Rh1AG038500

B3 domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1A
OG0000210
Physical Location & Seq
Reverse (-)
6680617 .. 6681709
1093 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1AG038500.1

Sequence Viewer

Length: 672 bp
ATGCCAACAGCTTTTGTCAACGACTTCAATGGACCAGCACTATGCAAACTTCGAGGCCCTAATGGAAAATGCTGGGACGTAAAATTGGAAGAGAAAAACAATGATCTATTCTTCCATAAAGGCTGGAAGAAATTTGTGAAGGATAACTATTTGGAGGAAGGAGACTTCCTGGTTTTCAATTATGATGGCAATTCATTGTTCAGTGTGACAATCTATGATGAAAGTGCATGTGAAATGGACATGGAAGAAGCCAAGAGAAAGAGAAGTACTGGCTGTTTTGTTGGTCAAATGAGGGATTATGTCATGCCTGGGGAGACAAGACTCAGATTCATTGAGTTCAAATCAGAGCATCTTTGCTTTAAGAGAACTATGGAGACTCATAGACTGTATCAGCTGAACATTCCTATAATAATAGCCAGGGCTAAGGGTCTCATGAGCAAGCGGACTATAGAGCTTCGGGATCCAAGCAACAGATCATGGCCTGTTGCAGTGACCCCCATGGAAGATGGTCGTACACTTATGAACAAAGGCTGGTGTGATTGTTGCAAGGCGAACCAGATTAAGAAAGGGAACACAATTGTTTTTGAGTTTGTGAAGGGACATGTGAAGCTTCACATCATTAGAGATGAGGGATATGAAGTGATGCTCACAGGTCCTAATATCGTGTATTGA
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
B3

Protein Analysis

223

Amino Acids

25.93

Weight (kDa)

8.55

Isoelectric Point (pI)

42.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
B3 PF02362 2 - 73 5.4e-16 B3 DNA binding domain
B3 PF02362 125 - 206 6e-12 B3 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: OG0000210)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G66980
fragaria_vesca FvH4_2g27400 FvH4_2g27400 FvH4_2g27400 FvH4_2g40960 FvH4_2g40960 FvH4_2g40960 FvH4_2g40960 FvH4_2g40960 FvH4_3g19710 FvH4_5g30470 FvH4_6g23740 FvH4_6g23740 FvH4_6g23740 FvH4_6g23740 FvH4_6g23740 FvH4_7g01780 FvH4_7g01780 FvH4_7g01780 FvH4_7g01780 FvH4_7g01780 FvH4_7g01780 FvH4_7g23440 FvH4_7g23440 FvH4_7g23440
malus_domestica MD03G1230100.v1.1 MD03G1230200.v1.1 MD04G1034500.v1.1 MD04G1034600.v1.1 MD08G1039500.v1.1 MD11G1250800.v1.1 MD11G1251100.v1.1 MD11G1251200.v1.1
prunus_persica Prupe.1G388000_v2.0.a1 Prupe.1G388000_v2.0.a1 Prupe.1G388100_v2.0.a1 Prupe.4G178000_v2.0.a1 Prupe.4G178100_v2.0.a1 Prupe.4G178100_v2.0.a1 Prupe.4G178200_v2.0.a1 Prupe.4G178300_v2.0.a1 Prupe.4G178400_v2.0.a1 Prupe.4G178500_v2.0.a1 Prupe.4G206300_v2.0.a1 Prupe.4G206300_v2.0.a1 Prupe.4G206800_v2.0.a1 Prupe.4G206900_v2.0.a1 Prupe.4G207000_v2.0.a1 Prupe.7G064600_v2.0.a1 Prupe.7G064600_v2.0.a1
pyrus_communis pycom03g17770 pycom04g02860 pycom04g02870 pycom08g03160 pycom11g22190 pycom11g22200 pycom11g22210 pycom11g22220
rosa_chinensis RchiOBHm_Chr1g0318651 RchiOBHm_Chr1g0318881 RchiOBHm_Chr1g0319011 RchiOBHm_Chr1g0356381 RchiOBHm_Chr3g0482191 RchiOBHm_Chr5g0033031 RchiOBHm_Chr5g0033041 RchiOBHm_Chr6g0296251 RchiOBHm_Chr6g0299611 RchiOBHm_Chr7g0208501 RchiOBHm_Chr7g0224941
rosa_laevigata RLG00000001845 RLG00000011405 RLG00000011713 RLG00000023362 RLG00000030508 RLG00000030520 RLG00000033444
rosa_multiflora Rmu_sc0000307.1_g000013 Rmu_sc0000986.1_g000010 Rmu_sc0000986.1_g000011 Rmu_sc0002895.1_g000002 Rmu_sc0003503.1_g000005 Rmu_ssc0000357.1_g000023
rosa_roxburghii Rroxscaffold_1G00046900 Rroxscaffold_1G00046920 Rroxscaffold_1G00046930 Rroxscaffold_1G00046940 Rroxscaffold_1G00047010 Rroxscaffold_1G00047020 Rroxscaffold_1G00047030 Rroxscaffold_1G00059830 Rroxscaffold_3G00234250 Rroxscaffold_4G00299610 Rroxscaffold_4G00321350 Rroxscaffold_4G00328680 Rroxscaffold_4G00329000 Rroxscaffold_6G00399560 Rroxscaffold_6G00399970 Rroxscaffold_7G00168510 Rroxscaffold_7G00171700 Rroxscaffold_7G00178360
rosa_rugosa Rorug01G0022500 Rorug01G0022800 Rorug01G0026400 Rorug03G0195600 Rorug05G0135400 Rorug06G0260100 Rorug06G0260200.1 Rorug06G0291000 Rorug06G0291100 Rorug06G0291100 Rorug07G0227000
rosa_samantha Rh1AG035600 Rh1AG038500 Rh1AG045500 Rh1BG031400 Rh1BG034700 Rh1CG034500 Rh1CG037200 Rh1CG048500 Rh1DG032800 Rh1DG035800 Rh1DG052700 Rh3AG247000 Rh3CG277700 Rh3DG274200 Rh5AG227900 Rh5AG228000 Rh5CG256800 Rh5CG256900 Rh5CG257100 Rh5DG234000 Rh5DG234200 Rh6AG401800 Rh6BG380000 Rh6BG410200 Rh6CG385400 Rh6CG415800 Rh6DG372600 Rh6DG403000 Rh7AG376300 Rh7BG362400 Rh7DG372500
rosa_wichuraiana Rw0G008540 Rw1G002780 Rw1G002970 Rw3G022090 Rw5G020870 Rw6G032430 Rw6G035160 Rw7G031430

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 442
AclWI GGATC 2 cut(s) 455, 468
AcsI RAATTY 1 cut(s) 131
AfaI GTAC 2 cut(s) 268, 514
AflIII ACRYGT 1 cut(s) 601
AgsI TTSAA 3 cut(s) 28, 178, 340
AjnI CCWGG 3 cut(s) 168, 307, 416
AluBI AGCT 4 cut(s) 11, 394, 454, 610
AluI AGCT 4 cut(s) 11, 394, 454, 610
Alw26I GTCTC 4 cut(s) 156, 308, 368, 434
AlwI GGATC 2 cut(s) 455, 468
AoxI GGCC 2 cut(s) 55, 479
ApoI RAATTY 1 cut(s) 131
AspS9I GGNCC 3 cut(s) 32, 56, 653
AvaII GGWCC 2 cut(s) 32, 653
BamHI GGATCC 1 cut(s) 460
BccI CCATC 2 cut(s) 179, 500
BciT130I CCWGG 3 cut(s) 170, 309, 418
BcoDI GTCTC 4 cut(s) 156, 308, 368, 434
BfmI CTRYAG 1 cut(s) 447
BmcAI AGTACT 1 cut(s) 268
Bme1390I CCNGG 3 cut(s) 170, 309, 418
Bme18I GGWCC 2 cut(s) 32, 653
BmgT120I GGNCC 3 cut(s) 32, 56, 653
BmiI GGNNCC 1 cut(s) 462
BmrFI CCNGG 3 cut(s) 170, 309, 418
BmsI GCATC 2 cut(s) 358, 633
Bpu10I CCTNAGC 1 cut(s) 423
BsaI GGTCTC 1 cut(s) 434
BsaJI CCNNGG 3 cut(s) 308, 417, 498
Bse1I ACTGG 1 cut(s) 274
BseBI CCWGG 3 cut(s) 170, 309, 418
BseDI CCNNGG 3 cut(s) 308, 417, 498
BseMII CTCAG 1 cut(s) 337
BseNI ACTGG 1 cut(s) 274
BseYI CCCAGC 1 cut(s) 72
BshFI GGCC 2 cut(s) 57, 481
BslFI GGGAC 2 cut(s) 89, 612
BsmAI GTCTC 4 cut(s) 156, 308, 368, 434
BsmFI GGGAC 2 cut(s) 89, 612
BsnI GGCC 2 cut(s) 57, 481
Bso31I GGTCTC 1 cut(s) 434
Bsp143I GATC 3 cut(s) 103, 460, 473
Bsp19I CCATGG 1 cut(s) 498
BspACI CCGC 1 cut(s) 442
BspANI GGCC 2 cut(s) 57, 481
BspCNI CTCAG 1 cut(s) 336
BspHI TCATGA 1 cut(s) 432
BspLI GGNNCC 1 cut(s) 462
BspPI GGATC 2 cut(s) 455, 468
BspTNI GGTCTC 1 cut(s) 434
BsrI ACTGG 1 cut(s) 274
BssECI CCNNGG 3 cut(s) 308, 417, 498
BssMI GATC 3 cut(s) 103, 460, 473
BssT1I CCWWGG 1 cut(s) 498
Bst2UI CCWGG 3 cut(s) 170, 309, 418
Bst4CI ACNGT 1 cut(s) 387
Bst6I CTCTTC 1 cut(s) 84
BstC8I GCNNGC 1 cut(s) 440
BstDEI CTNAG 2 cut(s) 323, 423
BstDSI CCRYGG 1 cut(s) 498
BstKTI GATC 3 cut(s) 106, 463, 476
BstMAI GTCTC 4 cut(s) 156, 308, 368, 434
BstMBI GATC 3 cut(s) 103, 460, 473
BstNI CCWGG 3 cut(s) 170, 309, 418
BstNSI RCATGY 2 cut(s) 231, 605
BstSCI CCNGG 3 cut(s) 168, 307, 416
BstSFI CTRYAG 1 cut(s) 447
BstX2I RGATCY 1 cut(s) 460
BstYI RGATCY 1 cut(s) 460
BsuRI GGCC 2 cut(s) 57, 481
BtgI CCRYGG 1 cut(s) 498
BtsI GCAGTG 1 cut(s) 495
BtsIMutI CAGTG 2 cut(s) 208, 495
Cac8I GCNNGC 1 cut(s) 440
CciI TCATGA 1 cut(s) 432
Cfr13I GGNCC 3 cut(s) 32, 56, 653
Csp6I GTAC 2 cut(s) 267, 513
CviAII CATG 7 cut(s) 228, 241, 304, 433, 477, 499, 602
CviQI GTAC 2 cut(s) 267, 513
DdeI CTNAG 2 cut(s) 323, 423
DpnI GATC 3 cut(s) 105, 462, 475
DpnII GATC 3 cut(s) 103, 460, 473
Eam1104I CTCTTC 1 cut(s) 84
EarI CTCTTC 1 cut(s) 84
Eco130I CCWWGG 1 cut(s) 498
Eco31I GGTCTC 1 cut(s) 434
Eco47I GGWCC 2 cut(s) 32, 653
EcoO109I RGGNCCY 2 cut(s) 56, 653
EcoRII CCWGG 3 cut(s) 168, 307, 416
EcoT14I CCWWGG 1 cut(s) 498
ErhI CCWWGG 1 cut(s) 498
FaeI CATG 7 cut(s) 231, 244, 307, 436, 480, 502, 605
FaqI GGGAC 2 cut(s) 89, 612
FatI CATG 7 cut(s) 227, 240, 303, 432, 476, 498, 601
GsaI CCCAGC 1 cut(s) 76
HaeIII GGCC 2 cut(s) 57, 481
Hin1II CATG 7 cut(s) 231, 244, 307, 436, 480, 502, 605
HincII GTYRAC 1 cut(s) 19
HindII GTYRAC 1 cut(s) 19
HindIII AAGCTT 1 cut(s) 608
HinfI GANTC 3 cut(s) 321, 327, 376
Hpy166II GTNNAC 2 cut(s) 19, 515
Hpy188I TCNGA 2 cut(s) 326, 346
Hpy188III TCNNGA 2 cut(s) 433, 458
Hpy8I GTNNAC 2 cut(s) 19, 515
HpyAV CCTTC 3 cut(s) 133, 152, 589
HpyCH4III ACNGT 1 cut(s) 387
HpyCH4IV ACGT 1 cut(s) 78
HpyCH4V TGCA 4 cut(s) 45, 227, 488, 546
HpyF3I CTNAG 2 cut(s) 323, 423
HpySE526I ACGT 1 cut(s) 78
Hsp92II CATG 7 cut(s) 231, 244, 307, 436, 480, 502, 605
Kzo9I GATC 3 cut(s) 103, 460, 473
LweI GCATC 2 cut(s) 358, 633
MaeII ACGT 1 cut(s) 78
MaeIII GTNAC 2 cut(s) 205, 490
MalI GATC 3 cut(s) 105, 462, 475
MboI GATC 3 cut(s) 103, 460, 473
MboII GAAGA 5 cut(s) 101, 103, 139, 257, 515
MfeI CAATTG 1 cut(s) 576
MflI RGATCY 1 cut(s) 460
MluCI AATT 5 cut(s) 83, 131, 178, 190, 576
MlyI GAGTC 2 cut(s) 315, 370
MnlI CCTC 4 cut(s) 47, 148, 285, 622
MseI TTAA 2 cut(s) 360, 561
MspA1I CMGCKG 1 cut(s) 394
MspR9I CCNGG 3 cut(s) 170, 309, 418
MunI CAATTG 1 cut(s) 576
MvaI CCWGG 3 cut(s) 170, 309, 418
NcoI CCATGG 1 cut(s) 498
NdeII GATC 3 cut(s) 103, 460, 473
NlaIII CATG 7 cut(s) 231, 244, 307, 436, 480, 502, 605
NlaIV GGNNCC 1 cut(s) 462
NmuCI GTSAC 2 cut(s) 205, 490
NspI RCATGY 2 cut(s) 231, 605
PagI TCATGA 1 cut(s) 432
PciI ACATGT 1 cut(s) 601
PfeI GAWTC 1 cut(s) 327
PleI GAGTC 2 cut(s) 315, 370
PpsI GAGTC 2 cut(s) 315, 370
PpuMI RGGWCCY 1 cut(s) 653
PscI ACATGT 1 cut(s) 601
Psp5II RGGWCCY 1 cut(s) 653
Psp6I CCWGG 3 cut(s) 168, 307, 416
PspFI CCCAGC 1 cut(s) 72
PspGI CCWGG 3 cut(s) 168, 307, 416
PspN4I GGNNCC 1 cut(s) 462
PspPI GGNCC 3 cut(s) 32, 56, 653
PspPPI RGGWCCY 1 cut(s) 653
PsuI RGATCY 1 cut(s) 460
PvuII CAGCTG 1 cut(s) 394
RsaI GTAC 2 cut(s) 268, 514
RsaNI GTAC 2 cut(s) 267, 513
SaqAI TTAA 2 cut(s) 360, 561
Sau3AI GATC 3 cut(s) 103, 460, 473
Sau96I GGNCC 3 cut(s) 32, 56, 653
ScaI AGTACT 1 cut(s) 268
SchI GAGTC 2 cut(s) 315, 370
ScrFI CCNGG 3 cut(s) 170, 309, 418
SetI ASST 6 cut(s) 13, 81, 396, 456, 612, 655
SfaNI GCATC 2 cut(s) 358, 633
SfcI CTRYAG 1 cut(s) 447
SinI GGWCC 2 cut(s) 32, 653
Sse9I AATT 5 cut(s) 83, 131, 178, 190, 576
SsiI CCGC 1 cut(s) 442
StyD4I CCNGG 3 cut(s) 168, 307, 416
StyI CCWWGG 1 cut(s) 498
TaaI ACNGT 1 cut(s) 387
TaiI ACGT 1 cut(s) 81
TaqI TCGA 1 cut(s) 52
TasI AATT 5 cut(s) 83, 131, 178, 190, 576
TatI WGTACW 1 cut(s) 266
TfiI GAWTC 1 cut(s) 327
Tru1I TTAA 2 cut(s) 360, 561
Tru9I TTAA 2 cut(s) 360, 561
TscAI CASTG 2 cut(s) 208, 495
TseFI GTSAC 2 cut(s) 205, 490
Tsp45I GTSAC 2 cut(s) 205, 490
TspDTI ATGAA 5 cut(s) 183, 234, 319, 536, 651
TspRI CASTG 2 cut(s) 208, 495
VpaK11BI GGWCC 2 cut(s) 32, 653
XapI RAATTY 1 cut(s) 131
XceI RCATGY 2 cut(s) 231, 605
ZrmI AGTACT 1 cut(s) 268
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.