Rroxscaffold_3G00256320

Transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0016840
Physical Location & Seq
Forward (+)
50678604 .. 50679970
1367 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00256320.1

Sequence Viewer

Length: 759 bp
ATGACAGTGAGCTGTTGCGGATCTCTCGTGTTCCCCTGTGTAGAACACAAAATCGGAGAGAATCATGTACACCCACTCCCACTCCCACTGAATCCTCCTTCTAATCAAAAGGAAGATCCTCATAATTATGATCGTCTCATGAGCTTTAGCCAGCCGAAGCGAAAAGCATCCATCACTTTTGGTGAGATAGATGATGATCAAAACCCAAAGGAGAGCAAGAAGGTCAAGAAGATCATGCACAGAGAAATAGAACGGCAACGAAGACAAGAAATGGCCACCCTTTATGCCACTCTACGATCTCATCTCCCTCTTGAATATCTCAAGGGAAAGAGGTCTATATCGGATCATGTGCACCAGGCCGCTAATTACATCAAACATATACAAAAGAATATCGAGGAGCTGCAAGAAAAGAGGGATGAATTGAAAAAACAATACAATATTTCAGGCTCTAGTACTGCAGTAGTGGAAAATTCGCAGTGTTCATCACTAATGGGGGATTCTGTCATATTGGTCAGACCAGCTTGTATAGGAGTGGAGGTAGCTGTGGATAGTCCATTGAAACAAGGGCTTCCTCTTTCAAGAGTGATTGACATACTGGTTGCAGAAGGACTTAGTATAGTGAGCTGCAACTCGGCCAAAAGAAATCAAAGGTTGCTTTATACCCTTGAATCTGAGGTGAGTGATGGGGGAAGCATTGATATACCTGAGCTCCAAAACAGATTGATAAAAAATTGTACTTCTGAGCCTGGCTTCAAATAA
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
HLH

Protein Analysis

252

Amino Acids

28.32

Weight (kDa)

8.11

Isoelectric Point (pI)

68.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 76 - 128 2.3e-11 Helix-loop-helix DNA-binding domain
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: OG0016840)

Species Orthologous Gene IDs
fragaria_vesca FvH4_5g01160
prunus_persica Prupe.5G086600_v2.0.a1
pyrus_communis pycom06g06790
rosa_chinensis RchiOBHm_Chr7g0199961
rosa_laevigata RLG00000003756
rosa_roxburghii Rroxscaffold_3G00256320 Rroxscaffold_7G00207590
rosa_rugosa Rorug07G0057400 Rorug07G0057500
rosa_samantha Rh7AG182700 Rh7BG185900 Rh7CG192500 Rh7DG185700
rosa_wichuraiana Rw7G016020

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 18, 360
AclWI GGATC 3 cut(s) 28, 110, 351
AcoI YGGCCR 2 cut(s) 273, 633
AcsI RAATTY 1 cut(s) 469
AfaI GTAC 3 cut(s) 69, 454, 736
AgsI TTSAA 6 cut(s) 314, 424, 559, 579, 668, 754
AjnI CCWGG 2 cut(s) 354, 745
AluBI AGCT 7 cut(s) 12, 144, 400, 521, 542, 624, 709
AluI AGCT 7 cut(s) 12, 144, 400, 521, 542, 624, 709
Alw21I GWGCWC 2 cut(s) 354, 711
Alw26I GTCTC 1 cut(s) 140
Alw44I GTGCAC 1 cut(s) 350
AlwI GGATC 3 cut(s) 28, 110, 351
AoxI GGCC 3 cut(s) 273, 357, 633
ApaLI GTGCAC 1 cut(s) 350
ApeKI GCWGC 2 cut(s) 400, 624
ApoI RAATTY 1 cut(s) 469
AsuHPI GGTGA 2 cut(s) 194, 688
BaeGI GKGCMC 1 cut(s) 354
BalI TGGCCA 1 cut(s) 275
BanII GRGCYC 1 cut(s) 711
BauI CACGAG 1 cut(s) 26
BbsI GAAGAC 1 cut(s) 268
Bbv12I GWGCWC 2 cut(s) 354, 711
BbvI GCAGC 2 cut(s) 387, 611
BccI CCATC 2 cut(s) 179, 677
BceAI ACGGC 1 cut(s) 269
BciT130I CCWGG 2 cut(s) 356, 747
BclI TGATCA 1 cut(s) 196
BcoDI GTCTC 1 cut(s) 140
BfaI CTAG 1 cut(s) 450
BfmI CTRYAG 1 cut(s) 456
BisI GCNGC 3 cut(s) 360, 401, 625
BlsI GCNGC 3 cut(s) 361, 402, 626
BmcAI AGTACT 1 cut(s) 454
Bme1390I CCNGG 2 cut(s) 356, 747
BmrFI CCNGG 2 cut(s) 356, 747
BmsI GCATC 1 cut(s) 176
BpiI GAAGAC 1 cut(s) 268
Bpu10I CCTNAGC 1 cut(s) 705
BpuEI CTTGAG 1 cut(s) 305
BsaBI GATNNNNATC 1 cut(s) 195
BsaXI ACNNNNNCTCC 8 cut(s) 60, 66, 90, 96, 522, 552, 693, 723
Bse1I ACTGG 1 cut(s) 600
Bse8I GATNNNNATC 1 cut(s) 195
BseBI CCWGG 2 cut(s) 356, 747
BseGI GGATG 2 cut(s) 167, 421
BseJI GATNNNNATC 1 cut(s) 195
BseMII CTCAG 3 cut(s) 663, 696, 732
BseNI ACTGG 1 cut(s) 600
BseRI GAGGAG 1 cut(s) 410
BseSI GKGCMC 1 cut(s) 354
BseXI GCAGC 2 cut(s) 387, 611
BshFI GGCC 3 cut(s) 275, 359, 635
BsiHKAI GWGCWC 2 cut(s) 354, 711
BsmAI GTCTC 1 cut(s) 140
BsmBI CGTCTC 1 cut(s) 140
BsnI GGCC 3 cut(s) 275, 359, 635
Bsp1286I GDGCHC 2 cut(s) 354, 711
Bsp1407I TGTACA 1 cut(s) 67
Bsp143I GATC 7 cut(s) 20, 115, 130, 196, 231, 296, 343
BspACI CCGC 2 cut(s) 18, 360
BspANI GGCC 3 cut(s) 275, 359, 635
BspCNI CTCAG 3 cut(s) 664, 697, 733
BspHI TCATGA 1 cut(s) 138
BspMAI CTGCAG 1 cut(s) 460
BspPI GGATC 3 cut(s) 28, 110, 351
BsrGI TGTACA 1 cut(s) 67
BsrI ACTGG 1 cut(s) 600
BssMI GATC 7 cut(s) 20, 115, 130, 196, 231, 296, 343
BssSI CACGAG 1 cut(s) 26
Bst2BI CACGAG 1 cut(s) 26
Bst2UI CCWGG 2 cut(s) 356, 747
Bst4CI ACNGT 1 cut(s) 7
BstAUI TGTACA 1 cut(s) 67
BstC8I GCNNGC 1 cut(s) 152
BstDEI CTNAG 4 cut(s) 611, 672, 705, 741
BstF5I GGATG 2 cut(s) 167, 421
BstKTI GATC 7 cut(s) 23, 118, 133, 199, 234, 299, 346
BstMAI GTCTC 1 cut(s) 140
BstMBI GATC 7 cut(s) 20, 115, 130, 196, 231, 296, 343
BstNI CCWGG 2 cut(s) 356, 747
BstSCI CCNGG 2 cut(s) 354, 745
BstSFI CTRYAG 1 cut(s) 456
BstSLI GKGCMC 1 cut(s) 354
BstV1I GCAGC 2 cut(s) 387, 611
BstV2I GAAGAC 1 cut(s) 268
BstX2I RGATCY 2 cut(s) 20, 115
BstYI RGATCY 2 cut(s) 20, 115
BsuRI GGCC 3 cut(s) 275, 359, 635
BtsCI GGATG 2 cut(s) 167, 421
BtsI GCAGTG 1 cut(s) 482
BtsIMutI CAGTG 3 cut(s) 12, 86, 482
Cac8I GCNNGC 1 cut(s) 152
CciI TCATGA 1 cut(s) 138
Csp6I GTAC 3 cut(s) 68, 453, 735
CviAII CATG 4 cut(s) 65, 139, 235, 347
CviQI GTAC 3 cut(s) 68, 453, 735
DdeI CTNAG 4 cut(s) 611, 672, 705, 741
DpnI GATC 7 cut(s) 22, 117, 132, 198, 233, 298, 345
DpnII GATC 7 cut(s) 20, 115, 130, 196, 231, 296, 343
EaeI YGGCCR 2 cut(s) 273, 633
Ecl136II GAGCTC 1 cut(s) 709
Eco24I GRGCYC 1 cut(s) 711
Eco53kI GAGCTC 1 cut(s) 709
EcoICRI GAGCTC 1 cut(s) 709
EcoRII CCWGG 2 cut(s) 354, 745
EcoT38I GRGCYC 1 cut(s) 711
Esp3I CGTCTC 1 cut(s) 140
FaeI CATG 4 cut(s) 68, 142, 238, 350
FatI CATG 4 cut(s) 64, 138, 234, 346
FbaI TGATCA 1 cut(s) 196
Fnu4HI GCNGC 3 cut(s) 360, 401, 625
FokI GGATG 2 cut(s) 154, 428
FriOI GRGCYC 1 cut(s) 711
Fsp4HI GCNGC 3 cut(s) 360, 401, 625
FspBI CTAG 1 cut(s) 450
GluI GCNGC 3 cut(s) 360, 401, 625
HaeIII GGCC 3 cut(s) 275, 359, 635
Hin1II CATG 4 cut(s) 68, 142, 238, 350
HinfI GANTC 4 cut(s) 61, 91, 497, 668
HphI GGTGA 2 cut(s) 194, 688
Hpy166II GTNNAC 2 cut(s) 70, 352
Hpy188I TCNGA 5 cut(s) 56, 343, 515, 673, 742
Hpy188III TCNNGA 4 cut(s) 139, 226, 311, 579
Hpy8I GTNNAC 2 cut(s) 70, 352
HpyAV CCTTC 3 cut(s) 108, 214, 599
HpyCH4III ACNGT 1 cut(s) 7
HpyCH4V TGCA 6 cut(s) 238, 352, 403, 458, 602, 627
HpyF3I CTNAG 4 cut(s) 611, 672, 705, 741
Hsp92II CATG 4 cut(s) 68, 142, 238, 350
Ksp22I TGATCA 1 cut(s) 196
Kzo9I GATC 7 cut(s) 20, 115, 130, 196, 231, 296, 343
LmnI GCTCC 2 cut(s) 397, 714
LpnPI CCDG 9 cut(s) 49, 164, 341, 368, 429, 531, 581, 717, 732
Lsp1109I GCAGC 2 cut(s) 387, 611
LweI GCATC 1 cut(s) 176
MaeI CTAG 1 cut(s) 450
MalI GATC 7 cut(s) 22, 117, 132, 198, 233, 298, 345
MboI GATC 7 cut(s) 20, 115, 130, 196, 231, 296, 343
MboII GAAGA 3 cut(s) 125, 241, 273
MflI RGATCY 2 cut(s) 20, 115
MhlI GDGCHC 2 cut(s) 354, 711
MlsI TGGCCA 1 cut(s) 275
MluCI AATT 5 cut(s) 124, 364, 419, 469, 730
MluNI TGGCCA 1 cut(s) 275
MnlI CCTC 9 cut(s) 105, 129, 318, 324, 388, 405, 529, 582, 667
Mox20I TGGCCA 1 cut(s) 275
MscI TGGCCA 1 cut(s) 275
MslI CAYNNNNRTG 1 cut(s) 126
Msp20I TGGCCA 1 cut(s) 275
MspR9I CCNGG 2 cut(s) 356, 747
MvaI CCWGG 2 cut(s) 356, 747
NdeII GATC 7 cut(s) 20, 115, 130, 196, 231, 296, 343
NlaIII CATG 4 cut(s) 68, 142, 238, 350
NmeAIII GCCGAG 1 cut(s) 611
PagI TCATGA 1 cut(s) 138
PfeI GAWTC 4 cut(s) 61, 91, 497, 668
PkrI GCNGC 3 cut(s) 361, 402, 626
Psp124BI GAGCTC 1 cut(s) 711
Psp6I CCWGG 2 cut(s) 354, 745
PspGI CCWGG 2 cut(s) 354, 745
PstI CTGCAG 1 cut(s) 460
PsuI RGATCY 2 cut(s) 20, 115
RsaI GTAC 3 cut(s) 69, 454, 736
RsaNI GTAC 3 cut(s) 68, 453, 735
RseI CAYNNNNRTG 1 cut(s) 126
SacI GAGCTC 1 cut(s) 711
SatI GCNGC 3 cut(s) 360, 401, 625
Sau3AI GATC 7 cut(s) 20, 115, 130, 196, 231, 296, 343
ScaI AGTACT 1 cut(s) 454
ScrFI CCNGG 2 cut(s) 356, 747
SduI GDGCHC 2 cut(s) 354, 711
SfaNI GCATC 1 cut(s) 176
SfcI CTRYAG 1 cut(s) 456
SmiMI CAYNNNNRTG 1 cut(s) 126
SmlI CTYRAG 1 cut(s) 320
SmoI CTYRAG 1 cut(s) 320
Sse9I AATT 5 cut(s) 124, 364, 419, 469, 730
SsiI CCGC 2 cut(s) 18, 360
SspI AATATT 1 cut(s) 439
SspMI CTAG 1 cut(s) 450
SstI GAGCTC 1 cut(s) 711
StyD4I CCNGG 2 cut(s) 354, 745
TaaI ACNGT 1 cut(s) 7
TaqI TCGA 1 cut(s) 393
TasI AATT 5 cut(s) 124, 364, 419, 469, 730
TatI WGTACW 3 cut(s) 67, 452, 734
TauI GCSGC 1 cut(s) 362
TfiI GAWTC 4 cut(s) 61, 91, 497, 668
TscAI CASTG 3 cut(s) 12, 93, 482
TseI GCWGC 2 cut(s) 400, 624
TspDTI ATGAA 2 cut(s) 432, 471
TspRI CASTG 3 cut(s) 12, 93, 482
VneI GTGCAC 1 cut(s) 350
XapI RAATTY 1 cut(s) 469
XspI CTAG 1 cut(s) 450
ZrmI AGTACT 1 cut(s) 454
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.