Rh2AG231500

helix loop helix domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2A
OG0015520
Physical Location & Seq
Forward (+)
24923252 .. 24924935
1684 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2AG231500.1

Sequence Viewer

Length: 909 bp
ATGACGTTAGAAGCTGTGGTGTTCCAGCCAGACCCATTTAGCTGTGGAAATTGTCTGGAAGGAAGTAGATCTTGGGACCATGGCTTTGGTTTCGGAGGAGATGATGATCAACAAGAAAAAGGCTACGCTCAACATGATATGCTCAACAATGGTAATATTGTAGGGCAAGGCCTTATGGGGTACTGTTCACCGTCACAGGTGAGAATGCAAAGTGTCAACACCGGCAACTCTAATTCCACGCCTGAAACCTGCACTGGCAACTTCAACTTCAACTTCAACAATTCTTTCTCTAGCCCGATGGCCACCACAGGCCGGAGAAAGAGGCGGCGCACGAGAAACATCAAGAACAAGGAAGAGGTGGAGACTCAGAGGATCACCCACATTGCTGTTGAACGCAATCGGAGGAAGCTCATGAATGACTATCTGGCCGCATTGCGCTCTATGATGCCTGCTTCCTATGCCCAAAGGGGTGACCAAGCATCAATCATAGGAGGAGCCATAAATTTTGTGAAGGAGCTTGAGCAACTTCTGCAATCTTTAGAAGTCGGTAGAAGAACCAAACAATCACACTTGGATTTGGCCTCCATATTCTCCAACTTCTTTACCTTCCCTCAGTACTCGACCTGTTCGAGTACTAACACCCACGGCCATGGCCATAGCGAGTACATGAACAACAACTTGGTGCATCCCGACGAGATAATGGGGGAGAAGCGGTCGGGGGCAATTGCAGATGTGGAAGTAACAATGGTAGAAAGTCATGCGAACATTAAAGTGCTTTTGAAAAGACACCCAAGACAGCTCTTAAAGATGGTGGTTGGGTTGCACTCTCTGCGTCTTATGATCCTTCACCTTAATGTCACAACTATGGATAGCATGATCCTCTACTCTTTCAGCGTCAAGGTTAGTTAA

Protein Analysis

302

Amino Acids

33.9

Weight (kDa)

8.79

Isoelectric Point (pI)

54.34

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 123 - 174 2.7e-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
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: OG0015520)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g20160 FvH4_1g20160
malus_domestica MD01G1037100.v1.1
prunus_persica Prupe.6G194400_v2.0.a1
pyrus_communis pycom01g06400
rosa_chinensis RchiOBHm_Chr2g0112221
rosa_laevigata RLG00000017960
rosa_multiflora Rmu_sc0001386.1_g000016 Rmu_sc0004467.1_g000007
rosa_roxburghii Rroxscaffold_2G00131650
rosa_rugosa Rorug02G0179300
rosa_samantha Rh2AG231500 Rh2BG244700 Rh2CG235900 Rh2DG239400
rosa_wichuraiana Rw2G017940

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 257
AciI CCGC 3 cut(s) 325, 429, 712
AclWI GGATC 3 cut(s) 380, 835, 871
AcoI YGGCCR 4 cut(s) 300, 426, 646, 652
AcsI RAATTY 1 cut(s) 502
AfaI GTAC 4 cut(s) 182, 617, 634, 665
AfiI CCNNNNNNNGG 1 cut(s) 312
AgsI TTSAA 5 cut(s) 265, 271, 277, 392, 781
AjuI GAANNNNNNNTTGG 4 cut(s) 55, 87, 662, 694
AluBI AGCT 5 cut(s) 14, 42, 409, 517, 799
AluI AGCT 5 cut(s) 14, 42, 409, 517, 799
Alw26I GTCTC 1 cut(s) 356
AlwI GGATC 3 cut(s) 380, 835, 871
AoxI GGCC 7 cut(s) 169, 300, 310, 426, 579, 646, 652
ApoI RAATTY 1 cut(s) 502
ArsI GACNNNNNNTTYG 2 cut(s) 68, 100
AspLEI GCGC 2 cut(s) 330, 438
AspS9I GGNCC 1 cut(s) 76
AsuHPI GGTGA 5 cut(s) 180, 211, 367, 482, 839
AvaII GGWCC 1 cut(s) 76
BalI TGGCCA 2 cut(s) 302, 654
BauI CACGAG 1 cut(s) 331
BccI CCATC 2 cut(s) 292, 802
BceAI ACGGC 1 cut(s) 661
BclI TGATCA 1 cut(s) 106
BcoDI GTCTC 1 cut(s) 356
BfaI CTAG 1 cut(s) 291
BfuAI ACCTGC 1 cut(s) 257
BglII AGATCT 1 cut(s) 68
BisI GCNGC 2 cut(s) 326, 429
BlsI GCNGC 2 cut(s) 327, 430
BmcAI AGTACT 2 cut(s) 617, 634
Bme18I GGWCC 1 cut(s) 76
BmgT120I GGNCC 1 cut(s) 76
BmiI GGNNCC 2 cut(s) 77, 496
BmsI GCATC 3 cut(s) 435, 488, 694
BpuEI CTTGAG 1 cut(s) 539
BsaBI GATNNNNATC 1 cut(s) 105
BsaJI CCNNGG 3 cut(s) 79, 643, 649
BsaXI ACNNNNNCTCC 2 cut(s) 698, 728
Bsc4I CCNNNNNNNGG 1 cut(s) 312
Bse118I RCCGGY 1 cut(s) 221
Bse1I ACTGG 1 cut(s) 259
Bse3DI GCAATG 2 cut(s) 381, 431
Bse8I GATNNNNATC 1 cut(s) 105
BseDI CCNNGG 3 cut(s) 79, 643, 649
BseGI GGATG 1 cut(s) 685
BseJI GATNNNNATC 1 cut(s) 105
BseLI CCNNNNNNNGG 1 cut(s) 312
BseMI GCAATG 2 cut(s) 381, 431
BseMII CTCAG 2 cut(s) 380, 626
BseNI ACTGG 1 cut(s) 259
BseRI GAGGAG 2 cut(s) 111, 507
BsgI GTGCAG 1 cut(s) 235
Bsh1285I CGRYCG 1 cut(s) 716
BshFI GGCC 7 cut(s) 171, 302, 312, 428, 581, 648, 654
BsiEI CGRYCG 1 cut(s) 716
BsiSI CCGG 2 cut(s) 222, 313
BslFI GGGAC 1 cut(s) 89
BslI CCNNNNNNNGG 1 cut(s) 312
BsmAI GTCTC 1 cut(s) 356
BsmFI GGGAC 1 cut(s) 89
BsmI GAATGC 1 cut(s) 210
BsnI GGCC 7 cut(s) 171, 302, 312, 428, 581, 648, 654
Bsp143I GATC 5 cut(s) 68, 106, 372, 840, 876
Bsp19I CCATGG 2 cut(s) 79, 649
BspACI CCGC 3 cut(s) 325, 429, 712
BspANI GGCC 7 cut(s) 171, 302, 312, 428, 581, 648, 654
BspCNI CTCAG 2 cut(s) 379, 625
BspHI TCATGA 1 cut(s) 411
BspLI GGNNCC 2 cut(s) 77, 496
BspMI ACCTGC 1 cut(s) 257
BspPI GGATC 3 cut(s) 380, 835, 871
BsrDI GCAATG 2 cut(s) 381, 431
BsrFI RCCGGY 1 cut(s) 221
BsrI ACTGG 1 cut(s) 259
BssAI RCCGGY 1 cut(s) 221
BssECI CCNNGG 3 cut(s) 79, 643, 649
BssMI GATC 5 cut(s) 68, 106, 372, 840, 876
BssSI CACGAG 1 cut(s) 331
BssT1I CCWWGG 2 cut(s) 79, 649
Bst2BI CACGAG 1 cut(s) 331
Bst4CI ACNGT 2 cut(s) 185, 192
Bst6I CTCTTC 1 cut(s) 348
BstAPI GCANNNNNTGC 2 cut(s) 529, 829
BstC8I GCNNGC 1 cut(s) 450
BstDEI CTNAG 2 cut(s) 366, 612
BstDSI CCRYGG 3 cut(s) 79, 643, 649
BstEII GGTNACC 1 cut(s) 470
BstF5I GGATG 1 cut(s) 685
BstHHI GCGC 2 cut(s) 330, 438
BstKTI GATC 5 cut(s) 71, 109, 375, 843, 879
BstMAI GTCTC 1 cut(s) 356
BstMBI GATC 5 cut(s) 68, 106, 372, 840, 876
BstMCI CGRYCG 1 cut(s) 716
BstMWI GCNNNNNNNGC 3 cut(s) 458, 529, 829
BstPI GGTNACC 1 cut(s) 470
BstX2I RGATCY 1 cut(s) 68
BstXI CCANNNNNNTGG 2 cut(s) 86, 650
BstYI RGATCY 1 cut(s) 68
BsuRI GGCC 7 cut(s) 171, 302, 312, 428, 581, 648, 654
BtgI CCRYGG 3 cut(s) 79, 643, 649
BtsCI GGATG 1 cut(s) 685
BtsIMutI CAGTG 1 cut(s) 252
BveI ACCTGC 1 cut(s) 257
Cac8I GCNNGC 1 cut(s) 450
CciI TCATGA 1 cut(s) 411
CfoI GCGC 2 cut(s) 330, 438
Cfr10I RCCGGY 1 cut(s) 221
Cfr13I GGNCC 1 cut(s) 76
CseI GACGC 2 cut(s) 821, 883
Csp6I GTAC 4 cut(s) 181, 616, 633, 664
CviAII CATG 7 cut(s) 80, 134, 412, 650, 667, 758, 874
CviQI GTAC 4 cut(s) 181, 616, 633, 664
DdeI CTNAG 2 cut(s) 366, 612
DpnI GATC 5 cut(s) 70, 108, 374, 842, 878
DpnII GATC 5 cut(s) 68, 106, 372, 840, 876
EaeI YGGCCR 4 cut(s) 300, 426, 646, 652
Eam1104I CTCTTC 1 cut(s) 348
EarI CTCTTC 1 cut(s) 348
Eco130I CCWWGG 2 cut(s) 79, 649
Eco147I AGGCCT 1 cut(s) 171
Eco47I GGWCC 1 cut(s) 76
Eco91I GGTNACC 1 cut(s) 470
EcoO65I GGTNACC 1 cut(s) 470
EcoT14I CCWWGG 2 cut(s) 79, 649
ErhI CCWWGG 2 cut(s) 79, 649
FaeI CATG 7 cut(s) 83, 137, 415, 653, 670, 761, 877
FalI AAGNNNNNCTT 2 cut(s) 55, 87
FaqI GGGAC 1 cut(s) 89
FatI CATG 7 cut(s) 79, 133, 411, 649, 666, 757, 873
FbaI TGATCA 1 cut(s) 106
Fnu4HI GCNGC 2 cut(s) 326, 429
FokI GGATG 1 cut(s) 672
Fsp4HI GCNGC 2 cut(s) 326, 429
FspBI CTAG 1 cut(s) 291
GlaI GCGC 2 cut(s) 329, 437
GluI GCNGC 2 cut(s) 326, 429
HaeIII GGCC 7 cut(s) 171, 302, 312, 428, 581, 648, 654
HapII CCGG 2 cut(s) 222, 313
HgaI GACGC 2 cut(s) 821, 883
HhaI GCGC 2 cut(s) 330, 438
Hin1II CATG 7 cut(s) 83, 137, 415, 653, 670, 761, 877
Hin6I GCGC 2 cut(s) 328, 436
HinP1I GCGC 2 cut(s) 328, 436
HincII GTYRAC 1 cut(s) 217
HindII GTYRAC 1 cut(s) 217
HinfI GANTC 1 cut(s) 364
HpaII CCGG 2 cut(s) 222, 313
HphI GGTGA 5 cut(s) 180, 211, 367, 482, 839
Hpy166II GTNNAC 2 cut(s) 188, 217
Hpy188I TCNGA 3 cut(s) 95, 369, 402
Hpy188III TCNNGA 4 cut(s) 56, 343, 412, 689
Hpy8I GTNNAC 2 cut(s) 188, 217
Hpy99I CGWCG 1 cut(s) 695
HpyAV CCTTC 4 cut(s) 53, 505, 616, 854
HpyCH4III ACNGT 2 cut(s) 185, 192
HpyCH4IV ACGT 1 cut(s) 5
HpyCH4V TGCA 6 cut(s) 208, 252, 532, 685, 728, 823
HpyF10VI GCNNNNNNNGC 3 cut(s) 458, 529, 829
HpyF3I CTNAG 2 cut(s) 366, 612
HpySE526I ACGT 1 cut(s) 5
Hsp92II CATG 7 cut(s) 83, 137, 415, 653, 670, 761, 877
HspAI GCGC 2 cut(s) 328, 436
Ksp22I TGATCA 1 cut(s) 106
Kzo9I GATC 5 cut(s) 68, 106, 372, 840, 876
LmnI GCTCC 2 cut(s) 494, 514
LweI GCATC 3 cut(s) 435, 488, 694
MaeI CTAG 1 cut(s) 291
MaeII ACGT 1 cut(s) 5
MaeIII GTNAC 4 cut(s) 192, 470, 739, 856
MalI GATC 5 cut(s) 70, 108, 374, 842, 878
MboI GATC 5 cut(s) 68, 106, 372, 840, 876
MboII GAAGA 2 cut(s) 365, 564
MfeI CAATTG 1 cut(s) 723
MflI RGATCY 1 cut(s) 68
MlsI TGGCCA 2 cut(s) 302, 654
MluCI AATT 5 cut(s) 49, 232, 280, 502, 723
MluNI TGGCCA 2 cut(s) 302, 654
MlyI GAGTC 1 cut(s) 358
MmeI TCCRAC 1 cut(s) 618
MnlI CCTC 9 cut(s) 89, 315, 349, 363, 396, 485, 592, 621, 890
Mox20I TGGCCA 2 cut(s) 302, 654
MscI TGGCCA 2 cut(s) 302, 654
MseI TTAA 4 cut(s) 768, 803, 852, 907
MslI CAYNNNNRTG 4 cut(s) 648, 770, 852, 863
Msp20I TGGCCA 2 cut(s) 302, 654
MspI CCGG 2 cut(s) 222, 313
MunI CAATTG 1 cut(s) 723
Mva1269I GAATGC 1 cut(s) 210
MwoI GCNNNNNNNGC 3 cut(s) 458, 529, 829
NcoI CCATGG 2 cut(s) 79, 649
NdeII GATC 5 cut(s) 68, 106, 372, 840, 876
NlaIII CATG 7 cut(s) 83, 137, 415, 653, 670, 761, 877
NlaIV GGNNCC 2 cut(s) 77, 496
NmuCI GTSAC 3 cut(s) 192, 470, 856
PagI TCATGA 1 cut(s) 411
PceI AGGCCT 1 cut(s) 171
PcsI WCGNNNNNNNCGW 1 cut(s) 626
PctI GAATGC 1 cut(s) 210
PkrI GCNGC 2 cut(s) 327, 430
PleI GAGTC 1 cut(s) 358
PpsI GAGTC 1 cut(s) 358
PspEI GGTNACC 1 cut(s) 470
PspN4I GGNNCC 2 cut(s) 77, 496
PspPI GGNCC 1 cut(s) 76
PsuI RGATCY 1 cut(s) 68
RsaI GTAC 4 cut(s) 182, 617, 634, 665
RsaNI GTAC 4 cut(s) 181, 616, 633, 664
RseI CAYNNNNRTG 4 cut(s) 648, 770, 852, 863
SaqAI TTAA 4 cut(s) 768, 803, 852, 907
SatI GCNGC 2 cut(s) 326, 429
Sau3AI GATC 5 cut(s) 68, 106, 372, 840, 876
Sau96I GGNCC 1 cut(s) 76
ScaI AGTACT 2 cut(s) 617, 634
SchI GAGTC 1 cut(s) 358
SfaNI GCATC 3 cut(s) 435, 488, 694
SinI GGWCC 1 cut(s) 76
SmiMI CAYNNNNRTG 4 cut(s) 648, 770, 852, 863
SmlI CTYRAG 1 cut(s) 518
SmoI CTYRAG 1 cut(s) 518
Sse9I AATT 5 cut(s) 49, 232, 280, 502, 723
SseBI AGGCCT 1 cut(s) 171
SsiI CCGC 3 cut(s) 325, 429, 712
SspI AATATT 1 cut(s) 157
SspMI CTAG 1 cut(s) 291
StuI AGGCCT 1 cut(s) 171
StyI CCWWGG 2 cut(s) 79, 649
TaaI ACNGT 2 cut(s) 185, 192
TaiI ACGT 1 cut(s) 8
TaqI TCGA 2 cut(s) 620, 629
TasI AATT 5 cut(s) 49, 232, 280, 502, 723
TatI WGTACW 3 cut(s) 615, 632, 663
TauI GCSGC 2 cut(s) 328, 431
Tru1I TTAA 4 cut(s) 768, 803, 852, 907
Tru9I TTAA 4 cut(s) 768, 803, 852, 907
TscAI CASTG 1 cut(s) 259
TseFI GTSAC 3 cut(s) 192, 470, 856
Tsp45I GTSAC 3 cut(s) 192, 470, 856
TspDTI ATGAA 2 cut(s) 428, 683
TspRI CASTG 1 cut(s) 259
VpaK11BI GGWCC 1 cut(s) 76
XapI RAATTY 1 cut(s) 502
XspI CTAG 1 cut(s) 291
ZrmI AGTACT 2 cut(s) 617, 634
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.