Rh4AG031600

Transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4A
OG0012075
Physical Location & Seq
Forward (+)
6823066 .. 6825153
2088 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4AG031600.1

Sequence Viewer

Length: 726 bp
ATGGACCGGTTTATTTTGGCGGCATTGGAGGGTGATTCCTTATGGTATGAAAATCCTCCAGTACTGAATCCAAGCGCCTTTGTGCCTTACACTGAAGCTCCTGAGTCAGGCAAGCCTACTAATTCTGGGTCTAATTCCATGAACATGAACAAGAGGATGGTGCGGTTCTTGAGGAAGAGTTATCCACCTTCGACGGCTAGGATCGAAATCGGAGAGAAGGAGCACGGCAAGGACAAGGGTTTTCGCCACATGATCAATGAGCGAATGAGGAGGGAGCAGCAGAAGCAGAGCTATTTTGCCTTGCATTCTTTGCTGCCTAATGGAACTAAGAGTGATAAGAATTGGATTGTGCAAACGGCGACCACGAACATTCAGCAGCTGGAGAGGCATAAGGAGGAGCTGAGAAAGCGGAACATGGAGCTCGAATCGATTTTGGGCAAGGAGAGATCAGTGAAGTGGAGAATGATTAGATTGAGGGTAGCCAATCCTACTTCAGGAGTTGATTCTATGCTGGAGGTTCTTAAGTGCTTGAAAAGTTTGGGATTAAAGACCAGAAATATTCAATCATTTTTCTCTCCGTATGAGTTTTCTGCAGAAGTGGAAATTGAATCTAAGGTCTCATCTCTTTCTCCCTCCACACACATACGCACAAGCATAACCCATTTATATAGTAGCTTAATTCACACTTTCTGTTTTTGTTATTTTCTTGGTTCTTGTTCTTTGTAG

Protein Analysis

241

Amino Acids

27.76

Weight (kDa)

9.51

Isoelectric Point (pI)

56.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 82 - 128 5.5e-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
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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) 20, 163, 409
AclWI GGATC 1 cut(s) 209
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 3 cut(s) 532, 563, 608
AluBI AGCT 6 cut(s) 98, 291, 379, 400, 421, 675
AluI AGCT 6 cut(s) 98, 291, 379, 400, 421, 675
Alw21I GWGCWC 2 cut(s) 225, 423
Alw26I GTCTC 1 cut(s) 622
AlwI GGATC 1 cut(s) 209
AlwNI CAGNNNCTG 1 cut(s) 379
ApeKI GCWGC 3 cut(s) 277, 313, 376
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
BanII GRGCYC 1 cut(s) 423
Bbv12I GWGCWC 2 cut(s) 225, 423
BbvI GCAGC 3 cut(s) 289, 300, 388
BccI CCATC 1 cut(s) 151
BceAI ACGGC 3 cut(s) 210, 241, 372
BclI TGATCA 1 cut(s) 252
BcoDI GTCTC 1 cut(s) 622
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 4 cut(s) 21, 278, 314, 377
BlsI GCNGC 4 cut(s) 22, 279, 315, 378
BmcAI AGTACT 1 cut(s) 63
Bme18I GGWCC 1 cut(s) 4
BmgT120I GGNCC 1 cut(s) 4
BpmI CTGGAG 3 cut(s) 42, 401, 533
BpuEI CTTGAG 1 cut(s) 190
Bsa29I ATCGAT 1 cut(s) 428
BsaBI GATNNNNATC 1 cut(s) 206
BsaI GGTCTC 1 cut(s) 622
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 1 cut(s) 59
Bse8I GATNNNNATC 1 cut(s) 206
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
BseMII CTCAG 2 cut(s) 93, 392
BseNI ACTGG 1 cut(s) 59
BseRI GAGGAG 2 cut(s) 283, 410
BseXI GCAGC 3 cut(s) 289, 300, 388
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) 622
BsmI GAATGC 1 cut(s) 304
Bso31I GGTCTC 1 cut(s) 622
Bsp1286I GDGCHC 2 cut(s) 225, 423
Bsp143I GATC 3 cut(s) 201, 252, 446
BspACI CCGC 3 cut(s) 20, 163, 409
BspCNI CTCAG 2 cut(s) 94, 393
BspDI ATCGAT 1 cut(s) 428
BspMAI CTGCAG 1 cut(s) 595
BspPI GGATC 1 cut(s) 209
BspTI CTTAAG 1 cut(s) 521
BspTNI GGTCTC 1 cut(s) 622
BsrFI RCCGGY 1 cut(s) 6
BsrI ACTGG 1 cut(s) 59
BssAI RCCGGY 1 cut(s) 6
BssMI GATC 3 cut(s) 201, 252, 446
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 4 cut(s) 102, 327, 401, 612
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, 449
BstMAI GTCTC 1 cut(s) 622
BstMBI GATC 3 cut(s) 201, 252, 446
BstMWI GCNNNNNNNGC 4 cut(s) 283, 310, 385, 406
BstSFI CTRYAG 1 cut(s) 591
BstV1I GCAGC 3 cut(s) 289, 300, 388
Bsu15I ATCGAT 1 cut(s) 428
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
CviJI RGCY 9 cut(s) 98, 115, 197, 291, 379, 400, 421, 482, 675
CviKI_1 RGCY 9 cut(s) 98, 115, 197, 291, 379, 400, 421, 482, 675
CviQI GTAC 1 cut(s) 62
DdeI CTNAG 4 cut(s) 102, 327, 401, 612
DpnI GATC 3 cut(s) 203, 254, 448
DpnII GATC 3 cut(s) 201, 252, 446
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) 622
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
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 4 cut(s) 21, 278, 314, 377
FokI GGATG 1 cut(s) 169
FriOI GRGCYC 1 cut(s) 423
Fsp4HI GCNGC 4 cut(s) 21, 278, 314, 377
FspBI CTAG 1 cut(s) 198
GlaI GCGC 1 cut(s) 76
GluI GCNGC 4 cut(s) 21, 278, 314, 377
GsuI CTGGAG 3 cut(s) 42, 401, 533
HaeII RGCGCY 1 cut(s) 78
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 6 cut(s) 35, 67, 104, 425, 503, 608
HpaII CCGG 1 cut(s) 7
HphI GGTGA 1 cut(s) 44
Hpy188I TCNGA 1 cut(s) 212
Hpy188III TCNNGA 3 cut(s) 101, 169, 495
Hpy99I CGWCG 1 cut(s) 196
HpyAV CCTTC 2 cut(s) 198, 211
HpyCH4V TGCA 3 cut(s) 304, 352, 593
HpyF10VI GCNNNNNNNGC 4 cut(s) 283, 310, 385, 406
HpyF3I CTNAG 4 cut(s) 102, 327, 401, 612
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, 446
LmnI GCTCC 5 cut(s) 103, 220, 274, 397, 418
LpnPI CCDG 9 cut(s) 20, 72, 93, 111, 114, 365, 480, 497, 565
Lsp1109I GCAGC 3 cut(s) 289, 300, 388
MaeI CTAG 1 cut(s) 198
MalI GATC 3 cut(s) 203, 254, 448
MboI GATC 3 cut(s) 201, 252, 446
MboII GAAGA 1 cut(s) 187
MhlI GDGCHC 2 cut(s) 225, 423
MluCI AATT 5 cut(s) 121, 133, 340, 603, 678
MlyI GAGTC 1 cut(s) 113
MseI TTAA 3 cut(s) 522, 545, 677
MslI CAYNNNNRTG 1 cut(s) 143
MspA1I CMGCKG 1 cut(s) 379
MspCI CTTAAG 1 cut(s) 521
MspI CCGG 1 cut(s) 7
Mva1269I GAATGC 1 cut(s) 304
MwoI GCNNNNNNNGC 4 cut(s) 283, 310, 385, 406
NdeII GATC 3 cut(s) 201, 252, 446
NlaIII CATG 4 cut(s) 142, 148, 253, 418
PcsI WCGNNNNNNNCGW 1 cut(s) 362
PctI GAATGC 1 cut(s) 304
PfeI GAWTC 5 cut(s) 35, 67, 425, 503, 608
PinAI ACCGGT 1 cut(s) 6
PkrI GCNGC 4 cut(s) 22, 279, 315, 378
PleI GAGTC 1 cut(s) 112
PpsI GAGTC 1 cut(s) 112
Psp124BI GAGCTC 1 cut(s) 423
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 1 cut(s) 143
SacI GAGCTC 1 cut(s) 423
SaqAI TTAA 3 cut(s) 522, 545, 677
SatI GCNGC 4 cut(s) 21, 278, 314, 377
Sau3AI GATC 3 cut(s) 201, 252, 446
Sau96I GGNCC 1 cut(s) 4
ScaI AGTACT 1 cut(s) 63
SchI GAGTC 1 cut(s) 113
SduI GDGCHC 2 cut(s) 225, 423
SetI ASST 9 cut(s) 100, 190, 293, 381, 402, 423, 519, 618, 677
SfcI CTRYAG 1 cut(s) 591
SinI GGWCC 1 cut(s) 4
SmiMI CAYNNNNRTG 1 cut(s) 143
SmlI CTYRAG 2 cut(s) 169, 521
SmoI CTYRAG 2 cut(s) 169, 521
Sse9I AATT 5 cut(s) 121, 133, 340, 603, 678
SsiI CCGC 3 cut(s) 20, 163, 409
SspI AATATT 1 cut(s) 559
SspMI CTAG 1 cut(s) 198
SstI GAGCTC 1 cut(s) 423
TaqI TCGA 4 cut(s) 191, 204, 423, 428
TasI AATT 5 cut(s) 121, 133, 340, 603, 678
TatI WGTACW 1 cut(s) 61
TauI GCSGC 1 cut(s) 23
TfiI GAWTC 5 cut(s) 35, 67, 425, 503, 608
Tru1I TTAA 3 cut(s) 522, 545, 677
Tru9I TTAA 3 cut(s) 522, 545, 677
TscAI CASTG 2 cut(s) 97, 456
TseI GCWGC 3 cut(s) 277, 313, 376
TspDTI ATGAA 3 cut(s) 63, 155, 161
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
XspI CTAG 1 cut(s) 198
ZrmI AGTACT 1 cut(s) 63
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.