Rroxscaffold_2G00153860

isoform X1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0018576
Physical Location & Seq
Forward (+)
90602298 .. 90605553
3256 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00153860.1

Sequence Viewer

Length: 630 bp
ATGACAGACCGATTTAAAGCGAAGGATGTCTTTATAGCCAAGGATGTCAAATTCGGAAGATCAGTCAGCCTTAGTAAGTCCTCAGGCTTATTACCACGAACGACGCTGGACATGAGGCGCTCGAAGGCTGCGCCGACGTCCTCTTCAGTCCTTTGCCTCCTTGTTAGTTTGTTCTCGCGCGTGGTCAGTTGTTCTTCTTCTTTTCTCTTTTCTTTTGGATGTCCGGTGGTTGACCGTCTAGGTTTTGAAGGTGTTGGTGGGGACTTTGTGCTGCTTGAGAAATCGAAGAAGGAAAGGATTAGGAAATTGAGTACTATTGGTAGAGGAGCGACTTCTTCGAGCTTCGAAATGGGTTGTGATGTGTCCGATAGAGAAGATGAGGAATTTAAGCTACCCGAGAAAGGTTGGAAGAGGTATGAGATTGTCAATGGTTTAAGTGAAAGTGTTCAAGGAGTAAGTAATGATGAAGAAGCTCCTGAAGCAAACAAAGCAGTCACCAAGCAGAAAGGAGTACCTGGCTTTTGCATTATGGCAATGATGCATCATTACATACTTGCTGATGTGATTAAACTTCACGATGTAAAGGCTCTGGCATGTCTCACTGATATCAAGTGCCGTAAAGTTAGATAA
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
No domains found.

Protein Analysis

209

Amino Acids

23.06

Weight (kDa)

9.17

Isoelectric Point (pI)

44.98

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NAP PF00956 137 - 207 5.6e-10 Nucleosome assembly protein (NAP)
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: OG0018576)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr2g0087311 RchiOBHm_Chr7g0219731
rosa_laevigata RLG00000002274
rosa_multiflora Rmu_sc0041444.1_g000001
rosa_roxburghii Rroxscaffold_2G00153860
rosa_rugosa Rorug07G0187100
rosa_samantha Rh2BG025700 Rh7AG331100 Rh7CG348500 Rh7DG326600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 140
AccII CGCG 2 cut(s) 178, 180
AcsI RAATTY 2 cut(s) 50, 383
AcuI CTGAAG 2 cut(s) 129, 498
AcyI GRCGYC 1 cut(s) 137
AfaI GTAC 2 cut(s) 313, 513
AfiI CCNNNNNNNGG 1 cut(s) 401
AgsI TTSAA 2 cut(s) 248, 449
AjnI CCWGG 1 cut(s) 514
AluBI AGCT 3 cut(s) 342, 391, 473
AluI AGCT 3 cut(s) 342, 391, 473
Alw26I GTCTC 1 cut(s) 602
Ama87I CYCGRG 1 cut(s) 395
ApeKI GCWGC 2 cut(s) 128, 271
ApoI RAATTY 2 cut(s) 50, 383
Asp700I GAANNNNTTC 1 cut(s) 444
AspLEI GCGC 3 cut(s) 120, 133, 180
AsuHPI GGTGA 1 cut(s) 487
AsuII TTCGAA 1 cut(s) 345
AvaI CYCGRG 1 cut(s) 395
AxyI CCTNAGG 1 cut(s) 82
BbvI GCAGC 2 cut(s) 115, 258
BceAI ACGGC 1 cut(s) 600
BciT130I CCWGG 1 cut(s) 516
BcoDI GTCTC 1 cut(s) 602
BfaI CTAG 1 cut(s) 239
BfoI RGCGCY 1 cut(s) 121
BisI GCNGC 2 cut(s) 129, 272
BlsI GCNGC 2 cut(s) 130, 273
BmcAI AGTACT 1 cut(s) 313
Bme1390I CCNGG 1 cut(s) 516
BmeT110I CYCGRG 1 cut(s) 395
BmrFI CCNGG 1 cut(s) 516
BmsI GCATC 2 cut(s) 528, 550
Bpu14I TTCGAA 1 cut(s) 345
BpuEI CTTGAG 1 cut(s) 296
BsaHI GRCGYC 1 cut(s) 137
BsaJI CCNNGG 1 cut(s) 39
BsaWI WCCGGW 1 cut(s) 223
Bsc4I CCNNNNNNNGG 1 cut(s) 401
Bse21I CCTNAGG 1 cut(s) 82
Bse3DI GCAATG 1 cut(s) 540
BseBI CCWGG 1 cut(s) 516
BseDI CCNNGG 1 cut(s) 39
BseGI GGATG 3 cut(s) 31, 49, 224
BseLI CCNNNNNNNGG 1 cut(s) 401
BseMI GCAATG 1 cut(s) 540
BseMII CTCAG 1 cut(s) 96
BseRI GAGGAG 1 cut(s) 339
BseXI GCAGC 2 cut(s) 115, 258
Bsh1236I CGCG 2 cut(s) 178, 180
BsiHKCI CYCGRG 1 cut(s) 395
BsiSI CCGG 1 cut(s) 224
BslFI GGGAC 1 cut(s) 275
BslI CCNNNNNNNGG 1 cut(s) 401
BsmAI GTCTC 1 cut(s) 602
BsmFI GGGAC 1 cut(s) 275
BsoBI CYCGRG 1 cut(s) 395
Bsp119I TTCGAA 1 cut(s) 345
Bsp143I GATC 1 cut(s) 59
BspCNI CTCAG 1 cut(s) 95
BspFNI CGCG 2 cut(s) 178, 180
BspT104I TTCGAA 1 cut(s) 345
BsrDI GCAATG 1 cut(s) 540
BssECI CCNNGG 1 cut(s) 39
BssMI GATC 1 cut(s) 59
BssNI GRCGYC 1 cut(s) 137
BssT1I CCWWGG 1 cut(s) 39
Bst2UI CCWGG 1 cut(s) 516
Bst4CI ACNGT 1 cut(s) 236
Bst6I CTCTTC 2 cut(s) 148, 404
BstACI GRCGYC 1 cut(s) 137
BstBI TTCGAA 1 cut(s) 345
BstDEI CTNAG 2 cut(s) 71, 82
BstF5I GGATG 3 cut(s) 31, 49, 224
BstFNI CGCG 2 cut(s) 178, 180
BstH2I RGCGCY 1 cut(s) 121
BstHHI GCGC 3 cut(s) 120, 133, 180
BstKTI GATC 1 cut(s) 62
BstMAI GTCTC 1 cut(s) 602
BstMBI GATC 1 cut(s) 59
BstMWI GCNNNNNNNGC 2 cut(s) 479, 488
BstNI CCWGG 1 cut(s) 516
BstNSI RCATGY 1 cut(s) 597
BstSCI CCNGG 1 cut(s) 514
BstUI CGCG 2 cut(s) 178, 180
BstV1I GCAGC 2 cut(s) 115, 258
Bsu36I CCTNAGG 1 cut(s) 82
BtsCI GGATG 3 cut(s) 31, 49, 224
BtsIMutI CAGTG 1 cut(s) 600
CfoI GCGC 3 cut(s) 120, 133, 180
CseI GACGC 1 cut(s) 112
Csp6I GTAC 2 cut(s) 312, 512
CviAII CATG 2 cut(s) 112, 594
CviJI RGCY 9 cut(s) 38, 69, 87, 128, 342, 391, 473, 519, 587
CviKI_1 RGCY 9 cut(s) 38, 69, 87, 128, 342, 391, 473, 519, 587
CviQI GTAC 2 cut(s) 312, 512
DdeI CTNAG 2 cut(s) 71, 82
DpnI GATC 1 cut(s) 61
DpnII GATC 1 cut(s) 59
DraI TTTAAA 1 cut(s) 16
Eam1104I CTCTTC 2 cut(s) 148, 404
EarI CTCTTC 2 cut(s) 148, 404
Eco130I CCWWGG 1 cut(s) 39
Eco32I GATATC 1 cut(s) 607
Eco57I CTGAAG 2 cut(s) 129, 498
Eco81I CCTNAGG 1 cut(s) 82
Eco88I CYCGRG 1 cut(s) 395
EcoRII CCWGG 1 cut(s) 514
EcoRV GATATC 1 cut(s) 607
EcoT14I CCWWGG 1 cut(s) 39
EcoT22I ATGCAT 1 cut(s) 543
ErhI CCWWGG 1 cut(s) 39
FaeI CATG 2 cut(s) 115, 597
FaiI YATR 6 cut(s) 35, 113, 417, 530, 551, 595
FalI AAGNNNNNCTT 2 cut(s) 14, 46
FaqI GGGAC 1 cut(s) 275
FatI CATG 2 cut(s) 111, 593
Fnu4HI GCNGC 2 cut(s) 129, 272
FokI GGATG 3 cut(s) 38, 56, 231
Fsp4HI GCNGC 2 cut(s) 129, 272
FspBI CTAG 1 cut(s) 239
GlaI GCGC 3 cut(s) 119, 132, 179
GluI GCNGC 2 cut(s) 129, 272
HaeII RGCGCY 1 cut(s) 121
HapII CCGG 1 cut(s) 224
HgaI GACGC 1 cut(s) 112
HhaI GCGC 3 cut(s) 120, 133, 180
Hin1I GRCGYC 1 cut(s) 137
Hin1II CATG 2 cut(s) 115, 597
Hin6I GCGC 3 cut(s) 118, 131, 178
HinP1I GCGC 3 cut(s) 118, 131, 178
HincII GTYRAC 1 cut(s) 232
HindII GTYRAC 1 cut(s) 232
HpaII CCGG 1 cut(s) 224
HphI GGTGA 1 cut(s) 487
Hpy166II GTNNAC 1 cut(s) 232
Hpy188I TCNGA 2 cut(s) 56, 367
Hpy188III TCNNGA 2 cut(s) 476, 575
Hpy8I GTNNAC 1 cut(s) 232
Hpy99I CGWCG 2 cut(s) 106, 139
HpyAV CCTTC 4 cut(s) 16, 118, 242, 283
HpyCH4III ACNGT 1 cut(s) 236
HpyCH4IV ACGT 1 cut(s) 137
HpyCH4V TGCA 2 cut(s) 525, 541
HpyF10VI GCNNNNNNNGC 2 cut(s) 479, 488
HpyF3I CTNAG 2 cut(s) 71, 82
HpySE526I ACGT 1 cut(s) 137
Hsp92I GRCGYC 1 cut(s) 137
Hsp92II CATG 2 cut(s) 115, 597
HspAI GCGC 3 cut(s) 118, 131, 178
Kzo9I GATC 1 cut(s) 59
LmnI GCTCC 2 cut(s) 326, 478
LpnPI CCDG 7 cut(s) 69, 92, 237, 489, 501, 528, 575
Lsp1109I GCAGC 2 cut(s) 115, 258
LweI GCATC 2 cut(s) 528, 550
MaeI CTAG 1 cut(s) 239
MaeII ACGT 1 cut(s) 137
MaeIII GTNAC 1 cut(s) 493
MalI GATC 1 cut(s) 61
MboI GATC 1 cut(s) 59
MboII GAAGA 9 cut(s) 69, 135, 186, 189, 298, 327, 386, 421, 479
MluCI AATT 3 cut(s) 50, 305, 383
MmeI TCCRAC 1 cut(s) 386
MnlI CCTC 7 cut(s) 91, 108, 151, 167, 317, 373, 405
Mph1103I ATGCAT 1 cut(s) 543
MroXI GAANNNNTTC 1 cut(s) 444
MseI TTAA 4 cut(s) 15, 387, 434, 567
MspI CCGG 1 cut(s) 224
MspR9I CCNGG 1 cut(s) 516
MvaI CCWGG 1 cut(s) 516
MvnI CGCG 2 cut(s) 178, 180
MwoI GCNNNNNNNGC 2 cut(s) 479, 488
NdeII GATC 1 cut(s) 59
NlaIII CATG 2 cut(s) 115, 597
NmuCI GTSAC 1 cut(s) 493
NsiI ATGCAT 1 cut(s) 543
NspI RCATGY 1 cut(s) 597
NspV TTCGAA 1 cut(s) 345
PdmI GAANNNNTTC 1 cut(s) 444
PkrI GCNGC 2 cut(s) 130, 273
Psp6I CCWGG 1 cut(s) 514
PspGI CCWGG 1 cut(s) 514
RsaI GTAC 2 cut(s) 313, 513
RsaNI GTAC 2 cut(s) 312, 512
SaqAI TTAA 4 cut(s) 15, 387, 434, 567
SatI GCNGC 2 cut(s) 129, 272
Sau3AI GATC 1 cut(s) 59
ScaI AGTACT 1 cut(s) 313
ScrFI CCNGG 1 cut(s) 516
SetI ASST 9 cut(s) 140, 244, 253, 344, 393, 406, 416, 475, 517
SfaNI GCATC 2 cut(s) 528, 550
SfuI TTCGAA 1 cut(s) 345
SmlI CTYRAG 1 cut(s) 275
SmoI CTYRAG 1 cut(s) 275
Sse9I AATT 3 cut(s) 50, 305, 383
SspMI CTAG 1 cut(s) 239
StyD4I CCNGG 1 cut(s) 514
StyI CCWWGG 1 cut(s) 39
TaaI ACNGT 1 cut(s) 236
TaiI ACGT 1 cut(s) 140
TaqI TCGA 4 cut(s) 122, 284, 338, 345
TaqII GACCGA 1 cut(s) 24
TasI AATT 3 cut(s) 50, 305, 383
TatI WGTACW 1 cut(s) 311
Tru1I TTAA 4 cut(s) 15, 387, 434, 567
Tru9I TTAA 4 cut(s) 15, 387, 434, 567
TscAI CASTG 1 cut(s) 607
TseFI GTSAC 1 cut(s) 493
TseI GCWGC 2 cut(s) 128, 271
Tsp45I GTSAC 1 cut(s) 493
TspDTI ATGAA 1 cut(s) 480
TspRI CASTG 1 cut(s) 607
XapI RAATTY 2 cut(s) 50, 383
XceI RCATGY 1 cut(s) 597
XmnI GAANNNNTTC 1 cut(s) 444
XspI CTAG 1 cut(s) 239
ZraI GACGTC 1 cut(s) 138
ZrmI AGTACT 1 cut(s) 313
Zsp2I ATGCAT 1 cut(s) 543
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.