Rh1AG405100

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1A
OG0006418
Physical Location & Seq
Forward (+)
63249240 .. 63269295
20056 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1AG405100.1

Sequence Viewer

Length: 1668 bp
ATGGCCGCGCTTTGTGCATCACTCAGATCCACACTTCCTCCTCAGTCTATCAAGGGAAAGCGTTCATTGGCAGATCATATGAACGACGCTGTGAATCATATAAAACACCTGCAAACGAGGATCAAAGAACTCGGTGCCCAGAGAGATGACCTAAAGATACAAACGTCGTCGCCGGATTTGAGTTGTACTAGTGCTCTTGGCTTAGCTGGGAATCTTAGTGGATCAACTGGTAGCTCTTCATCATTGTTAGCAGGCAACTTTTCAAGAAGCCGTGTTGCAGTCAACCCTTCCTTAGGTGGCGTTGAGATTGTAATAATCAGCTATGTTACTGGTGGTTCTGCAAAGCCACAAGGTGTCGTCTTATCAAGATTGCTGCAAATACTGCTTGAACAAGGACTTGCTGTAATTAATTGTGCTACTACCCAGGTTAACAAAAGGCTTGTATACACCATACAATCCGAGAATCAGAAAGAAGCTTCTGAAGCTATTCTTGAATCACTTGATGCCTCCATATGTGATGATGTTCAATCGGCTACTTGTGTTTCAAATGGTTGTGCTGAAGACAATGGTTCTAAAGTAGTTCCGGTTGATTCTGGAAAATTTATTTTGGACGACATTAGTTTTATCGATTCTGGTTGGAAAGGAAAAAACTCAGAGACTGTTGTTGAATGCTTGGACAAAGATGCTGAGTTATCAGAGTATGAGTGGTCTCAATATGATAGTTGTGATACCGAGCTTCTTGGGGAATCACAGAATTTAAACCCAGAAGTTATATTGGAGGTTGAAGTTTGTGAAGGAAAAGAAGAACAGACTTGTCTAGCTCAAGACACTCAAAAGACTTCAAGGCAGGAAAGAGATCTTCAGATGCATAGTGATTTAGAAAATGTATGTGCTAAGAAGGTAGAGGTTTCCGGGAGCTGCTTAGAGCTAATAGATCTGGCATGTGACACTGAAGATGGAGAGTTGAGGGAATCATATGTGCCTTATTGGGAGGAGAATGATTTTGAAGGAATTGAACTTGTTGATTATGGTTCTGATACATGTGACACTAATGGACGTAGTCTATCCAATATTAATATTAGTGAAGCAAATATTAACAATATGGCTGCTGATTCTGACGAAAGGAAGATCATGCGTAGGGACAACGAGCGCCAAAGAAGACAAGTTATGGCGATTCGCACTGCATCACTTCGATCCCTCCTCCCTATAGAATTAATCAAGGGAAAACGTTCAATCTCCGAGCACATAAATGAAGCAGTGAATTATATAAAGCAGCTGAAGGAAAAGATACAGGAGCTGAATGCCAAGAGGGGAGAGCTTAGAAGGGTGTATAAACATTACAGTAGTTCTGCACATGATTTCAGTCCTGAAATTAATGAAAATTTGGGTACTAAGAGTACTTCCAATATCATGGTTGGCCCAACATGTTGGGGTGGAGTGGAGATTGTGGTAAGTACTAATGGTACAAATTGCAGTGAGCTAGAAGGGTTTTCTCTTTCAGGAGTACTCAAAGCATTGCTTGCAGAGGGCCTTACCGTTGTGGAGTGTGCTTCCACCACAGCAAATCAGAGGTTGATTCACTCTATTCAGTGTGAGGTCGACGATTTGGCATGTCTGGATTTGTCTGAGCTACAACTGAAACTAAATTTTTTATGCAATTCTGGCTAG
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
HLH

Protein Analysis

555

Amino Acids

60.58

Weight (kDa)

4.72

Isoelectric Point (pI)

53.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
HLH PF00010 375 - 427 3.5e-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
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 117
Acc36I ACCTGC 1 cut(s) 117
AccB1I GGYRCC 1 cut(s) 134
AccI GTMKAC 2 cut(s) 444, 1599
AccII CGCG 1 cut(s) 8
AciI CCGC 1 cut(s) 6
AclI AACGTT 1 cut(s) 1228
AclWI GGATC 4 cut(s) 21, 128, 229, 1188
AcoI YGGCCR 1 cut(s) 3
AcsI RAATTY 4 cut(s) 599, 754, 1381, 1645
AcuI CTGAAG 5 cut(s) 501, 579, 845, 972, 1298
AdeI CACNNNGTG 1 cut(s) 353
AfaI GTAC 6 cut(s) 187, 1390, 1399, 1456, 1465, 1506
AfiI CCNNNNNNNGG 1 cut(s) 293
AflIII ACRYGT 2 cut(s) 1040, 1424
AhlI ACTAGT 1 cut(s) 188
AjnI CCWGG 1 cut(s) 423
Alw21I GWGCWC 2 cut(s) 196, 1245
Alw26I GTCTC 2 cut(s) 650, 714
AlwI GGATC 4 cut(s) 21, 128, 229, 1188
AlwNI CAGNNNCTG 2 cut(s) 659, 1297
AoxI GGCC 3 cut(s) 3, 1417, 1528
ApeKI GCWGC 4 cut(s) 373, 918, 1106, 1273
ApoI RAATTY 4 cut(s) 599, 754, 1381, 1645
AseI ATTAAT 4 cut(s) 408, 1074, 1214, 1374
Asp700I GAANNNNTTC 3 cut(s) 61, 486, 1228
AspLEI GCGC 2 cut(s) 10, 1152
AspS9I GGNCC 2 cut(s) 1418, 1528
AsuC2I CCSGG 1 cut(s) 913
AxyI CCTNAGG 1 cut(s) 292
BaeGI GKGCMC 1 cut(s) 139
BaeI ACNNNNGTAYC 2 cut(s) 149, 182
BanI GGYRCC 1 cut(s) 134
BbsI GAAGAC 2 cut(s) 567, 1165
Bbv12I GWGCWC 2 cut(s) 196, 1245
BbvI GCAGC 4 cut(s) 360, 905, 1093, 1285
BccI CCATC 1 cut(s) 950
BceAI ACGGC 1 cut(s) 255
BciT130I CCWGG 1 cut(s) 425
BcnI CCSGG 1 cut(s) 913
BcoDI GTCTC 2 cut(s) 650, 714
BcuI ACTAGT 1 cut(s) 188
BfaI CTAG 4 cut(s) 189, 818, 1481, 1666
BfmI CTRYAG 1 cut(s) 1206
BfoI RGCGCY 1 cut(s) 1153
BfuAI ACCTGC 1 cut(s) 117
BglII AGATCT 2 cut(s) 856, 934
BisI GCNGC 5 cut(s) 6, 374, 919, 1107, 1274
BlpI GCTNAGC 1 cut(s) 202
BlsI GCNGC 5 cut(s) 7, 375, 920, 1108, 1275
BmcAI AGTACT 3 cut(s) 1399, 1456, 1506
Bme1390I CCNGG 2 cut(s) 425, 913
BmgT120I GGNCC 2 cut(s) 1418, 1528
BmiI GGNNCC 1 cut(s) 136
BmrFI CCNGG 2 cut(s) 425, 913
BmsI GCATC 5 cut(s) 26, 493, 673, 855, 1193
BpiI GAAGAC 2 cut(s) 567, 1165
Bpu1102I GCTNAGC 1 cut(s) 202
BpuEI CTTGAG 1 cut(s) 807
BpuMI CCSGG 1 cut(s) 913
Bsa29I ATCGAT 1 cut(s) 627
BsaI GGTCTC 1 cut(s) 714
BsaJI CCNNGG 1 cut(s) 423
BsaWI WCCGGW 1 cut(s) 583
BsaXI ACNNNNNCTCC 2 cut(s) 22, 52
Bsc4I CCNNNNNNNGG 1 cut(s) 293
Bse1I ACTGG 2 cut(s) 232, 334
Bse21I CCTNAGG 1 cut(s) 292
Bse3DI GCAATG 1 cut(s) 1514
BseBI CCWGG 1 cut(s) 425
BseCI ATCGAT 1 cut(s) 627
BseDI CCNNGG 1 cut(s) 423
BseLI CCNNNNNNNGG 1 cut(s) 293
BseMI GCAATG 1 cut(s) 1514
BseMII CTCAG 5 cut(s) 37, 56, 666, 678, 1617
BseNI ACTGG 2 cut(s) 232, 334
BseRI GAGGAG 3 cut(s) 30, 1007, 1190
BseSI GKGCMC 1 cut(s) 139
BseXI GCAGC 4 cut(s) 360, 905, 1093, 1285
BseYI CCCAGC 1 cut(s) 206
BsgI GTGCAG 1 cut(s) 1335
Bsh1236I CGCG 1 cut(s) 8
BshFI GGCC 3 cut(s) 5, 1419, 1530
BshNI GGYRCC 1 cut(s) 134
BshVI ATCGAT 1 cut(s) 627
BsiHKAI GWGCWC 2 cut(s) 196, 1245
BsiSI CCGG 3 cut(s) 173, 584, 912
BslFI GGGAC 1 cut(s) 1154
BslI CCNNNNNNNGG 1 cut(s) 293
BsmAI GTCTC 2 cut(s) 650, 714
BsmFI GGGAC 1 cut(s) 1154
BsmI GAATGC 2 cut(s) 674, 1306
BsnI GGCC 3 cut(s) 5, 1419, 1530
Bso31I GGTCTC 1 cut(s) 714
Bsp1286I GDGCHC 3 cut(s) 139, 196, 1245
Bsp143I GATC 8 cut(s) 26, 73, 120, 221, 856, 934, 1128, 1193
Bsp1720I GCTNAGC 1 cut(s) 202
BspACI CCGC 1 cut(s) 6
BspANI GGCC 3 cut(s) 5, 1419, 1530
BspCNI CTCAG 5 cut(s) 36, 55, 665, 679, 1618
BspDI ATCGAT 1 cut(s) 627
BspFNI CGCG 1 cut(s) 8
BspLI GGNNCC 1 cut(s) 136
BspMI ACCTGC 1 cut(s) 117
BspPI GGATC 4 cut(s) 21, 128, 229, 1188
BspQI GCTCTTC 1 cut(s) 241
BspT107I GGYRCC 1 cut(s) 134
BspTNI GGTCTC 1 cut(s) 714
BsrDI GCAATG 1 cut(s) 1514
BsrI ACTGG 2 cut(s) 232, 334
BssECI CCNNGG 1 cut(s) 423
BssMI GATC 8 cut(s) 26, 73, 120, 221, 856, 934, 1128, 1193
BssNAI GTATAC 1 cut(s) 445
Bst1107I GTATAC 1 cut(s) 445
Bst2UI CCWGG 1 cut(s) 425
Bst4CI ACNGT 3 cut(s) 661, 1343, 1537
Bst6I CTCTTC 1 cut(s) 241
BstAPI GCANNNNNTGC 2 cut(s) 382, 1520
BstC8I GCNNGC 2 cut(s) 253, 1521
BstENI CCTNNNNNAGG 1 cut(s) 291
BstFNI CGCG 1 cut(s) 8
BstH2I RGCGCY 1 cut(s) 1153
BstHHI GCGC 2 cut(s) 10, 1152
BstKTI GATC 8 cut(s) 29, 76, 123, 224, 859, 937, 1131, 1196
BstMAI GTCTC 2 cut(s) 650, 714
BstMBI GATC 8 cut(s) 26, 73, 120, 221, 856, 934, 1128, 1193
BstMWI GCNNNNNNNGC 5 cut(s) 14, 382, 482, 1520, 1662
BstNI CCWGG 1 cut(s) 425
BstNSI RCATGY 4 cut(s) 945, 1044, 1428, 1614
BstSCI CCNGG 2 cut(s) 423, 911
BstSFI CTRYAG 1 cut(s) 1206
BstSLI GKGCMC 1 cut(s) 139
BstUI CGCG 1 cut(s) 8
BstV1I GCAGC 4 cut(s) 360, 905, 1093, 1285
BstV2I GAAGAC 2 cut(s) 567, 1165
BstX2I RGATCY 3 cut(s) 26, 856, 934
BstXI CCANNNNNNTGG 2 cut(s) 1411, 1428
BstYI RGATCY 3 cut(s) 26, 856, 934
BstZ17I GTATAC 1 cut(s) 445
Bsu15I ATCGAT 1 cut(s) 627
Bsu36I CCTNAGG 1 cut(s) 292
BsuRI GGCC 3 cut(s) 5, 1419, 1530
BsuTUI ATCGAT 1 cut(s) 627
BtsI GCAGTG 3 cut(s) 1179, 1263, 1480
BtsIMutI CAGTG 5 cut(s) 948, 1179, 1263, 1480, 1595
BveI ACCTGC 1 cut(s) 117
Cac8I GCNNGC 2 cut(s) 253, 1521
CaiI CAGNNNCTG 2 cut(s) 659, 1297
CfoI GCGC 2 cut(s) 10, 1152
Cfr13I GGNCC 2 cut(s) 1418, 1528
ClaI ATCGAT 1 cut(s) 627
CseI GACGC 1 cut(s) 95
Csp6I GTAC 6 cut(s) 186, 1389, 1398, 1455, 1464, 1505
CviAII CATG 7 cut(s) 942, 1041, 1132, 1355, 1411, 1425, 1611
CviQI GTAC 6 cut(s) 186, 1389, 1398, 1455, 1464, 1505
DpnI GATC 8 cut(s) 28, 75, 122, 223, 858, 936, 1130, 1195
DpnII GATC 8 cut(s) 26, 73, 120, 221, 856, 934, 1128, 1193
DraI TTTAAA 1 cut(s) 759
DraIII CACNNNGTG 1 cut(s) 353
EaeI YGGCCR 1 cut(s) 3
Eam1104I CTCTTC 1 cut(s) 241
EarI CTCTTC 1 cut(s) 241
Eco31I GGTCTC 1 cut(s) 714
Eco57I CTGAAG 5 cut(s) 501, 579, 845, 972, 1298
Eco81I CCTNAGG 1 cut(s) 292
EcoNI CCTNNNNNAGG 1 cut(s) 291
EcoO109I RGGNCCY 1 cut(s) 1528
EcoRII CCWGG 1 cut(s) 423
EcoT22I ATGCAT 1 cut(s) 870
FaeI CATG 7 cut(s) 945, 1044, 1135, 1358, 1414, 1428, 1614
FalI AAGNNNNNCTT 4 cut(s) 474, 506, 1503, 1535
FaqI GGGAC 1 cut(s) 1154
FatI CATG 7 cut(s) 941, 1040, 1131, 1354, 1410, 1424, 1610
FauNDI CATATG 3 cut(s) 78, 512, 976
FblI GTMKAC 2 cut(s) 444, 1599
Fnu4HI GCNGC 5 cut(s) 6, 374, 919, 1107, 1274
Fsp4HI GCNGC 5 cut(s) 6, 374, 919, 1107, 1274
FspBI CTAG 4 cut(s) 189, 818, 1481, 1666
GlaI GCGC 2 cut(s) 9, 1151
GluI GCNGC 5 cut(s) 6, 374, 919, 1107, 1274
GsaI CCCAGC 1 cut(s) 210
HaeII RGCGCY 1 cut(s) 1153
HaeIII GGCC 3 cut(s) 5, 1419, 1530
HapII CCGG 3 cut(s) 173, 584, 912
HgaI GACGC 1 cut(s) 95
HhaI GCGC 2 cut(s) 10, 1152
Hin1II CATG 7 cut(s) 945, 1044, 1135, 1358, 1414, 1428, 1614
Hin6I GCGC 2 cut(s) 8, 1150
HinP1I GCGC 2 cut(s) 8, 1150
HincII GTYRAC 3 cut(s) 283, 430, 1600
HindII GTYRAC 3 cut(s) 283, 430, 1600
HindIII AAGCTT 1 cut(s) 474
HpaI GTTAAC 1 cut(s) 430
HpaII CCGG 3 cut(s) 173, 584, 912
Hpy166II GTNNAC 4 cut(s) 283, 430, 445, 1600
Hpy188III TCNNGA 8 cut(s) 264, 366, 491, 594, 824, 1367, 1500, 1616
Hpy8I GTNNAC 4 cut(s) 283, 430, 445, 1600
Hpy99I CGWCG 4 cut(s) 89, 169, 172, 1604
HpyAV CCTTC 7 cut(s) 297, 788, 892, 1001, 1273, 1317, 1478
HpyCH4III ACNGT 3 cut(s) 661, 1343, 1537
HpyCH4IV ACGT 3 cut(s) 164, 1057, 1228
HpyF10VI GCNNNNNNNGC 5 cut(s) 14, 382, 482, 1520, 1662
HpySE526I ACGT 3 cut(s) 164, 1057, 1228
Hsp92II CATG 7 cut(s) 945, 1044, 1135, 1358, 1414, 1428, 1614
HspAI GCGC 2 cut(s) 8, 1150
KspAI GTTAAC 1 cut(s) 430
Kzo9I GATC 8 cut(s) 26, 73, 120, 221, 856, 934, 1128, 1193
LguI GCTCTTC 1 cut(s) 241
LmnI GCTCC 2 cut(s) 915, 1294
Lsp1109I GCAGC 4 cut(s) 360, 905, 1093, 1285
LweI GCATC 5 cut(s) 26, 493, 673, 855, 1193
MaeI CTAG 4 cut(s) 189, 818, 1481, 1666
MaeII ACGT 3 cut(s) 164, 1057, 1228
MaeIII GTNAC 3 cut(s) 325, 944, 1043
MalI GATC 8 cut(s) 28, 75, 122, 223, 858, 936, 1130, 1195
MboI GATC 8 cut(s) 26, 73, 120, 221, 856, 934, 1128, 1193
MboII GAAGA 7 cut(s) 228, 572, 815, 851, 965, 1138, 1170
MflI RGATCY 3 cut(s) 26, 856, 934
MhlI GDGCHC 3 cut(s) 139, 196, 1245
MmeI TCCRAC 1 cut(s) 617
Mph1103I ATGCAT 1 cut(s) 870
MroXI GAANNNNTTC 3 cut(s) 61, 486, 1228
MseI TTAA 7 cut(s) 408, 429, 758, 1074, 1095, 1214, 1374
MslI CAYNNNNRTG 1 cut(s) 1248
MspA1I CMGCKG 1 cut(s) 1276
MspI CCGG 3 cut(s) 173, 584, 912
MspR9I CCNGG 2 cut(s) 425, 913
Mva1269I GAATGC 2 cut(s) 674, 1306
MvaI CCWGG 1 cut(s) 425
MvnI CGCG 1 cut(s) 8
MwoI GCNNNNNNNGC 5 cut(s) 14, 382, 482, 1520, 1662
NciI CCSGG 1 cut(s) 913
NdeI CATATG 3 cut(s) 78, 512, 976
NdeII GATC 8 cut(s) 26, 73, 120, 221, 856, 934, 1128, 1193
NlaIII CATG 7 cut(s) 945, 1044, 1135, 1358, 1414, 1428, 1614
NlaIV GGNNCC 1 cut(s) 136
NmuCI GTSAC 2 cut(s) 944, 1043
NsiI ATGCAT 1 cut(s) 870
NspI RCATGY 4 cut(s) 945, 1044, 1428, 1614
PaqCI CACCTGC 1 cut(s) 117
PciI ACATGT 2 cut(s) 1040, 1424
PciSI GCTCTTC 1 cut(s) 241
PctI GAATGC 2 cut(s) 674, 1306
PdmI GAANNNNTTC 3 cut(s) 61, 486, 1228
PflFI GACNNNGTC 1 cut(s) 1059
PfoI TCCNGGA 1 cut(s) 911
PkrI GCNGC 5 cut(s) 7, 375, 920, 1108, 1275
PscI ACATGT 2 cut(s) 1040, 1424
PshBI ATTAAT 4 cut(s) 408, 1074, 1214, 1374
Psp1406I AACGTT 1 cut(s) 1228
Psp6I CCWGG 1 cut(s) 423
PspFI CCCAGC 1 cut(s) 206
PspGI CCWGG 1 cut(s) 423
PspN4I GGNNCC 1 cut(s) 136
PspPI GGNCC 2 cut(s) 1418, 1528
PstNI CAGNNNCTG 2 cut(s) 659, 1297
PsuI RGATCY 3 cut(s) 26, 856, 934
PsyI GACNNNGTC 1 cut(s) 1059
PvuII CAGCTG 1 cut(s) 1276
RsaI GTAC 6 cut(s) 187, 1390, 1399, 1456, 1465, 1506
RsaNI GTAC 6 cut(s) 186, 1389, 1398, 1455, 1464, 1505
RseI CAYNNNNRTG 1 cut(s) 1248
SalI GTCGAC 1 cut(s) 1598
SapI GCTCTTC 1 cut(s) 241
SaqAI TTAA 7 cut(s) 408, 429, 758, 1074, 1095, 1214, 1374
SatI GCNGC 5 cut(s) 6, 374, 919, 1107, 1274
Sau3AI GATC 8 cut(s) 26, 73, 120, 221, 856, 934, 1128, 1193
Sau96I GGNCC 2 cut(s) 1418, 1528
ScaI AGTACT 3 cut(s) 1399, 1456, 1506
ScrFI CCNGG 2 cut(s) 425, 913
SduI GDGCHC 3 cut(s) 139, 196, 1245
SfaNI GCATC 5 cut(s) 26, 493, 673, 855, 1193
SfcI CTRYAG 1 cut(s) 1206
SmiMI CAYNNNNRTG 1 cut(s) 1248
SmlI CTYRAG 1 cut(s) 822
SmoI CTYRAG 1 cut(s) 822
SpeI ACTAGT 1 cut(s) 188
SsiI CCGC 1 cut(s) 6
SspI AATATT 3 cut(s) 1072, 1078, 1093
SspMI CTAG 4 cut(s) 189, 818, 1481, 1666
StyD4I CCNGG 2 cut(s) 423, 911
TaaI ACNGT 3 cut(s) 661, 1343, 1537
TaiI ACGT 3 cut(s) 167, 1060, 1231
TaqI TCGA 3 cut(s) 627, 1192, 1599
TatI WGTACW 4 cut(s) 185, 1397, 1454, 1504
TauI GCSGC 1 cut(s) 8
Tru1I TTAA 7 cut(s) 408, 429, 758, 1074, 1095, 1214, 1374
Tru9I TTAA 7 cut(s) 408, 429, 758, 1074, 1095, 1214, 1374
TscAI CASTG 5 cut(s) 955, 1186, 1263, 1480, 1595
TseFI GTSAC 2 cut(s) 944, 1043
TseI GCWGC 4 cut(s) 373, 918, 1106, 1273
Tsp45I GTSAC 2 cut(s) 944, 1043
TspDTI ATGAA 5 cut(s) 54, 95, 228, 1266, 1392
TspRI CASTG 5 cut(s) 955, 1186, 1263, 1480, 1595
Tth111I GACNNNGTC 1 cut(s) 1059
VspI ATTAAT 4 cut(s) 408, 1074, 1214, 1374
XagI CCTNNNNNAGG 1 cut(s) 291
XapI RAATTY 4 cut(s) 599, 754, 1381, 1645
XceI RCATGY 4 cut(s) 945, 1044, 1428, 1614
XmiI GTMKAC 2 cut(s) 444, 1599
XmnI GAANNNNTTC 3 cut(s) 61, 486, 1228
XspI CTAG 4 cut(s) 189, 818, 1481, 1666
ZrmI AGTACT 3 cut(s) 1399, 1456, 1506
Zsp2I ATGCAT 1 cut(s) 870
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.