Rroxscaffold_5G00336420

Transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0012075
Physical Location & Seq
Forward (+)
4223456 .. 4225346
1891 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00336420.1

Sequence Viewer

Length: 702 bp
ATGGACCGGTTTATTTTGGAGGCGTTGGAGGGTGATTTCTTATGGTATAATAATCCTCCAGTACTGAATCCAAGCGCCTTTGTGCCTTACACTGAAGCTCCTGAGTCAGGCGAGCCTACTAATTCTGGGTCTAATTCCATGAACATGAACAAGAGGATGGTGCGGTTCTTGAAGAAGAGTTATCCACCTTCGACGGCTAGGATCAAAATCGGAGAGGAGGAGCACGGCAATGACAAGGGTTTTCGCCACATGATCAATGAGCGAATGAGAAGGGAGAAGCAGAAGCAGAGCTATTTTGCCTTGCATTCTTTGCTGCCTAATGGAACCAAGAGTGATAAGAATTGGATTGTGCAAACGGCGACCACTAACATTCAGCAGCTGGAGAGGCATAAGGAGGAGCTGAGAAAGCGGAACATGGAGCTCGAATCGATTTTGGGCAAGGAGAGACCAGTGAAGTGGAGAAGGATTAGATTGAGGGTGGCCAATCCTACTTCAGGAGTTGATTCTATGCTGGAGGTTCTTAAGTGCTTGAAAAGTTTGGGATTAAAGACCAGAAATATTCAATCATTTTTCTCTCCGTATGAGTTTTCTGCAGAAGTGGAAATTGAATTCAAGATCGAAGCCACAGTTGTAGAAGCCGCAACGCAAGAAACACTATATGAAGTTGAGAGGAAACTTCTTTCTTCATTTCCAGGAAGGTAA

Protein Analysis

233

Amino Acids

27.04

Weight (kDa)

9.34

Isoelectric Point (pI)

51.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 82 - 128 5.1e-06 Helix-loop-helix DNA-binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0012075)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G43650 AT5G43650
fragaria_vesca FvH4_4g02610 FvH4_4g02610
malus_domestica MD13G1206900.v1.1 MD16G1208400.v1.1
prunus_persica Prupe.1G030500_v2.0.a1
pyrus_communis pycom13g17920 pycom16g17560
rosa_chinensis RchiOBHm_Chr4g0390311
rosa_laevigata RLG00000009925
rosa_multiflora Rmu_sc0010889.1_g000004
rosa_roxburghii Rroxscaffold_5G00336420
rosa_rugosa Rorug03G0330100
rosa_samantha Rh4AG031600 Rh4BG025600 Rh4CG034700 Rh4DG026700
rosa_wichuraiana Rw4G002510

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 3 cut(s) 163, 409, 639
AclWI GGATC 1 cut(s) 209
AcoI YGGCCR 1 cut(s) 480
AcsI RAATTY 1 cut(s) 608
AcuI CTGAAG 2 cut(s) 114, 477
AfaI GTAC 1 cut(s) 63
AfiI CCNNNNNNNGG 2 cut(s) 107, 494
AflII CTTAAG 1 cut(s) 521
AgeI ACCGGT 1 cut(s) 6
AgsI TTSAA 5 cut(s) 172, 532, 563, 608, 613
AjnI CCWGG 1 cut(s) 691
AluBI AGCT 5 cut(s) 98, 291, 379, 400, 421
AluI AGCT 5 cut(s) 98, 291, 379, 400, 421
Alw21I GWGCWC 2 cut(s) 225, 423
Alw26I GTCTC 1 cut(s) 439
AlwI GGATC 1 cut(s) 209
AlwNI CAGNNNCTG 1 cut(s) 379
AoxI GGCC 1 cut(s) 480
ApeKI GCWGC 2 cut(s) 313, 376
ApoI RAATTY 1 cut(s) 608
AsiGI ACCGGT 1 cut(s) 6
AspLEI GCGC 1 cut(s) 77
AspS9I GGNCC 1 cut(s) 4
AsuHPI GGTGA 1 cut(s) 44
AvaII GGWCC 1 cut(s) 4
BalI TGGCCA 1 cut(s) 482
BanII GRGCYC 1 cut(s) 423
Bbv12I GWGCWC 2 cut(s) 225, 423
BbvI GCAGC 2 cut(s) 300, 388
BccI CCATC 1 cut(s) 151
BceAI ACGGC 3 cut(s) 210, 241, 372
BciT130I CCWGG 1 cut(s) 693
BclI TGATCA 1 cut(s) 252
BcoDI GTCTC 1 cut(s) 439
BfaI CTAG 1 cut(s) 198
BfmI CTRYAG 1 cut(s) 591
BfoI RGCGCY 1 cut(s) 78
BfrI CTTAAG 1 cut(s) 521
BisI GCNGC 3 cut(s) 314, 377, 639
BlsI GCNGC 3 cut(s) 315, 378, 640
BmcAI AGTACT 1 cut(s) 63
Bme1390I CCNGG 1 cut(s) 693
Bme18I GGWCC 1 cut(s) 4
BmgT120I GGNCC 1 cut(s) 4
BmiI GGNNCC 1 cut(s) 325
BmrFI CCNGG 1 cut(s) 693
BpmI CTGGAG 3 cut(s) 42, 401, 533
Bsa29I ATCGAT 1 cut(s) 428
BsaBI GATNNNNATC 1 cut(s) 206
BsaI GGTCTC 1 cut(s) 439
BsaWI WCCGGW 1 cut(s) 6
BsaXI ACNNNNNCTCC 2 cut(s) 82, 112
Bsc4I CCNNNNNNNGG 2 cut(s) 107, 494
Bse118I RCCGGY 1 cut(s) 6
Bse1I ACTGG 2 cut(s) 59, 449
Bse3DI GCAATG 1 cut(s) 235
Bse8I GATNNNNATC 1 cut(s) 206
BseBI CCWGG 1 cut(s) 693
BseCI ATCGAT 1 cut(s) 428
BseGI GGATG 1 cut(s) 162
BseJI GATNNNNATC 1 cut(s) 206
BseLI CCNNNNNNNGG 2 cut(s) 107, 494
BseMI GCAATG 1 cut(s) 235
BseMII CTCAG 2 cut(s) 93, 392
BseNI ACTGG 2 cut(s) 59, 449
BseRI GAGGAG 3 cut(s) 230, 233, 410
BseXI GCAGC 2 cut(s) 300, 388
BshFI GGCC 1 cut(s) 482
BshTI ACCGGT 1 cut(s) 6
BshVI ATCGAT 1 cut(s) 428
BsiHKAI GWGCWC 2 cut(s) 225, 423
BsiSI CCGG 1 cut(s) 7
BslI CCNNNNNNNGG 2 cut(s) 107, 494
BsmAI GTCTC 1 cut(s) 439
BsmI GAATGC 1 cut(s) 304
BsnI GGCC 1 cut(s) 482
Bso31I GGTCTC 1 cut(s) 439
Bsp1286I GDGCHC 2 cut(s) 225, 423
Bsp143I GATC 3 cut(s) 201, 252, 615
BspACI CCGC 3 cut(s) 163, 409, 639
BspANI GGCC 1 cut(s) 482
BspCNI CTCAG 2 cut(s) 94, 393
BspDI ATCGAT 1 cut(s) 428
BspLI GGNNCC 1 cut(s) 325
BspMAI CTGCAG 1 cut(s) 595
BspPI GGATC 1 cut(s) 209
BspTI CTTAAG 1 cut(s) 521
BspTNI GGTCTC 1 cut(s) 439
BsrDI GCAATG 1 cut(s) 235
BsrFI RCCGGY 1 cut(s) 6
BsrI ACTGG 2 cut(s) 59, 449
BssAI RCCGGY 1 cut(s) 6
BssMI GATC 3 cut(s) 201, 252, 615
Bst2UI CCWGG 1 cut(s) 693
Bst4CI ACNGT 1 cut(s) 628
Bst6I CTCTTC 1 cut(s) 170
BstAFI CTTAAG 1 cut(s) 521
BstAPI GCANNNNNTGC 1 cut(s) 310
BstC8I GCNNGC 1 cut(s) 113
BstDEI CTNAG 2 cut(s) 102, 401
BstENI CCTNNNNNAGG 2 cut(s) 105, 492
BstF5I GGATG 1 cut(s) 162
BstH2I RGCGCY 1 cut(s) 78
BstHHI GCGC 1 cut(s) 77
BstKTI GATC 3 cut(s) 204, 255, 618
BstMAI GTCTC 1 cut(s) 439
BstMBI GATC 3 cut(s) 201, 252, 615
BstMWI GCNNNNNNNGC 3 cut(s) 310, 385, 406
BstNI CCWGG 1 cut(s) 693
BstSCI CCNGG 1 cut(s) 691
BstSFI CTRYAG 1 cut(s) 591
BstV1I GCAGC 2 cut(s) 300, 388
BstXI CCANNNNNNTGG 1 cut(s) 456
Bsu15I ATCGAT 1 cut(s) 428
BsuRI GGCC 1 cut(s) 482
BsuTUI ATCGAT 1 cut(s) 428
BtsCI GGATG 1 cut(s) 162
BtsIMutI CAGTG 2 cut(s) 90, 456
Cac8I GCNNGC 1 cut(s) 113
CaiI CAGNNNCTG 1 cut(s) 379
CfoI GCGC 1 cut(s) 77
Cfr10I RCCGGY 1 cut(s) 6
Cfr13I GGNCC 1 cut(s) 4
ClaI ATCGAT 1 cut(s) 428
Csp6I GTAC 1 cut(s) 62
CspAI ACCGGT 1 cut(s) 6
CviAII CATG 4 cut(s) 139, 145, 250, 415
CviQI GTAC 1 cut(s) 62
DdeI CTNAG 2 cut(s) 102, 401
DpnI GATC 3 cut(s) 203, 254, 617
DpnII GATC 3 cut(s) 201, 252, 615
EaeI YGGCCR 1 cut(s) 480
Eam1104I CTCTTC 1 cut(s) 170
EarI CTCTTC 1 cut(s) 170
Ecl136II GAGCTC 1 cut(s) 421
Eco24I GRGCYC 1 cut(s) 423
Eco31I GGTCTC 1 cut(s) 439
Eco47I GGWCC 1 cut(s) 4
Eco53kI GAGCTC 1 cut(s) 421
Eco57I CTGAAG 2 cut(s) 114, 477
EcoICRI GAGCTC 1 cut(s) 421
EcoNI CCTNNNNNAGG 2 cut(s) 105, 492
EcoRI GAATTC 1 cut(s) 608
EcoRII CCWGG 1 cut(s) 691
EcoT38I GRGCYC 1 cut(s) 423
FaeI CATG 4 cut(s) 142, 148, 253, 418
FatI CATG 4 cut(s) 138, 144, 249, 414
FbaI TGATCA 1 cut(s) 252
Fnu4HI GCNGC 3 cut(s) 314, 377, 639
FokI GGATG 1 cut(s) 169
FriOI GRGCYC 1 cut(s) 423
Fsp4HI GCNGC 3 cut(s) 314, 377, 639
FspBI CTAG 1 cut(s) 198
GlaI GCGC 1 cut(s) 76
GluI GCNGC 3 cut(s) 314, 377, 639
GsuI CTGGAG 3 cut(s) 42, 401, 533
HaeII RGCGCY 1 cut(s) 78
HaeIII GGCC 1 cut(s) 482
HapII CCGG 1 cut(s) 7
HhaI GCGC 1 cut(s) 77
Hin1II CATG 4 cut(s) 142, 148, 253, 418
Hin6I GCGC 1 cut(s) 75
HinP1I GCGC 1 cut(s) 75
HinfI GANTC 4 cut(s) 67, 104, 425, 503
HpaII CCGG 1 cut(s) 7
HphI GGTGA 1 cut(s) 44
Hpy188I TCNGA 1 cut(s) 212
Hpy188III TCNNGA 4 cut(s) 101, 169, 495, 613
Hpy99I CGWCG 1 cut(s) 196
HpyAV CCTTC 4 cut(s) 198, 264, 456, 690
HpyCH4III ACNGT 1 cut(s) 628
HpyCH4V TGCA 3 cut(s) 304, 352, 593
HpyF10VI GCNNNNNNNGC 3 cut(s) 310, 385, 406
HpyF3I CTNAG 2 cut(s) 102, 401
Hsp92II CATG 4 cut(s) 142, 148, 253, 418
HspAI GCGC 1 cut(s) 75
Ksp22I TGATCA 1 cut(s) 252
Kzo9I GATC 3 cut(s) 201, 252, 615
LmnI GCTCC 4 cut(s) 103, 220, 397, 418
Lsp1109I GCAGC 2 cut(s) 300, 388
MaeI CTAG 1 cut(s) 198
MalI GATC 3 cut(s) 203, 254, 617
MboI GATC 3 cut(s) 201, 252, 615
MboII GAAGA 3 cut(s) 184, 187, 675
MhlI GDGCHC 2 cut(s) 225, 423
MlsI TGGCCA 1 cut(s) 482
MluCI AATT 5 cut(s) 121, 133, 340, 603, 608
MluNI TGGCCA 1 cut(s) 482
MlyI GAGTC 1 cut(s) 113
MmeI TCCRAC 1 cut(s) 6
Mox20I TGGCCA 1 cut(s) 482
MscI TGGCCA 1 cut(s) 482
MseI TTAA 2 cut(s) 522, 545
MslI CAYNNNNRTG 2 cut(s) 143, 228
Msp20I TGGCCA 1 cut(s) 482
MspA1I CMGCKG 1 cut(s) 379
MspCI CTTAAG 1 cut(s) 521
MspI CCGG 1 cut(s) 7
MspR9I CCNGG 1 cut(s) 693
Mva1269I GAATGC 1 cut(s) 304
MvaI CCWGG 1 cut(s) 693
MwoI GCNNNNNNNGC 3 cut(s) 310, 385, 406
NdeII GATC 3 cut(s) 201, 252, 615
NlaIII CATG 4 cut(s) 142, 148, 253, 418
NlaIV GGNNCC 1 cut(s) 325
PctI GAATGC 1 cut(s) 304
PfeI GAWTC 3 cut(s) 67, 425, 503
PfoI TCCNGGA 1 cut(s) 691
PinAI ACCGGT 1 cut(s) 6
PkrI GCNGC 3 cut(s) 315, 378, 640
PleI GAGTC 1 cut(s) 112
PpsI GAGTC 1 cut(s) 112
Psp124BI GAGCTC 1 cut(s) 423
Psp6I CCWGG 1 cut(s) 691
PspGI CCWGG 1 cut(s) 691
PspN4I GGNNCC 1 cut(s) 325
PspPI GGNCC 1 cut(s) 4
PstI CTGCAG 1 cut(s) 595
PstNI CAGNNNCTG 1 cut(s) 379
PvuII CAGCTG 1 cut(s) 379
RsaI GTAC 1 cut(s) 63
RsaNI GTAC 1 cut(s) 62
RseI CAYNNNNRTG 2 cut(s) 143, 228
SacI GAGCTC 1 cut(s) 423
SaqAI TTAA 2 cut(s) 522, 545
SatI GCNGC 3 cut(s) 314, 377, 639
Sau3AI GATC 3 cut(s) 201, 252, 615
Sau96I GGNCC 1 cut(s) 4
ScaI AGTACT 1 cut(s) 63
SchI GAGTC 1 cut(s) 113
ScrFI CCNGG 1 cut(s) 693
SduI GDGCHC 2 cut(s) 225, 423
SetI ASST 8 cut(s) 100, 190, 293, 381, 402, 423, 519, 701
SfcI CTRYAG 1 cut(s) 591
SinI GGWCC 1 cut(s) 4
SmiMI CAYNNNNRTG 2 cut(s) 143, 228
SmlI CTYRAG 1 cut(s) 521
SmoI CTYRAG 1 cut(s) 521
Sse9I AATT 5 cut(s) 121, 133, 340, 603, 608
SsiI CCGC 3 cut(s) 163, 409, 639
SspI AATATT 1 cut(s) 559
SspMI CTAG 1 cut(s) 198
SstI GAGCTC 1 cut(s) 423
StyD4I CCNGG 1 cut(s) 691
TaaI ACNGT 1 cut(s) 628
TaqI TCGA 4 cut(s) 191, 423, 428, 618
TasI AATT 5 cut(s) 121, 133, 340, 603, 608
TatI WGTACW 1 cut(s) 61
TauI GCSGC 1 cut(s) 641
TfiI GAWTC 3 cut(s) 67, 425, 503
Tru1I TTAA 2 cut(s) 522, 545
Tru9I TTAA 2 cut(s) 522, 545
TscAI CASTG 2 cut(s) 97, 456
TseI GCWGC 2 cut(s) 313, 376
TspDTI ATGAA 4 cut(s) 155, 161, 675, 675
TspGWI ACGGA 1 cut(s) 567
TspRI CASTG 2 cut(s) 97, 456
Vha464I CTTAAG 1 cut(s) 521
VpaK11BI GGWCC 1 cut(s) 4
XagI CCTNNNNNAGG 2 cut(s) 105, 492
XapI RAATTY 1 cut(s) 608
XspI CTAG 1 cut(s) 198
ZrmI AGTACT 1 cut(s) 63
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.