Rroxscaffold_2G00144890

High mobility group B protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0012733
Physical Location & Seq
Forward (+)
82787356 .. 82790078
2723 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00144890.1

Sequence Viewer

Length: 534 bp
ATGAAGACAATAGGTTCAACGAATAAACAGGCAGAGCAGTCATGTGTGAATGAAGTGCTTGGAGACCATCTTCCAGGTTTAGCCATGAAAGGTGGGAAATCCAGAGCCGCGGCTCCGAAACGGTCCGATACAAAGTTAAAGACCAAAAGCGCTGGGGCGAGCAAGCCAGCCAAGAAGGCTGGGAAAGATCCAAACAAGCCTAAGAGGCCTGCGAGTGCCTTCTTCGTTTTCATGGAGGAGTTCCGAGAGAAGTACAAGAAGGAACATCCCAACAACAAATCTGTCGCCGCTGTTGGTAAAGCTGGTGGTGAGAAATGGAAATCGTTGTCTGATGCTGAGAAAGCGCCCTACCAGGCCAAGGCAGAGAAGAGGAAGGTTGAATACAACAAGAACATGGACGTTTACAACAAGAAACAAGCTGAAGGAGACAATGGAGTTGAGGAAGAGGAGTCTGACAAGTCCAAGTCAGAAGTGAACGATGAGGATGAGGACGATGATGAGAGTGGTGGCGAGGATGAAGATGATGATGAGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03410 ko04140 ko04217 map03410 map04140 map04217
Pfam Domains
Protein Families
HMG_box

Protein Analysis

177

Amino Acids

19.43

Weight (kDa)

5.68

Isoelectric Point (pI)

46.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HMG_box_2 PF09011 64 - 136 9.3e-15 HMG-box domain
HMG_box PF00505 67 - 136 1.1e-23 HMG (high mobility group) box
HMG_WDHD1 PF24815 70 - 120 8.2e-11 WDHD1 HMG box
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: OG0012733)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G17560 AT2G17560 AT2G17560 AT4G35570 AT4G35570
fragaria_vesca FvH4_1g10340
malus_domestica MD02G1116500.v1.1 MD02G1116600.v1.1 MD15G1231500.v1.1 MD15G1231700.v1.1
prunus_persica Prupe.7G182700_v2.0.a1 Prupe.7G182800_v2.0.a1
pyrus_communis pycom02g09050
rosa_chinensis RchiOBHm_Chr2g0097191
rosa_multiflora Rmu_sc0001182.1_g000011
rosa_roxburghii Rroxscaffold_2G00144890
rosa_rugosa Rorug02G0065500
rosa_wichuraiana Rw2G008730

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 110
AciI CCGC 3 cut(s) 108, 110, 288
AclWI GGATC 1 cut(s) 182
AcuI CTGAAG 1 cut(s) 441
AfaI GTAC 1 cut(s) 254
AfeI AGCGCT 1 cut(s) 151
AfiI CCNNNNNNNGG 1 cut(s) 358
AgsI TTSAA 2 cut(s) 18, 380
AjnI CCWGG 2 cut(s) 73, 351
AluBI AGCT 2 cut(s) 302, 419
AluI AGCT 2 cut(s) 302, 419
Alw26I GTCTC 2 cut(s) 57, 420
AlwI GGATC 1 cut(s) 182
Aor51HI AGCGCT 1 cut(s) 151
AoxI GGCC 2 cut(s) 206, 354
AspLEI GCGC 2 cut(s) 152, 346
AspS9I GGNCC 1 cut(s) 123
AsuHPI GGTGA 1 cut(s) 320
AvaII GGWCC 1 cut(s) 123
BarI GAAGNNNNNNTAC 2 cut(s) 365, 397
BbsI GAAGAC 1 cut(s) 11
BccI CCATC 1 cut(s) 75
BciT130I CCWGG 2 cut(s) 75, 353
BcoDI GTCTC 2 cut(s) 57, 420
BfoI RGCGCY 2 cut(s) 153, 347
BglI GCCNNNNNGGC 2 cut(s) 176, 205
BisI GCNGC 3 cut(s) 108, 111, 288
BlsI GCNGC 3 cut(s) 109, 112, 289
Bme1390I CCNGG 2 cut(s) 75, 353
Bme18I GGWCC 1 cut(s) 123
BmgT120I GGNCC 1 cut(s) 123
BmiI GGNNCC 1 cut(s) 114
BmrFI CCNGG 2 cut(s) 75, 353
BmsI GCATC 1 cut(s) 322
BpiI GAAGAC 1 cut(s) 11
BsaI GGTCTC 1 cut(s) 57
BsaJI CCNNGG 2 cut(s) 108, 357
Bsc4I CCNNNNNNNGG 1 cut(s) 358
BseBI CCWGG 2 cut(s) 75, 353
BseDI CCNNGG 2 cut(s) 108, 357
BseGI GGATG 3 cut(s) 265, 490, 520
BseLI CCNNNNNNNGG 1 cut(s) 358
BseMII CTCAG 1 cut(s) 327
BseRI GAGGAG 2 cut(s) 251, 461
BseYI CCCAGC 2 cut(s) 152, 179
Bsh1236I CGCG 1 cut(s) 110
BshFI GGCC 2 cut(s) 208, 356
BslI CCNNNNNNNGG 1 cut(s) 358
BsmAI GTCTC 2 cut(s) 57, 420
BsnI GGCC 2 cut(s) 208, 356
Bso31I GGTCTC 1 cut(s) 57
Bsp143I GATC 1 cut(s) 187
BspACI CCGC 3 cut(s) 108, 110, 288
BspANI GGCC 2 cut(s) 208, 356
BspCNI CTCAG 1 cut(s) 328
BspFNI CGCG 1 cut(s) 110
BspLI GGNNCC 1 cut(s) 114
BspPI GGATC 1 cut(s) 182
BspTNI GGTCTC 1 cut(s) 57
BssECI CCNNGG 2 cut(s) 108, 357
BssMI GATC 1 cut(s) 187
BssT1I CCWWGG 1 cut(s) 357
Bst2UI CCWGG 2 cut(s) 75, 353
Bst4CI ACNGT 1 cut(s) 123
Bst6I CTCTTC 2 cut(s) 362, 438
BstC8I GCNNGC 4 cut(s) 160, 164, 168, 210
BstDEI CTNAG 2 cut(s) 201, 336
BstDSI CCRYGG 1 cut(s) 108
BstF5I GGATG 3 cut(s) 265, 490, 520
BstFNI CGCG 1 cut(s) 110
BstH2I RGCGCY 2 cut(s) 153, 347
BstHHI GCGC 2 cut(s) 152, 346
BstKTI GATC 1 cut(s) 190
BstMAI GTCTC 2 cut(s) 57, 420
BstMBI GATC 1 cut(s) 187
BstMWI GCNNNNNNNGC 3 cut(s) 176, 205, 341
BstNI CCWGG 2 cut(s) 75, 353
BstSCI CCNGG 2 cut(s) 73, 351
BstUI CGCG 1 cut(s) 110
BstV2I GAAGAC 1 cut(s) 11
BstX2I RGATCY 1 cut(s) 187
BstYI RGATCY 1 cut(s) 187
BsuRI GGCC 2 cut(s) 208, 356
BtgI CCRYGG 1 cut(s) 108
BtsCI GGATG 3 cut(s) 265, 490, 520
Cac8I GCNNGC 4 cut(s) 160, 164, 168, 210
CfoI GCGC 2 cut(s) 152, 346
Cfr13I GGNCC 1 cut(s) 123
Cfr42I CCGCGG 1 cut(s) 111
CpoI CGGWCCG 1 cut(s) 123
Csp6I GTAC 1 cut(s) 253
CspI CGGWCCG 1 cut(s) 123
CviAII CATG 4 cut(s) 42, 85, 232, 394
CviQI GTAC 1 cut(s) 253
DdeI CTNAG 2 cut(s) 201, 336
DpnI GATC 1 cut(s) 189
DpnII GATC 1 cut(s) 187
Eam1104I CTCTTC 2 cut(s) 362, 438
EarI CTCTTC 2 cut(s) 362, 438
Eco130I CCWWGG 1 cut(s) 357
Eco147I AGGCCT 1 cut(s) 208
Eco31I GGTCTC 1 cut(s) 57
Eco47I GGWCC 1 cut(s) 123
Eco47III AGCGCT 1 cut(s) 151
Eco57I CTGAAG 1 cut(s) 441
EcoRII CCWGG 2 cut(s) 73, 351
EcoT14I CCWWGG 1 cut(s) 357
ErhI CCWWGG 1 cut(s) 357
FaeI CATG 4 cut(s) 45, 88, 235, 397
FaiI YATR 4 cut(s) 43, 86, 233, 395
FatI CATG 4 cut(s) 41, 84, 231, 393
Fnu4HI GCNGC 3 cut(s) 108, 111, 288
FokI GGATG 3 cut(s) 252, 497, 527
Fsp4HI GCNGC 3 cut(s) 108, 111, 288
GlaI GCGC 2 cut(s) 151, 345
GluI GCNGC 3 cut(s) 108, 111, 288
GsaI CCCAGC 2 cut(s) 156, 183
HaeII RGCGCY 2 cut(s) 153, 347
HaeIII GGCC 2 cut(s) 208, 356
HhaI GCGC 2 cut(s) 152, 346
Hin1II CATG 4 cut(s) 45, 88, 235, 397
Hin6I GCGC 2 cut(s) 150, 344
HinP1I GCGC 2 cut(s) 150, 344
HinfI GANTC 1 cut(s) 449
HphI GGTGA 1 cut(s) 320
Hpy166II GTNNAC 2 cut(s) 403, 475
Hpy188I TCNGA 6 cut(s) 117, 127, 245, 331, 454, 469
Hpy188III TCNNGA 1 cut(s) 102
Hpy8I GTNNAC 2 cut(s) 403, 475
HpyAV CCTTC 5 cut(s) 169, 229, 253, 367, 416
HpyCH4III ACNGT 1 cut(s) 123
HpyCH4IV ACGT 1 cut(s) 399
HpyF10VI GCNNNNNNNGC 3 cut(s) 176, 205, 341
HpyF3I CTNAG 2 cut(s) 201, 336
HpySE526I ACGT 1 cut(s) 399
Hsp92II CATG 4 cut(s) 45, 88, 235, 397
HspAI GCGC 2 cut(s) 150, 344
KspI CCGCGG 1 cut(s) 111
Kzo9I GATC 1 cut(s) 187
LmnI GCTCC 1 cut(s) 118
LweI GCATC 1 cut(s) 322
MaeII ACGT 1 cut(s) 399
MalI GATC 1 cut(s) 189
MboI GATC 1 cut(s) 187
MboII GAAGA 6 cut(s) 16, 62, 214, 379, 455, 530
MflI RGATCY 1 cut(s) 187
MlyI GAGTC 1 cut(s) 458
MnlI CCTC 8 cut(s) 198, 229, 363, 433, 439, 475, 481, 505
MseI TTAA 1 cut(s) 137
MspA1I CMGCKG 2 cut(s) 110, 290
MspR9I CCNGG 2 cut(s) 75, 353
MvaI CCWGG 2 cut(s) 75, 353
MvnI CGCG 1 cut(s) 110
MwoI GCNNNNNNNGC 3 cut(s) 176, 205, 341
NdeII GATC 1 cut(s) 187
NlaIII CATG 4 cut(s) 45, 88, 235, 397
NlaIV GGNNCC 1 cut(s) 114
PceI AGGCCT 1 cut(s) 208
PkrI GCNGC 3 cut(s) 109, 112, 289
PleI GAGTC 1 cut(s) 457
PpsI GAGTC 1 cut(s) 457
Psp6I CCWGG 2 cut(s) 73, 351
PspFI CCCAGC 2 cut(s) 152, 179
PspGI CCWGG 2 cut(s) 73, 351
PspN4I GGNNCC 1 cut(s) 114
PspPI GGNCC 1 cut(s) 123
PsuI RGATCY 1 cut(s) 187
RsaI GTAC 1 cut(s) 254
RsaNI GTAC 1 cut(s) 253
Rsr2I CGGWCCG 1 cut(s) 123
RsrII CGGWCCG 1 cut(s) 123
SacII CCGCGG 1 cut(s) 111
SaqAI TTAA 1 cut(s) 137
SatI GCNGC 3 cut(s) 108, 111, 288
Sau3AI GATC 1 cut(s) 187
Sau96I GGNCC 1 cut(s) 123
SchI GAGTC 1 cut(s) 458
ScrFI CCNGG 2 cut(s) 75, 353
SetI ASST 7 cut(s) 16, 79, 94, 304, 378, 402, 421
SfaNI GCATC 1 cut(s) 322
Sfr303I CCGCGG 1 cut(s) 111
SgrBI CCGCGG 1 cut(s) 111
SinI GGWCC 1 cut(s) 123
SseBI AGGCCT 1 cut(s) 208
SsiI CCGC 3 cut(s) 108, 110, 288
StuI AGGCCT 1 cut(s) 208
StyD4I CCNGG 2 cut(s) 73, 351
StyI CCWWGG 1 cut(s) 357
TaaI ACNGT 1 cut(s) 123
TaiI ACGT 1 cut(s) 402
TatI WGTACW 1 cut(s) 252
TauI GCSGC 3 cut(s) 110, 113, 290
Tru1I TTAA 1 cut(s) 137
Tru9I TTAA 1 cut(s) 137
TspDTI ATGAA 5 cut(s) 17, 66, 101, 220, 531
VpaK11BI GGWCC 1 cut(s) 123
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.