Rmu_sc0009618.1_g000009

B3 DNA binding domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0009618.1
OG0000220
Physical Location & Seq
Forward (+)
40933 .. 43397
2465 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0009618.1_g000009.1.cds

Sequence Viewer

Length: 900 bp
atggagtaccccggccatgcccttataaagaggctgacaaaaactgatgtgcgagttagacttgtagtgccgactgaatgggtcggatccatgcttcctgcacagccagatcgcaacaatattacaatcaaagtcttggacgacgacggtcacgtttatcagttctatttgtctgttcgaagaaatggatatctgaaaccagttttccaggccagagaatggaaacgcttcatccaatacagcgaagccaaagttgaagataattcagatagtgatgatgcgtggggtggtacagcaactcaagatagttctgatgatggtggagatggtggaagaggaacaggtggtggaggtgaaagatatgaatatggacaatcttctgtggatgaaggatttcaatttacctgtgaaggtaattttgatcatgccacccaagatgaagaccacggagtgagaacagctggtcatggtgctgaagagaagacccgatatgggaggaggactagaggtgcaactgatgatcaaagtaccccatctgatgtttcttcaattgccttaagttttgactctatcagtttaggcacagagcgcagtgggatctcaaatgaatctcatgaagggaacaatcaattaaatgaatcttatgaagggaacaatcaatttggttatgatgcttatggttataatcaatatggagaagtatatgatcagtcatctagttgggttcatccttattatccccttataggggaaacagtcggcagctctaaagagataaataactatcatgtttctcactacaattcgcactatatgggtcatatgtcttggtctgattattgcatttttgtagaccagcgagcgccttttcaactgcctagagtctctttttggatgtag
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

299

Amino Acids

33.7

Weight (kDa)

4.87

Isoelectric Point (pI)

39.67

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0000220)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g14882 FvH4_1g25271 FvH4_2g02251 FvH4_2g02251 FvH4_2g12511 FvH4_3g12392 FvH4_4g13981 FvH4_5g27011 FvH4_5g27012 FvH4_6g04722 FvH4_6g19751 FvH4_6g31371 FvH4_6g35011 FvH4_7g02741 FvH4_7g02741 FvH4_7g11332
malus_domestica MD00G1003900.v1.1 MD00G1004000.v1.1 MD10G1094800.v1.1 MD13G1044700.v1.1 MD13G1176700.v1.1 MD15G1343300.v1.1 MD15G1444800.v1.1
prunus_persica Prupe.1G199600_v2.0.a1 Prupe.1G215800_v2.0.a1 Prupe.3G104200_v2.0.a1
pyrus_communis pycom06g06750 pycom08g00120 pycom08g00130 pycom10g02160 pycom11g16040 pycom11g16050 pycom11g17730 pycom15g19390 pycom15g25050 pycom15g25060 pycom16g24700 pycom16g24710 pycom5153684g00040
rosa_chinensis RchiOBHm_Chr1g0361971 RchiOBHm_Chr1g0383751 RchiOBHm_Chr2g0121831 RchiOBHm_Chr2g0121841 RchiOBHm_Chr2g0168971 RchiOBHm_Chr4g0384811 RchiOBHm_Chr4g0385621 RchiOBHm_Chr5g0012611 RchiOBHm_Chr6g0271241 RchiOBHm_Chr6g0289011 RchiOBHm_Chr7g0216171 RchiOBHm_Chr7g0216181 RchiOBHm_Chr7g0239421
rosa_laevigata RLG00000001765 RLG00000002860 RLG00000003609 RLG00000004743 RLG00000018385 RLG00000022782 RLG00000024093 RLG00000035412
rosa_multiflora Rmu_sc0000239.1_g000042 Rmu_sc0000292.1_g000005 Rmu_sc0000414.1_g000004 Rmu_sc0000441.1_g000099 Rmu_sc0000578.1_g000002 Rmu_sc0000666.1_g000019 Rmu_sc0000690.1_g000008 Rmu_sc0000821.1_g000011 Rmu_sc0001068.1_g000021 Rmu_sc0001696.1_g000017 Rmu_sc0001851.1_g000006 Rmu_sc0001940.1_g000018 Rmu_sc0002322.1_g000025 Rmu_sc0002343.1_g000030 Rmu_sc0002351.1_g000020 Rmu_sc0002371.1_g000025 Rmu_sc0002530.1_g000003 Rmu_sc0003206.1_g000001 Rmu_sc0003556.1_g000020 Rmu_sc0003906.1_g000002 Rmu_sc0004122.1_g000002 Rmu_sc0004283.1_g000013 Rmu_sc0004657.1_g000053 Rmu_sc0004657.1_g000054 Rmu_sc0004920.1_g000006 Rmu_sc0004990.1_g000001 Rmu_sc0005046.1_g000011 Rmu_sc0005134.1_g000006 Rmu_sc0005281.1_g000004 Rmu_sc0005704.1_g000010 Rmu_sc0005767.1_g000009 Rmu_sc0005789.1_g000031 Rmu_sc0005849.1_g000010 Rmu_sc0006736.1_g000020 Rmu_sc0006754.1_g000001 Rmu_sc0007663.1_g000010 Rmu_sc0007705.1_g000005 Rmu_sc0007883.1_g000003 Rmu_sc0007941.1_g000003 Rmu_sc0009618.1_g000009 Rmu_sc0009840.1_g000007 Rmu_sc0010800.1_g000007 Rmu_sc0011620.1_g000005 Rmu_sc0013423.1_g000002 Rmu_sc0014544.1_g000001 Rmu_sc0015323.1_g000004 Rmu_sc0023737.1_g000001 Rmu_sc0024470.1_g000005 Rmu_sc0032114.1_g000001 Rmu_ssc0000372.1_g000050 Rmu_ssc0000420.1_g000006
rosa_roxburghii Rroxscaffold_1G00014580 Rroxscaffold_1G00050290 Rroxscaffold_2G00093920 Rroxscaffold_2G00131720 Rroxscaffold_5G00351350 Rroxscaffold_5G00386210 Rroxscaffold_6G00392840 Rroxscaffold_6G00404480 Rroxscaffold_6G00405300
rosa_rugosa Rorug02G0533800 Rorug03G0200600 Rorug05G0329600 Rorug07G0139200 Rorug07G0341500 Rorug07G0341600 Rorug07G0341700 Rorug07G0341800
rosa_samantha Rh2BG114900 Rh2BG222900 Rh2DG253700 Rh3CG200000 Rh4BG186200 Rh4DG156200 Rh5AG145800 Rh5BG370600 Rh6AG123800 Rh6BG424900 Rh6DG105300 Rh7AG381900 Rh7CG288100 Rh7CG401400
rosa_wichuraiana Rw0G008270 Rw1G014540 Rw2G043790 Rw6G021690 Rw7G030100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 26, 684
AccB7I CCANNNNNTGG 1 cut(s) 219
AccI GTMKAC 1 cut(s) 852
AclWI GGATC 3 cut(s) 81, 94, 605
AcoI YGGCCR 1 cut(s) 13
AcuI CTGAAG 1 cut(s) 495
AdeI CACNNNGTG 1 cut(s) 451
AfaI GTAC 3 cut(s) 8, 292, 529
AfiI CCNNNNNNNGG 5 cut(s) 219, 492, 746, 747, 748
AflII CTTAAG 1 cut(s) 556
AgsI TTSAA 4 cut(s) 257, 398, 549, 872
AjnI CCWGG 1 cut(s) 207
AluBI AGCT 2 cut(s) 461, 765
AluI AGCT 2 cut(s) 461, 765
Alw26I GTCTC 1 cut(s) 889
AlwI GGATC 3 cut(s) 81, 94, 605
AoxI GGCC 2 cut(s) 13, 210
ApeKI GCWGC 1 cut(s) 762
Asp700I GAANNNNTTC 2 cut(s) 227, 393
AspLEI GCGC 2 cut(s) 591, 865
AsuC2I CCSGG 1 cut(s) 12
AsuHPI GGTGA 1 cut(s) 365
AsuII TTCGAA 1 cut(s) 178
BamHI GGATCC 1 cut(s) 86
BbsI GAAGAC 2 cut(s) 447, 488
BbvI GCAGC 1 cut(s) 774
BccI CCATC 3 cut(s) 311, 320, 541
BciT130I CCWGG 1 cut(s) 209
BclI TGATCA 3 cut(s) 421, 520, 706
BcnI CCSGG 1 cut(s) 12
BcoDI GTCTC 1 cut(s) 889
BfaI CTAG 3 cut(s) 504, 717, 879
BfoI RGCGCY 1 cut(s) 866
BfrI CTTAAG 1 cut(s) 556
BisI GCNGC 1 cut(s) 763
BlsI GCNGC 1 cut(s) 764
Bme1390I CCNGG 2 cut(s) 12, 209
BmiI GGNNCC 1 cut(s) 88
BmrFI CCNGG 2 cut(s) 12, 209
BmsI GCATC 2 cut(s) 268, 661
BoxI GACNNNNGTC 1 cut(s) 147
BpiI GAAGAC 2 cut(s) 447, 488
Bpu14I TTCGAA 1 cut(s) 178
BpuEI CTTGAG 1 cut(s) 285
BpuMI CCSGG 1 cut(s) 12
BsaJI CCNNGG 2 cut(s) 10, 445
Bsc4I CCNNNNNNNGG 5 cut(s) 219, 492, 746, 747, 748
Bse1I ACTGG 1 cut(s) 200
BseBI CCWGG 1 cut(s) 209
BseDI CCNNGG 2 cut(s) 10, 445
BseGI GGATG 4 cut(s) 231, 391, 727, 900
BseLI CCNNNNNNNGG 5 cut(s) 219, 492, 746, 747, 748
BseNI ACTGG 1 cut(s) 200
BseRI GAGGAG 1 cut(s) 511
BseXI GCAGC 1 cut(s) 774
BsgI GTGCAG 1 cut(s) 84
BshFI GGCC 2 cut(s) 15, 212
BsiSI CCGG 1 cut(s) 12
BslI CCNNNNNNNGG 5 cut(s) 219, 492, 746, 747, 748
BsmAI GTCTC 1 cut(s) 889
BsnI GGCC 2 cut(s) 15, 212
Bsp119I TTCGAA 1 cut(s) 178
Bsp143I GATC 6 cut(s) 86, 109, 421, 520, 597, 706
BspANI GGCC 2 cut(s) 15, 212
BspHI TCATGA 1 cut(s) 613
BspLI GGNNCC 1 cut(s) 88
BspPI GGATC 3 cut(s) 81, 94, 605
BspT104I TTCGAA 1 cut(s) 178
BspTI CTTAAG 1 cut(s) 556
BsrI ACTGG 1 cut(s) 200
BssECI CCNNGG 2 cut(s) 10, 445
BssMI GATC 6 cut(s) 86, 109, 421, 520, 597, 706
Bst2UI CCWGG 1 cut(s) 209
Bst4CI ACNGT 2 cut(s) 149, 757
Bst6I CTCTTC 2 cut(s) 328, 471
BstAFI CTTAAG 1 cut(s) 556
BstBI TTCGAA 1 cut(s) 178
BstC8I GCNNGC 1 cut(s) 861
BstDSI CCRYGG 1 cut(s) 445
BstF5I GGATG 4 cut(s) 231, 391, 727, 900
BstH2I RGCGCY 1 cut(s) 866
BstHHI GCGC 2 cut(s) 591, 865
BstKTI GATC 6 cut(s) 89, 112, 424, 523, 600, 709
BstMAI GTCTC 1 cut(s) 889
BstMBI GATC 6 cut(s) 86, 109, 421, 520, 597, 706
BstMWI GCNNNNNNNGC 1 cut(s) 588
BstNI CCWGG 1 cut(s) 209
BstPAI GACNNNNGTC 1 cut(s) 147
BstSCI CCNGG 2 cut(s) 10, 207
BstV1I GCAGC 1 cut(s) 774
BstV2I GAAGAC 2 cut(s) 447, 488
BstX2I RGATCY 2 cut(s) 86, 597
BstYI RGATCY 2 cut(s) 86, 597
BsuRI GGCC 2 cut(s) 15, 212
BtgI CCRYGG 1 cut(s) 445
BtsCI GGATG 4 cut(s) 231, 391, 727, 900
BtsI GCAGTG 1 cut(s) 598
BtsIMutI CAGTG 1 cut(s) 598
Cac8I GCNNGC 1 cut(s) 861
CciI TCATGA 1 cut(s) 613
CfoI GCGC 2 cut(s) 591, 865
Csp6I GTAC 3 cut(s) 7, 291, 528
CviAII CATG 6 cut(s) 17, 91, 425, 467, 614, 788
CviJI RGCY 7 cut(s) 15, 34, 106, 212, 248, 461, 765
CviKI_1 RGCY 7 cut(s) 15, 34, 106, 212, 248, 461, 765
CviQI GTAC 3 cut(s) 7, 291, 528
DpnI GATC 6 cut(s) 88, 111, 423, 522, 599, 708
DpnII GATC 6 cut(s) 86, 109, 421, 520, 597, 706
DraIII CACNNNGTG 1 cut(s) 451
EaeI YGGCCR 1 cut(s) 13
Eam1104I CTCTTC 2 cut(s) 328, 471
EarI CTCTTC 2 cut(s) 328, 471
Eco32I GATATC 1 cut(s) 191
Eco57I CTGAAG 1 cut(s) 495
EcoRII CCWGG 1 cut(s) 207
EcoRV GATATC 1 cut(s) 191
FaeI CATG 6 cut(s) 20, 94, 428, 470, 617, 791
FatI CATG 6 cut(s) 16, 90, 424, 466, 613, 787
FauNDI CATATG 1 cut(s) 822
FbaI TGATCA 3 cut(s) 421, 520, 706
FblI GTMKAC 1 cut(s) 852
Fnu4HI GCNGC 1 cut(s) 763
FokI GGATG 3 cut(s) 218, 398, 714
Fsp4HI GCNGC 1 cut(s) 763
FspBI CTAG 3 cut(s) 504, 717, 879
GlaI GCGC 2 cut(s) 590, 864
GluI GCNGC 1 cut(s) 763
HaeII RGCGCY 1 cut(s) 866
HaeIII GGCC 2 cut(s) 15, 212
HapII CCGG 1 cut(s) 12
HhaI GCGC 2 cut(s) 591, 865
Hin1II CATG 6 cut(s) 20, 94, 428, 470, 617, 791
Hin6I GCGC 2 cut(s) 589, 863
HinP1I GCGC 2 cut(s) 589, 863
HinfI GANTC 4 cut(s) 566, 608, 638, 882
HpaII CCGG 1 cut(s) 12
HphI GGTGA 1 cut(s) 365
Hpy166II GTNNAC 1 cut(s) 853
Hpy188I TCNGA 6 cut(s) 86, 195, 268, 313, 538, 835
Hpy188III TCNNGA 2 cut(s) 302, 614
Hpy8I GTNNAC 1 cut(s) 853
Hpy99I CGWCG 2 cut(s) 146, 149
HpyAV CCTTC 4 cut(s) 383, 404, 611, 641
HpyCH4III ACNGT 2 cut(s) 149, 757
HpyCH4IV ACGT 1 cut(s) 153
HpyCH4V TGCA 3 cut(s) 101, 512, 843
HpyF10VI GCNNNNNNNGC 1 cut(s) 588
HpySE526I ACGT 1 cut(s) 153
Hsp92II CATG 6 cut(s) 20, 94, 428, 470, 617, 791
HspAI GCGC 2 cut(s) 589, 863
Ksp22I TGATCA 3 cut(s) 421, 520, 706
Kzo9I GATC 6 cut(s) 86, 109, 421, 520, 597, 706
Lsp1109I GCAGC 1 cut(s) 774
LweI GCATC 2 cut(s) 268, 661
MaeI CTAG 3 cut(s) 504, 717, 879
MaeII ACGT 1 cut(s) 153
MaeIII GTNAC 1 cut(s) 149
MalI GATC 6 cut(s) 88, 111, 423, 522, 599, 708
MboI GATC 6 cut(s) 86, 109, 421, 520, 597, 706
MboII GAAGA 8 cut(s) 192, 269, 345, 369, 452, 488, 493, 537
MfeI CAATTG 1 cut(s) 549
MflI RGATCY 2 cut(s) 86, 597
MluCI AATT 7 cut(s) 262, 398, 415, 549, 629, 659, 802
MlyI GAGTC 2 cut(s) 560, 891
MmeI TCCRAC 1 cut(s) 64
MnlI CCTC 6 cut(s) 24, 329, 344, 489, 492, 500
MroXI GAANNNNTTC 2 cut(s) 227, 393
MseI TTAA 2 cut(s) 557, 632
MspA1I CMGCKG 1 cut(s) 461
MspCI CTTAAG 1 cut(s) 556
MspI CCGG 1 cut(s) 12
MspR9I CCNGG 2 cut(s) 12, 209
MunI CAATTG 1 cut(s) 549
MvaI CCWGG 1 cut(s) 209
MwoI GCNNNNNNNGC 1 cut(s) 588
NciI CCSGG 1 cut(s) 12
NdeI CATATG 1 cut(s) 822
NdeII GATC 6 cut(s) 86, 109, 421, 520, 597, 706
NlaIII CATG 6 cut(s) 20, 94, 428, 470, 617, 791
NlaIV GGNNCC 1 cut(s) 88
NmuCI GTSAC 1 cut(s) 149
NspV TTCGAA 1 cut(s) 178
PagI TCATGA 1 cut(s) 613
PcsI WCGNNNNNNNCGW 1 cut(s) 150
PdmI GAANNNNTTC 2 cut(s) 227, 393
PfeI GAWTC 2 cut(s) 608, 638
PflMI CCANNNNNTGG 1 cut(s) 219
PkrI GCNGC 1 cut(s) 764
PleI GAGTC 2 cut(s) 560, 890
PpsI GAGTC 2 cut(s) 560, 890
PshAI GACNNNNGTC 1 cut(s) 147
PsiI TTATAA 2 cut(s) 26, 684
Psp6I CCWGG 1 cut(s) 207
PspGI CCWGG 1 cut(s) 207
PspN4I GGNNCC 1 cut(s) 88
PsuI RGATCY 2 cut(s) 86, 597
PvuII CAGCTG 1 cut(s) 461
RsaI GTAC 3 cut(s) 8, 292, 529
RsaNI GTAC 3 cut(s) 7, 291, 528
SaqAI TTAA 2 cut(s) 557, 632
SatI GCNGC 1 cut(s) 763
Sau3AI GATC 6 cut(s) 86, 109, 421, 520, 597, 706
SchI GAGTC 2 cut(s) 560, 891
ScrFI CCNGG 2 cut(s) 12, 209
SetI ASST 8 cut(s) 156, 346, 355, 407, 415, 463, 511, 767
SfaNI GCATC 2 cut(s) 268, 661
SfuI TTCGAA 1 cut(s) 178
SmlI CTYRAG 2 cut(s) 300, 556
SmoI CTYRAG 2 cut(s) 300, 556
Sse9I AATT 7 cut(s) 262, 398, 415, 549, 629, 659, 802
SspI AATATT 1 cut(s) 121
SspMI CTAG 3 cut(s) 504, 717, 879
StyD4I CCNGG 2 cut(s) 10, 207
TaaI ACNGT 2 cut(s) 149, 757
TaiI ACGT 1 cut(s) 156
TaqI TCGA 1 cut(s) 178
TasI AATT 7 cut(s) 262, 398, 415, 549, 629, 659, 802
TfiI GAWTC 2 cut(s) 608, 638
Tru1I TTAA 2 cut(s) 557, 632
Tru9I TTAA 2 cut(s) 557, 632
TscAI CASTG 1 cut(s) 598
TseFI GTSAC 1 cut(s) 149
TseI GCWGC 1 cut(s) 762
Tsp45I GTSAC 1 cut(s) 149
TspDTI ATGAA 9 cut(s) 220, 378, 402, 453, 621, 630, 651, 660, 716
TspGWI ACGGA 1 cut(s) 462
TspRI CASTG 1 cut(s) 598
Van91I CCANNNNNTGG 1 cut(s) 219
Vha464I CTTAAG 1 cut(s) 556
XmiI GTMKAC 1 cut(s) 852
XmnI GAANNNNTTC 2 cut(s) 227, 393
XspI CTAG 3 cut(s) 504, 717, 879
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.