Rroxscaffold_2G00080670

At4g28440-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0010660
Physical Location & Seq
Forward (+)
3625919 .. 3626546
628 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00080670.1

Sequence Viewer

Length: 456 bp
ATGTATCTGTATTTTGTTGTGTATGTAACAGCTTTGTTAGAAATGGCGGATACAAAACCAGCAAAGAGGAAACCTGTGTTCAAAAAAGTTATTGAGCTTCAGCCGGACACCAAGGGACACACTCTGATTGTAAAAGTGGTTAGTTCGAAAATGGTGTTGCAGAAGGGCCGTCCTGATGGGATCCAAGTTCGTCAGATGAAGATTGCTGAATGCTTGGTTGGAGACGAAACCGGAACCATCATTTTCACCGCTAGAAATGAACAAGTGGACTTGATGAAACCTGGTGCTACTCTGATTCTGAGGAATGCTAAAATTGACATGTTCAAGGGATCTATGAGGCTTGCTGTTGACAAATGGGGTCGAGTAGAAGTGACTGAACCAGCTAGCTTCACTGTCAGGGAAGATAACAACATGTCACTGGTCGAATATGAACTGGTTAGTGTTGTCGAAAAGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03030 ko03420 ko03430 ko03440 ko03460 map03030 map03420 map03430 map03440 map03460
Pfam Domains
Protein Families
No domains found.

Protein Analysis

151

Amino Acids

17.06

Weight (kDa)

9.16

Isoelectric Point (pI)

27.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
OB_Ssb-like PF21473 33 - 124 1.1e-45 Single-stranded DNA binding protein Ssb-like, OB fold
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 47, 249
AclWI GGATC 3 cut(s) 175, 188, 337
AcuI CTGAAG 1 cut(s) 83
AflIII ACRYGT 2 cut(s) 318, 411
AgsI TTSAA 2 cut(s) 82, 325
AjnI CCWGG 1 cut(s) 280
AjuI GAANNNNNNNTTGG 2 cut(s) 201, 233
AluBI AGCT 4 cut(s) 32, 97, 383, 387
AluI AGCT 4 cut(s) 32, 97, 383, 387
Alw26I GTCTC 1 cut(s) 216
AlwI GGATC 3 cut(s) 175, 188, 337
AoxI GGCC 1 cut(s) 166
AspS9I GGNCC 1 cut(s) 166
AsuHPI GGTGA 1 cut(s) 238
AsuII TTCGAA 1 cut(s) 146
AsuNHI GCTAGC 1 cut(s) 383
BamHI GGATCC 1 cut(s) 180
BccI CCATC 2 cut(s) 170, 245
BceAI ACGGC 1 cut(s) 153
BciT130I CCWGG 1 cut(s) 282
BciVI GTATCC 1 cut(s) 43
BcoDI GTCTC 1 cut(s) 216
BfaI CTAG 2 cut(s) 252, 384
BfuI GTATCC 1 cut(s) 43
Bme1390I CCNGG 1 cut(s) 282
BmgT120I GGNCC 1 cut(s) 166
BmiI GGNNCC 2 cut(s) 182, 235
BmrFI CCNGG 1 cut(s) 282
BmtI GCTAGC 1 cut(s) 387
Bpu14I TTCGAA 1 cut(s) 146
BsaJI CCNNGG 1 cut(s) 111
BsaWI WCCGGW 1 cut(s) 230
Bse1I ACTGG 2 cut(s) 423, 438
BseBI CCWGG 1 cut(s) 282
BseDI CCNNGG 1 cut(s) 111
BseMII CTCAG 1 cut(s) 290
BseNI ACTGG 2 cut(s) 423, 438
BshFI GGCC 1 cut(s) 168
BsiSI CCGG 2 cut(s) 104, 231
BslFI GGGAC 1 cut(s) 129
BsmAI GTCTC 1 cut(s) 216
BsmBI CGTCTC 1 cut(s) 216
BsmFI GGGAC 1 cut(s) 129
BsmI GAATGC 2 cut(s) 215, 310
BsnI GGCC 1 cut(s) 168
Bsp119I TTCGAA 1 cut(s) 146
Bsp143I GATC 2 cut(s) 180, 329
BspACI CCGC 2 cut(s) 47, 249
BspANI GGCC 1 cut(s) 168
BspCNI CTCAG 1 cut(s) 291
BspLI GGNNCC 2 cut(s) 182, 235
BspOI GCTAGC 1 cut(s) 387
BspPI GGATC 3 cut(s) 175, 188, 337
BspT104I TTCGAA 1 cut(s) 146
BsrI ACTGG 2 cut(s) 423, 438
BssECI CCNNGG 1 cut(s) 111
BssMI GATC 2 cut(s) 180, 329
BssT1I CCWWGG 1 cut(s) 111
Bst2UI CCWGG 1 cut(s) 282
Bst4CI ACNGT 1 cut(s) 394
BstBI TTCGAA 1 cut(s) 146
BstC8I GCNNGC 2 cut(s) 342, 385
BstDEI CTNAG 1 cut(s) 299
BstKTI GATC 2 cut(s) 183, 332
BstMAI GTCTC 1 cut(s) 216
BstMBI GATC 2 cut(s) 180, 329
BstNI CCWGG 1 cut(s) 282
BstNSI RCATGY 2 cut(s) 322, 415
BstSCI CCNGG 1 cut(s) 280
BstX2I RGATCY 2 cut(s) 180, 329
BstYI RGATCY 2 cut(s) 180, 329
BsuI GTATCC 1 cut(s) 43
BsuRI GGCC 1 cut(s) 168
BtsIMutI CAGTG 2 cut(s) 390, 416
Cac8I GCNNGC 2 cut(s) 342, 385
Cfr13I GGNCC 1 cut(s) 166
CsiI ACCWGGT 1 cut(s) 280
CviAII CATG 2 cut(s) 319, 412
CviJI RGCY 7 cut(s) 32, 97, 103, 168, 340, 383, 387
CviKI_1 RGCY 7 cut(s) 32, 97, 103, 168, 340, 383, 387
DdeI CTNAG 1 cut(s) 299
DpnI GATC 2 cut(s) 182, 331
DpnII GATC 2 cut(s) 180, 329
EciI GGCGGA 1 cut(s) 62
Eco130I CCWWGG 1 cut(s) 111
Eco57I CTGAAG 1 cut(s) 83
EcoRII CCWGG 1 cut(s) 280
EcoT14I CCWWGG 1 cut(s) 111
ErhI CCWWGG 1 cut(s) 111
Esp3I CGTCTC 1 cut(s) 216
FaeI CATG 2 cut(s) 322, 415
FaiI YATR 5 cut(s) 24, 320, 335, 413, 429
FaqI GGGAC 1 cut(s) 129
FatI CATG 2 cut(s) 318, 411
FspBI CTAG 2 cut(s) 252, 384
HaeIII GGCC 1 cut(s) 168
HapII CCGG 2 cut(s) 104, 231
Hin1II CATG 2 cut(s) 322, 415
HincII GTYRAC 1 cut(s) 349
HindII GTYRAC 1 cut(s) 349
HinfI GANTC 1 cut(s) 295
HpaII CCGG 2 cut(s) 104, 231
HphI GGTGA 1 cut(s) 238
Hpy166II GTNNAC 2 cut(s) 268, 349
Hpy188I TCNGA 4 cut(s) 126, 195, 294, 300
Hpy188III TCNNGA 1 cut(s) 173
Hpy8I GTNNAC 2 cut(s) 268, 349
HpyAV CCTTC 1 cut(s) 157
HpyCH4III ACNGT 1 cut(s) 394
HpyCH4V TGCA 1 cut(s) 160
HpyF3I CTNAG 1 cut(s) 299
Hsp92II CATG 2 cut(s) 322, 415
Kzo9I GATC 2 cut(s) 180, 329
MabI ACCWGGT 1 cut(s) 280
MaeI CTAG 2 cut(s) 252, 384
MaeIII GTNAC 3 cut(s) 25, 370, 414
MalI GATC 2 cut(s) 182, 331
MboI GATC 2 cut(s) 180, 329
MboII GAAGA 2 cut(s) 211, 413
MflI RGATCY 2 cut(s) 180, 329
MluCI AATT 1 cut(s) 312
MmeI TCCRAC 1 cut(s) 199
MnlI CCTC 3 cut(s) 60, 294, 330
MspI CCGG 2 cut(s) 104, 231
MspR9I CCNGG 1 cut(s) 282
Mva1269I GAATGC 2 cut(s) 215, 310
MvaI CCWGG 1 cut(s) 282
NdeII GATC 2 cut(s) 180, 329
NheI GCTAGC 1 cut(s) 383
NlaIII CATG 2 cut(s) 322, 415
NlaIV GGNNCC 2 cut(s) 182, 235
NmuCI GTSAC 2 cut(s) 370, 414
NspI RCATGY 2 cut(s) 322, 415
NspV TTCGAA 1 cut(s) 146
PciI ACATGT 2 cut(s) 318, 411
PctI GAATGC 2 cut(s) 215, 310
PfeI GAWTC 1 cut(s) 295
PscI ACATGT 2 cut(s) 318, 411
Psp6I CCWGG 1 cut(s) 280
PspGI CCWGG 1 cut(s) 280
PspN4I GGNNCC 2 cut(s) 182, 235
PspPI GGNCC 1 cut(s) 166
PsuI RGATCY 2 cut(s) 180, 329
Sau3AI GATC 2 cut(s) 180, 329
Sau96I GGNCC 1 cut(s) 166
ScrFI CCNGG 1 cut(s) 282
SetI ASST 6 cut(s) 34, 76, 99, 283, 385, 389
SexAI ACCWGGT 1 cut(s) 280
SfuI TTCGAA 1 cut(s) 146
Sse9I AATT 1 cut(s) 312
SsiI CCGC 2 cut(s) 47, 249
SspMI CTAG 2 cut(s) 252, 384
StyD4I CCNGG 1 cut(s) 280
StyI CCWWGG 1 cut(s) 111
TaaI ACNGT 1 cut(s) 394
TaqI TCGA 4 cut(s) 146, 361, 423, 447
TasI AATT 1 cut(s) 312
TfiI GAWTC 1 cut(s) 295
TscAI CASTG 2 cut(s) 397, 423
TseFI GTSAC 2 cut(s) 370, 414
Tsp45I GTSAC 2 cut(s) 370, 414
TspDTI ATGAA 4 cut(s) 212, 273, 290, 444
TspRI CASTG 2 cut(s) 397, 423
XceI RCATGY 2 cut(s) 322, 415
XspI CTAG 2 cut(s) 252, 384
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.