RLG00000003123

DNA-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr1
OG0013533
Physical Location & Seq
Forward (+)
44601354 .. 44605189
3836 bp
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UTR
Exon/CDS
Intron
RLM00000003123

Sequence Viewer

Length: 1176 bp
ATGGATTCCCGGGACGCTCCGCCGCAACAGCCTCCGCCGCAGCAACCCAACATGATGGTGGGCCCCAATTCCTACCCTTCCCCCATGGCCAACCCCACCATAAACCCCAACAACAACGCCACCGCCACCGCCACCGCCAACAGCAACAACAACAACTCGGGCGCGATGTTGGGAGGCGGCGGGCCGAATTCGGGTCGGTTCCAGTTCAACACGGTGGCCCAGCAGCCCGCATCGAAGCCGCAGCCGCTCGATTCCATGAGCCCGAGCCCGTTCGACGGATCGTTGAGGCCGTGCGGCGGCAGCGGAGGGTTTAGCATCGACTCTTCTACGGCCTCGGCGGGGAAGAAGAAGCGAGGCAGGCCCAGAAAGTACTCCCCTGATGGCAACATTGCATTGGGATTGGCGCCAACTCAGATTTCTGCCTCGGCTCCCGCTGCGGCCGCTGCCGGCCCCCACGGAGAATCGAGCGGCACCATGTCGTCGGATCCCCCTGCCAAGAAGAACAGGGGGCGCCCGCCGGGCTCCGGAAAGAAGCAGCTCGACGCTTTGGGAGCTGGTGGAGTTGGGTTCACGCCTCATGTCATTATGGTGCAAGCCGGCGAGGATATAGCATCAAAGGTTATGTCCTTTTCACAGCAAGGACCACGCACAGTTTGTATCCTTTCTGCAAATGGTCCAATTGGCAATGTTACCCTTCGACAGCCATCAATGTCTGGTGGTACAGTCACATATGAGGGTCGATTTGAGATTATTTCTCTGTCAGGCTCCTACTTGTTCTCTGAAAATAATGGTAACCGCAGCAGAACTGGTGGTTTGAGTGTGTCCCTGGCAGGGTCTGATGGTTCAGTGCTGGGCGGTGGAGTTGCAGGCATGCTATTGGCAGCAGGCCCGGTACAGGTGATTGTGGGTAGTTTTATTGCGGAAGGGAAAAAATCTAGCTCCAATTTGCTAAAATCCGGGCCTTCTTCTCCACCACCATCTCAAATGTTGAACTTTGGTCCACCTATGACAGCAGCTAGCCCTTCCTCTCAAGGAGGAGGCTCAACTGAGTCGTCTGATGAGAATGGTAGTAGCCCTCTTAACAAGGCGCCACCTGTGCTTTACAGTAACCCTAGTCAACCCATGCATAATATCACGATGTACCAACAATTATGGGCCGGCCAAACTCAACAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0044424 GO:0044444 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
DUF296

Protein Analysis

392

Amino Acids

39.51

Weight (kDa)

9.57

Isoelectric Point (pI)

61.01

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PCC PF03479 191 - 306 3.4e-24 Plants and Prokaryotes Conserved (PCC) 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: OG0013533)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G17950 AT5G46640
fragaria_vesca FvH4_5g22000
malus_domestica MD06G1033700.v1.1 MD16G1274800.v1.1
prunus_persica Prupe.5G037000_v2.0.a1
pyrus_communis pycom06g02780 pycom16g24490
rosa_chinensis RchiOBHm_Chr7g0209501
rosa_laevigata RLG00000003123
rosa_multiflora Rmu_sc0000243.1_g000005
rosa_roxburghii Rroxscaffold_3G00249310
rosa_rugosa Rorug07G0114000
rosa_samantha Rh7AG248000 Rh7BG242500 Rh7CG263500 Rh7DG254100
rosa_wichuraiana Rw7G020930

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 4 cut(s) 403, 470, 510, 1087
AccBSI CCGCTC 2 cut(s) 247, 468
AccII CGCG 1 cut(s) 164
AccIII TCCGGA 1 cut(s) 524
AclWI GGATC 3 cut(s) 286, 479, 492
AcoI YGGCCR 3 cut(s) 87, 438, 1159
AcsI RAATTY 1 cut(s) 187
AcyI GRCGYC 3 cut(s) 404, 511, 1088
AfaI GTAC 4 cut(s) 371, 721, 894, 1142
AfiI CCNNNNNNNGG 7 cut(s) 191, 275, 296, 339, 524, 831, 895
AgsI TTSAA 2 cut(s) 208, 991
AjnI CCWGG 1 cut(s) 825
AjuI GAANNNNNNNTTGG 2 cut(s) 400, 432
AluBI AGCT 4 cut(s) 538, 554, 939, 1016
AluI AGCT 4 cut(s) 538, 554, 939, 1016
AlwI GGATC 3 cut(s) 286, 479, 492
AlwNI CAGNNNCTG 1 cut(s) 836
Ama87I CYCGRG 3 cut(s) 9, 157, 262
Aor13HI TCCGGA 1 cut(s) 524
ApaI GGGCCC 1 cut(s) 65
ApoI RAATTY 1 cut(s) 187
ArsI GACNNNNNNTTYG 2 cut(s) 608, 640
AspLEI GCGC 4 cut(s) 164, 406, 513, 1090
AsuC2I CCSGG 5 cut(s) 10, 11, 519, 890, 958
AsuHPI GGTGA 1 cut(s) 910
AsuNHI GCTAGC 1 cut(s) 1016
AvaI CYCGRG 3 cut(s) 9, 157, 262
AvaII GGWCC 3 cut(s) 641, 674, 998
BaeGI GKGCMC 1 cut(s) 65
BalI TGGCCA 1 cut(s) 89
BamHI GGATCC 1 cut(s) 484
BanI GGYRCC 4 cut(s) 403, 470, 510, 1087
BanII GRGCYC 4 cut(s) 65, 263, 269, 524
BccI CCATC 5 cut(s) 49, 374, 712, 833, 985
BceAI ACGGC 2 cut(s) 274, 345
BciT130I CCWGG 1 cut(s) 827
BciVI GTATCC 1 cut(s) 668
BcnI CCSGG 5 cut(s) 10, 11, 519, 890, 958
BfaI CTAG 3 cut(s) 936, 1017, 1113
BfoI RGCGCY 3 cut(s) 407, 514, 1091
BfuI GTATCC 1 cut(s) 668
BglI GCCNNNNNGGC 1 cut(s) 519
BmcAI AGTACT 1 cut(s) 371
Bme1390I CCNGG 6 cut(s) 10, 11, 519, 827, 890, 958
Bme18I GGWCC 3 cut(s) 641, 674, 998
BmeT110I CYCGRG 3 cut(s) 9, 157, 262
BmrFI CCNGG 6 cut(s) 10, 11, 519, 827, 890, 958
BmsI GCATC 3 cut(s) 239, 324, 620
BmtI GCTAGC 1 cut(s) 1020
BpuEI CTTGAG 1 cut(s) 1014
BpuMI CCSGG 5 cut(s) 10, 11, 519, 890, 958
BsaHI GRCGYC 3 cut(s) 404, 511, 1088
BsaJI CCNNGG 6 cut(s) 9, 84, 333, 423, 454, 825
BsaWI WCCGGW 1 cut(s) 524
Bsc4I CCNNNNNNNGG 7 cut(s) 191, 275, 296, 339, 524, 831, 895
Bse118I RCCGGY 3 cut(s) 446, 596, 1157
Bse1I ACTGG 2 cut(s) 202, 811
Bse3DI GCAATG 2 cut(s) 387, 691
BseAI TCCGGA 1 cut(s) 524
BseBI CCWGG 1 cut(s) 827
BseDI CCNNGG 6 cut(s) 9, 84, 333, 423, 454, 825
BseLI CCNNNNNNNGG 7 cut(s) 191, 275, 296, 339, 524, 831, 895
BseMI GCAATG 2 cut(s) 387, 691
BseMII CTCAG 2 cut(s) 425, 1038
BseNI ACTGG 2 cut(s) 202, 811
BseRI GAGGAG 1 cut(s) 1050
BseSI GKGCMC 1 cut(s) 65
BseX3I CGGCCG 1 cut(s) 438
BseYI CCCAGC 2 cut(s) 219, 850
Bsh1236I CGCG 1 cut(s) 164
Bsh1285I CGRYCG 1 cut(s) 441
BshNI GGYRCC 4 cut(s) 403, 470, 510, 1087
BsiEI CGRYCG 1 cut(s) 441
BsiHKCI CYCGRG 3 cut(s) 9, 157, 262
BsiSI CCGG 8 cut(s) 10, 447, 518, 525, 597, 890, 957, 1158
BslFI GGGAC 2 cut(s) 26, 808
BslI CCNNNNNNNGG 7 cut(s) 191, 275, 296, 339, 524, 831, 895
BsmFI GGGAC 2 cut(s) 26, 808
BsoBI CYCGRG 3 cut(s) 9, 157, 262
Bsp120I GGGCCC 1 cut(s) 61
Bsp1286I GDGCHC 4 cut(s) 65, 263, 269, 524
Bsp13I TCCGGA 1 cut(s) 524
Bsp143I GATC 2 cut(s) 278, 484
Bsp19I CCATGG 1 cut(s) 84
BspCNI CTCAG 2 cut(s) 424, 1039
BspEI TCCGGA 1 cut(s) 524
BspFNI CGCG 1 cut(s) 164
BspOI GCTAGC 1 cut(s) 1020
BspPI GGATC 3 cut(s) 286, 479, 492
BspT107I GGYRCC 4 cut(s) 403, 470, 510, 1087
BsrBI CCGCTC 2 cut(s) 247, 468
BsrDI GCAATG 2 cut(s) 387, 691
BsrFI RCCGGY 3 cut(s) 446, 596, 1157
BsrI ACTGG 2 cut(s) 202, 811
BssAI RCCGGY 3 cut(s) 446, 596, 1157
BssECI CCNNGG 6 cut(s) 9, 84, 333, 423, 454, 825
BssMI GATC 2 cut(s) 278, 484
BssNI GRCGYC 3 cut(s) 404, 511, 1088
BssT1I CCWWGG 1 cut(s) 84
Bst2UI CCWGG 1 cut(s) 827
Bst4CI ACNGT 5 cut(s) 214, 652, 724, 1106, 1173
Bst6I CTCTTC 1 cut(s) 328
BstACI GRCGYC 3 cut(s) 404, 511, 1088
BstDEI CTNAG 2 cut(s) 411, 1047
BstDSI CCRYGG 2 cut(s) 84, 454
BstEII GGTNACC 1 cut(s) 791
BstFNI CGCG 1 cut(s) 164
BstH2I RGCGCY 3 cut(s) 407, 514, 1091
BstHHI GCGC 4 cut(s) 164, 406, 513, 1090
BstKTI GATC 2 cut(s) 281, 487
BstMBI GATC 2 cut(s) 278, 484
BstMCI CGRYCG 1 cut(s) 441
BstNI CCWGG 1 cut(s) 827
BstNSI RCATGY 1 cut(s) 874
BstPI GGTNACC 1 cut(s) 791
BstSCI CCNGG 6 cut(s) 8, 9, 517, 825, 888, 956
BstSLI GKGCMC 1 cut(s) 65
BstUI CGCG 1 cut(s) 164
BstX2I RGATCY 1 cut(s) 484
BstXI CCANNNNNNTGG 1 cut(s) 55
BstYI RGATCY 1 cut(s) 484
BstZI CGGCCG 1 cut(s) 438
BsuI GTATCC 1 cut(s) 668
BtgI CCRYGG 2 cut(s) 84, 454
BtgZI GCGATG 1 cut(s) 179
BtsIMutI CAGTG 1 cut(s) 852
CaiI CAGNNNCTG 1 cut(s) 836
CciNI GCGGCCGC 1 cut(s) 438
CfoI GCGC 4 cut(s) 164, 406, 513, 1090
Cfr10I RCCGGY 3 cut(s) 446, 596, 1157
Cfr9I CCCGGG 1 cut(s) 9
CseI GACGC 2 cut(s) 23, 551
Csp6I GTAC 4 cut(s) 370, 720, 893, 1141
CviAII CATG 7 cut(s) 52, 85, 256, 475, 578, 871, 1123
CviQI GTAC 4 cut(s) 370, 720, 893, 1141
DdeI CTNAG 2 cut(s) 411, 1047
DinI GGCGCC 3 cut(s) 405, 512, 1089
DpnI GATC 2 cut(s) 280, 486
DpnII GATC 2 cut(s) 278, 484
EaeI YGGCCR 3 cut(s) 87, 438, 1159
EagI CGGCCG 1 cut(s) 438
Eam1104I CTCTTC 1 cut(s) 328
EarI CTCTTC 1 cut(s) 328
EciI GGCGGA 2 cut(s) 9, 24
EclXI CGGCCG 1 cut(s) 438
Eco130I CCWWGG 1 cut(s) 84
Eco24I GRGCYC 4 cut(s) 65, 263, 269, 524
Eco47I GGWCC 3 cut(s) 641, 674, 998
Eco52I CGGCCG 1 cut(s) 438
Eco88I CYCGRG 3 cut(s) 9, 157, 262
Eco91I GGTNACC 1 cut(s) 791
EcoO109I RGGNCCY 1 cut(s) 62
EcoO65I GGTNACC 1 cut(s) 791
EcoRI GAATTC 1 cut(s) 187
EcoRII CCWGG 1 cut(s) 825
EcoT14I CCWWGG 1 cut(s) 84
EcoT22I ATGCAT 1 cut(s) 1128
EcoT38I GRGCYC 4 cut(s) 65, 263, 269, 524
EgeI GGCGCC 3 cut(s) 405, 512, 1089
EheI GGCGCC 3 cut(s) 405, 512, 1089
ErhI CCWWGG 1 cut(s) 84
FaeI CATG 7 cut(s) 55, 88, 259, 478, 581, 874, 1126
FaqI GGGAC 2 cut(s) 26, 808
FatI CATG 7 cut(s) 51, 84, 255, 474, 577, 870, 1122
FauI CCCGC 5 cut(s) 173, 235, 331, 439, 522
FauNDI CATATG 1 cut(s) 730
FriOI GRGCYC 4 cut(s) 65, 263, 269, 524
FseI GGCCGGCC 1 cut(s) 1161
FspBI CTAG 3 cut(s) 936, 1017, 1113
GlaI GCGC 4 cut(s) 163, 405, 512, 1089
GsaI CCCAGC 2 cut(s) 223, 854
HaeII RGCGCY 3 cut(s) 407, 514, 1091
HapII CCGG 8 cut(s) 10, 447, 518, 525, 597, 890, 957, 1158
HgaI GACGC 2 cut(s) 23, 551
HhaI GCGC 4 cut(s) 164, 406, 513, 1090
Hin1I GRCGYC 3 cut(s) 404, 511, 1088
Hin1II CATG 7 cut(s) 55, 88, 259, 478, 581, 874, 1126
Hin6I GCGC 4 cut(s) 162, 404, 511, 1088
HinP1I GCGC 4 cut(s) 162, 404, 511, 1088
HincII GTYRAC 1 cut(s) 1118
HindII GTYRAC 1 cut(s) 1118
HinfI GANTC 5 cut(s) 5, 251, 320, 461, 1049
HpaII CCGG 8 cut(s) 10, 447, 518, 525, 597, 890, 957, 1158
HphI GGTGA 1 cut(s) 910
Hpy166II GTNNAC 3 cut(s) 570, 1001, 1118
Hpy188I TCNGA 5 cut(s) 414, 484, 781, 838, 1057
Hpy188III TCNNGA 2 cut(s) 525, 1135
Hpy8I GTNNAC 3 cut(s) 570, 1001, 1118
Hpy99I CGWCG 3 cut(s) 278, 484, 545
HpyAV CCTTC 5 cut(s) 87, 704, 917, 972, 1032
HpyCH4III ACNGT 5 cut(s) 214, 652, 724, 1106, 1173
HpyCH4V TGCA 5 cut(s) 392, 592, 668, 866, 1126
HpyF3I CTNAG 2 cut(s) 411, 1047
Hsp92I GRCGYC 3 cut(s) 404, 511, 1088
Hsp92II CATG 7 cut(s) 55, 88, 259, 478, 581, 874, 1126
HspAI GCGC 4 cut(s) 162, 404, 511, 1088
KasI GGCGCC 3 cut(s) 403, 510, 1087
Kpn2I TCCGGA 1 cut(s) 524
KroI GCCGGC 3 cut(s) 446, 596, 1157
KroNI GCCGGC 3 cut(s) 448, 598, 1159
Kzo9I GATC 2 cut(s) 278, 484
LmnI GCTCC 6 cut(s) 22, 433, 527, 551, 770, 944
LweI GCATC 3 cut(s) 239, 324, 620
MaeI CTAG 3 cut(s) 936, 1017, 1113
MaeIII GTNAC 4 cut(s) 688, 724, 791, 1106
MalI GATC 2 cut(s) 280, 486
MbiI CCGCTC 2 cut(s) 247, 468
MboI GATC 2 cut(s) 278, 484
MboII GAAGA 5 cut(s) 315, 355, 358, 511, 957
MfeI CAATTG 1 cut(s) 678
MflI RGATCY 1 cut(s) 484
MhlI GDGCHC 4 cut(s) 65, 263, 269, 524
MlsI TGGCCA 1 cut(s) 89
MluCI AATT 5 cut(s) 67, 187, 678, 943, 1148
MluNI TGGCCA 1 cut(s) 89
Mly113I GGCGCC 3 cut(s) 404, 511, 1088
MlyI GAGTC 2 cut(s) 314, 1058
MmeI TCCRAC 1 cut(s) 462
Mox20I TGGCCA 1 cut(s) 89
Mph1103I ATGCAT 1 cut(s) 1128
MroI TCCGGA 1 cut(s) 524
MroNI GCCGGC 3 cut(s) 446, 596, 1157
MscI TGGCCA 1 cut(s) 89
MseI TTAA 1 cut(s) 1080
MslI CAYNNNNRTG 2 cut(s) 56, 587
Msp20I TGGCCA 1 cut(s) 89
MspA1I CMGCKG 3 cut(s) 303, 434, 443
MspI CCGG 8 cut(s) 10, 447, 518, 525, 597, 890, 957, 1158
MspR9I CCNGG 6 cut(s) 10, 11, 519, 827, 890, 958
MunI CAATTG 1 cut(s) 678
MvaI CCWGG 1 cut(s) 827
MvnI CGCG 1 cut(s) 164
NaeI GCCGGC 3 cut(s) 448, 598, 1159
NarI GGCGCC 3 cut(s) 404, 511, 1088
NciI CCSGG 5 cut(s) 10, 11, 519, 890, 958
NcoI CCATGG 1 cut(s) 84
NdeI CATATG 1 cut(s) 730
NdeII GATC 2 cut(s) 278, 484
NgoMIV GCCGGC 3 cut(s) 446, 596, 1157
NheI GCTAGC 1 cut(s) 1016
NlaIII CATG 7 cut(s) 55, 88, 259, 478, 581, 874, 1126
NmeAIII GCCGAG 2 cut(s) 314, 404
NmuCI GTSAC 1 cut(s) 724
NotI GCGGCCGC 1 cut(s) 438
NsiI ATGCAT 1 cut(s) 1128
NspI RCATGY 1 cut(s) 874
PaeI GCATGC 1 cut(s) 874
PcsI WCGNNNNNNNCGW 1 cut(s) 287
PdiI GCCGGC 3 cut(s) 448, 598, 1159
PfeI GAWTC 3 cut(s) 5, 251, 461
PleI GAGTC 2 cut(s) 314, 1057
PluTI GGCGCC 3 cut(s) 407, 514, 1091
PpsI GAGTC 2 cut(s) 314, 1057
Psp6I CCWGG 1 cut(s) 825
PspEI GGTNACC 1 cut(s) 791
PspFI CCCAGC 2 cut(s) 219, 850
PspGI CCWGG 1 cut(s) 825
PspOMI GGGCCC 1 cut(s) 61
PstNI CAGNNNCTG 1 cut(s) 836
PsuI RGATCY 1 cut(s) 484
RigI GGCCGGCC 1 cut(s) 1161
RsaI GTAC 4 cut(s) 371, 721, 894, 1142
RsaNI GTAC 4 cut(s) 370, 720, 893, 1141
RseI CAYNNNNRTG 2 cut(s) 56, 587
SaqAI TTAA 1 cut(s) 1080
Sau3AI GATC 2 cut(s) 278, 484
ScaI AGTACT 1 cut(s) 371
SchI GAGTC 2 cut(s) 314, 1058
ScrFI CCNGG 6 cut(s) 10, 11, 519, 827, 890, 958
SduI GDGCHC 4 cut(s) 65, 263, 269, 524
SetI ASST 8 cut(s) 540, 556, 621, 900, 941, 1006, 1018, 1096
SfaNI GCATC 3 cut(s) 239, 324, 620
SfoI GGCGCC 3 cut(s) 405, 512, 1089
SinI GGWCC 3 cut(s) 641, 674, 998
SmaI CCCGGG 1 cut(s) 11
SmiMI CAYNNNNRTG 2 cut(s) 56, 587
SmlI CTYRAG 1 cut(s) 1029
SmoI CTYRAG 1 cut(s) 1029
SphI GCATGC 1 cut(s) 874
Sse9I AATT 5 cut(s) 67, 187, 678, 943, 1148
SspDI GGCGCC 3 cut(s) 403, 510, 1087
SspMI CTAG 3 cut(s) 936, 1017, 1113
StyD4I CCNGG 6 cut(s) 8, 9, 517, 825, 888, 956
StyI CCWWGG 1 cut(s) 84
TaaI ACNGT 5 cut(s) 214, 652, 724, 1106, 1173
TaqI TCGA 8 cut(s) 233, 249, 273, 318, 464, 540, 697, 739
TasI AATT 5 cut(s) 67, 187, 678, 943, 1148
TatI WGTACW 1 cut(s) 369
TfiI GAWTC 3 cut(s) 5, 251, 461
Tru1I TTAA 1 cut(s) 1080
Tru9I TTAA 1 cut(s) 1080
TscAI CASTG 1 cut(s) 852
TseFI GTSAC 1 cut(s) 724
Tsp45I GTSAC 1 cut(s) 724
TspGWI ACGGA 2 cut(s) 291, 471
TspMI CCCGGG 1 cut(s) 9
TspRI CASTG 1 cut(s) 852
VpaK11BI GGWCC 3 cut(s) 641, 674, 998
XapI RAATTY 1 cut(s) 187
XceI RCATGY 1 cut(s) 874
XcmI CCANNNNNNNNNTGG 1 cut(s) 55
XmaI CCCGGG 1 cut(s) 9
XspI CTAG 3 cut(s) 936, 1017, 1113
ZrmI AGTACT 1 cut(s) 371
Zsp2I ATGCAT 1 cut(s) 1128
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.