 cut(s) 129
BslI CCNNNNNNNGG 1 cut(s) 83
BsmAI GTCTC 3 cut(s) 31, 42, 213
BsnI GGCC 1 cut(s) 346
Bso31I GGTCTC 1 cut(s) 42
Bsp143I GATC 2 cut(s) 353, 384
BspACI CCGC 4 cut(s) 52, 61, 64, 67
BspANI GGCC 1 cut(s) 346
BspDI ATCGAT 1 cut(s) 356
BspFNI CGCG 1 cut(s) 329
BspLI GGNNCC 1 cut(s) 345
BspTNI GGTCTC 1 cut(s) 42
BsrI ACTGG 1 cut(s) 413
BssECI CCNNGG 1 cut(s) 439
BssMI GATC 2 cut(s) 353, 384
BssT1I CCWWGG 1 cut(s) 439
Bst4CI ACNGT 3 cut(s) 239, 370, 508
BstF5I GGATG 1 cut(s) 285
BstFNI CGCG 1 cut(s) 329
BstKTI GATC 2 cut(s) 356, 387
BstMAI GTCTC 3 cut(s) 31, 42, 213
BstMBI GATC 2 cut(s) 353, 384
BstMWI GCNNNNNNNGC 1 cut(s) 60
BstNSI RCATGY 1 cut(s) 140
BstSCI CCNGG 1 cut(s) 128
BstUI CGCG 1 cut(s) 329
BstV1I GCAGC 1 cut(s) 30
BstXI CCANNNNNNTGG 1 cut(s) 408
Bsu15I ATCGAT 1 cut(s) 356
BsuRI GGCC 1 cut(s) 346
BsuTUI ATCGAT 1 cut(s) 356
BtsCI GGATG 1 cut(s) 285
BtsI GCAGTG 1 cut(s) 291
BtsIMutI CAGTG 1 cut(s) 291
Cfr13I GGNCC 1 cut(s) 344
ClaI ATCGAT 1 cut(s) 356
CseI GACGC 1 cut(s) 153
Csp6I GTAC 4 cut(s) 117, 140, 319, 325
CviAII CATG 3 cut(s) 137, 295, 454
CviJI RGCY 5 cut(s) 18, 43, 105, 133, 346
CviKI_1 RGCY 5 cut(s) 18, 43, 105, 133, 346
CviQI GTAC 4 cut(s) 117, 140, 319, 325
DpnI GATC 2 cut(s) 355, 386
DpnII GATC 2 cut(s) 353, 384
EciI GGCGGA 1 cut(s) 50
Eco130I CCWWGG 1 cut(s) 439
Eco31I GGTCTC 1 cut(s) 42
EcoO109I RGGNCCY 1 cut(s) 344
EcoT14I CCWWGG 1 cut(s) 439
ErhI CCWWGG 1 cut(s) 439
FaeI CATG 3 cut(s) 140, 298, 457
FaiI YATR 7 cut(s) 40, 138, 296, 306, 383, 455, 511
FalI AAGNNNNNCTT 2 cut(s) 323, 355
FatI CATG 3 cut(s) 136, 294, 453
FbaI TGATCA 1 cut(s) 384
Fnu4HI GCNGC 3 cut(s) 44, 64, 67
FokI GGATG 1 cut(s) 292
Fsp4HI GCNGC 3 cut(s) 44, 64, 67
GluI GCNGC 3 cut(s) 44, 64, 67
GsuI CTGGAG 1 cut(s) 430
HaeIII GGCC 1 cut(s) 346
HapII CCGG 1 cut(s) 129
HgaI GACGC 1 cut(s) 153
Hin1II CATG 3 cut(s) 140, 298, 457
HinfI GANTC 5 cut(s) 31, 123, 174, 313, 414
HpaII CCGG 1 cut(s) 129
HphI GGTGA 1 cut(s) 26
Hpy166II GTNNAC 2 cut(s) 366, 446
Hpy188I TCNGA 1 cut(s) 351
Hpy188III TCNNGA 1 cut(s) 28
Hpy8I GTNNAC 2 cut(s) 366, 446
Hpy99I CGWCG 1 cut(s) 147
HpyAV CCTTC 2 cut(s) 451, 487
HpyCH4III ACNGT 3 cut(s) 239, 370, 508
HpyF10VI GCNNNNNNNGC 1 cut(s) 60
Hsp92II CATG 3 cut(s) 140, 298, 457
Ksp22I TGATCA 1 cut(s) 384
Kzo9I GATC 2 cut(s) 353, 384
LmnI GCTCC 1 cut(s) 403
LpnPI CCDG 3 cut(s) 142, 394, 441
Lsp1109I GCAGC 1 cut(s) 30
MalI GATC 2 cut(s) 355, 386
MboI GATC 2 cut(s) 353, 384
MboII GAAGA 3 cut(s) 343, 346, 506
MnlI CCTC 5 cut(s) 68, 222, 270, 357, 367
MslI CAYNNNNRTG 1 cut(s) 299
MspI CCGG 1 cut(s) 129
MspR9I CCNGG 1 cut(s) 130
MvnI CGCG 1 cut(s) 329
MwoI GCNNNNNNNGC 1 cut(s) 60
NciI CCSGG 1 cut(s) 130
NdeII GATC 2 cut(s) 353, 384
NlaIII CATG 3 cut(s) 140, 298, 457
NlaIV GGNNCC 1 cut(s) 345
NspI RCATGY 1 cut(s) 140
PciI ACATGT 1 cut(s) 136
PfeI GAWTC 5 cut(s) 31, 123, 174, 313, 414
PkrI GCNGC 3 cut(s) 45, 65, 68
PscI ACATGT 1 cut(s) 136
PspN4I GGNNCC 1 cut(s) 345
PspPI GGNCC 1 cut(s) 344
RsaI GTAC 4 cut(s) 118, 141, 320, 326
RsaNI GTAC 4 cut(s) 117, 140, 319, 325
RseI CAYNNNNRTG 1 cut(s) 299
SatI GCNGC 3 cut(s) 44, 64, 67
Sau3AI GATC 2 cut(s) 353, 384
Sau96I GGNCC 1 cut(s) 344
ScrFI CCNGG 1 cut(s) 130
SetI ASST 6 cut(s) 39, 60, 267, 273, 378, 462
SmiMI CAYNNNNRTG 1 cut(s) 299
SsiI CCGC 4 cut(s) 52, 61, 64, 67
SspI AATATT 1 cut(s) 391
StyD4I CCNGG 1 cut(s) 128
StyI CCWWGG 1 cut(s) 439
TaaI ACNGT 3 cut(s) 239, 370, 508
TaqI TCGA 3 cut(s) 29, 121, 356
TauI GCSGC 2 cut(s) 66, 69
TfiI GAWTC 5 cut(s) 31, 123, 174, 313, 414
TscAI CASTG 1 cut(s) 291
TseI GCWGC 1 cut(s) 43
TspDTI ATGAA 2 cut(s) 188, 470
TspRI CASTG 1 cut(s) 291
XceI RCATGY 1 cut(s) 140
XcmI CCANNNNNNNNNTGG 2 cut(s) 80, 86
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.