Rh3CG142400
BHLH Family

transcription factor

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3C
OG0012635
Physical Location & Seq
Forward (+)
11811940 .. 11817294
5355 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3CG142400.1

Sequence Viewer

Length: 1545 bp
ATGCATGAAGGTGGATCTGCGGGGTATCCAATTGGACTGGCAGTGGCCGATATGTCACATCTTCATTACACATTTGGAAAGGGGGTAGTCGGTGAGGTTGCAAGTACAGGAAACCATAGCTGGGTGCTCCTCGATGGTTTGCGCACCAGCGTATCTGACTCTAACTTAGTTTCGGATTGTCCAGATGAGTGGTTGCTTCAGTTTGCATTGGGCGTCAAGACAATTTTGCTTGTACCTGTACTTCCACATGGAGTTTTGCAATTTGGCTCCTTGGAAACGGTTGATGAAGATCTGGCAGTAGTTGCTTTTATGAAAGACAGATTCAATGATATTCACAATCTCATGGGGAAAGCTGTACCTTCCAACTTAAATAGGGGCATTCAAGCTCCATATTCTTGGTCACTTTTATCTGGTTTAATGGAGAACACATATGAGTCATCAACTGTTGGCATTAACCCACTGAAAGTTGAAACGTCAGAAGATATTGGCAACAACAGACGGAATGATAACCTACTGTCGACTTTGGAGCAATTCATGCAATTTCCAACCATTGAAGATCCACATTTTGGAATAGATCCATCAGTTCTTAAAAATGCAGGTGAATGTGAGATTGGTGTTCCGGCATTTTGTTCCACTGGAGAAGCAAATACAGTCAATCAGTCTACACACACTAGTGTGCTGGATATGGTGGAAAATCAGATATTTGGGTTGTCTTGTCAGGAGGAAGAACTTTTTGCCTTTTCTCAGAATGGTGGTTATAATTTTGGAGTTTTTGGAGAATCCTTTGGAGGTTTCAATTCTAACACCGCTGGAAGTGCAGCAGAACAACTGTTCAAATTCAATAATGATACAAGGCACAACAGTGTGAATAATTTCTTTGAATTTCCTGAAACTAGTGAGCTACACAAAGCACTTGGAACATCTTTCCAGAGACAAACCAATGAACAGTTATGGGATTTATCCATCTCCATTGATGATACATGTAGCAGCTCTGGTGTGCAGAAAGATCTTATTAGCAGCATTAACCCACCATGGTTTTCCAACGGATGTGATGCTGAGAACCTCTTGGAAGCTTCAGTAGCCAAAGATGACACATCATCTAGCATATCAGATGGTATTAAATCATGTACAACCTCATCAAGACAATTTTCTGCTTCCTATAAACAATTGAAATTTGAAGAGGGCGGTCCGATGGAATGTGAACCAATGATATGGAGCCATACATCTGCTTTGCCTGCCACGCGCAAGACTTCATCTTCTTTCACAGGCATGATGAACACTGTGGTTGACGATGAGCAGGAAGAAAAGGGAACAAAAGGACACACTCCTACTCAGCCTAAAAGGGAACAGAAGTTGTCCGGCACCAATGCAAGAAGGGCCAAACCTGGCAATAGCCCAAAGCTAAGACCAAGAGATAGACAACTGATTCAGGATCGTGTCAAGGAACTTCGAGAACTTGTCCCAAATGGTGCCAAGGTTTGTACTGTTTTACATTTCAGTATTTATTGTGGGGCAGTACATGGTTACATATATTTTTCTAACTAG
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
bHLH-MYC_N

Protein Analysis

514

Amino Acids

56.25

Weight (kDa)

4.97

Isoelectric Point (pI)

36.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
bHLH-MYC_N PF14215 17 - 108 8.4e-15 bHLH-MYC and R2R3-MYB transcription factors N-terminal
bHLH_LHW PF23176 469 - 493 1.8e-12 Transcription factor LHW bHLH 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: OG0012635)

Species Orthologous Gene IDs
fragaria_vesca FvH4_6g13090 FvH4_6g13090 FvH4_6g13090 FvH4_6g13090 FvH4_6g13090
malus_domestica MD04G1135600.v1.1 MD12G1149300.v1.1
prunus_persica Prupe.6G260900_v2.0.a1
pyrus_communis pycom04g12270 pycom12g14310
rosa_chinensis RchiOBHm_Chr3g0465361
rosa_laevigata RLG00000024643
rosa_multiflora Rmu_sc0011781.1_g000003
rosa_roxburghii Rroxscaffold_6G00415100
rosa_rugosa Rorug03G0076300
rosa_samantha Rh3BG141300 Rh3CG142400 Rh3DG142400
rosa_wichuraiana Rw3G011560

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 759
AarI CACCTGC 1 cut(s) 587
Acc16I TGCGCA 1 cut(s) 143
Acc36I ACCTGC 1 cut(s) 587
AccB1I GGYRCC 2 cut(s) 1361, 1469
AccB7I CCANNNNNTGG 1 cut(s) 566
AccI GTMKAC 2 cut(s) 518, 662
AccII CGCG 1 cut(s) 1243
AciI CCGC 3 cut(s) 20, 807, 1185
AclWI GGATC 4 cut(s) 22, 551, 569, 1440
AcoI YGGCCR 1 cut(s) 45
AcsI RAATTY 3 cut(s) 836, 881, 1172
AcuI CTGAAG 2 cut(s) 182, 1059
AcyI GRCGYC 1 cut(s) 213
AfaI GTAC 7 cut(s) 106, 234, 240, 357, 1129, 1483, 1518
AfiI CCNNNNNNNGG 2 cut(s) 121, 566
AflIII ACRYGT 1 cut(s) 980
AhlI ACTAGT 2 cut(s) 671, 893
AjnI CCWGG 1 cut(s) 1384
AjuI GAANNNNNNNTTGG 2 cut(s) 594, 626
AleI CACNNNNGTG 3 cut(s) 672, 674, 861
AluBI AGCT 7 cut(s) 120, 353, 386, 901, 990, 1073, 1402
AluI AGCT 7 cut(s) 120, 353, 386, 901, 990, 1073, 1402
Alw21I GWGCWC 1 cut(s) 129
Alw26I GTCTC 1 cut(s) 925
AlwI GGATC 4 cut(s) 22, 551, 569, 1440
AoxI GGCC 2 cut(s) 45, 1377
ApeKI GCWGC 3 cut(s) 818, 987, 1017
ApoI RAATTY 3 cut(s) 836, 881, 1172
Asp700I GAANNNNTTC 1 cut(s) 872
AspLEI GCGC 2 cut(s) 144, 1245
AspS9I GGNCC 2 cut(s) 1187, 1377
AsuHPI GGTGA 2 cut(s) 104, 611
AvaII GGWCC 1 cut(s) 1187
BaeI ACNNNNGTAYC 2 cut(s) 135, 168
BanI GGYRCC 2 cut(s) 1361, 1469
BarI GAAGNNNNNNTAC 2 cut(s) 225, 257
Bbv12I GWGCWC 1 cut(s) 129
BbvI GCAGC 3 cut(s) 830, 999, 1029
BccI CCATC 5 cut(s) 128, 586, 971, 1106, 1186
BciT130I CCWGG 1 cut(s) 1386
BciVI GTATCC 1 cut(s) 36
BcoDI GTCTC 1 cut(s) 925
BcuI ACTAGT 2 cut(s) 671, 893
BfaI CTAG 4 cut(s) 672, 894, 1101, 1543
BfuAI ACCTGC 1 cut(s) 587
BfuI GTATCC 1 cut(s) 36
BglII AGATCT 2 cut(s) 289, 1006
BisI GCNGC 3 cut(s) 819, 988, 1018
BlsI GCNGC 3 cut(s) 820, 989, 1019
Bme1390I CCNGG 1 cut(s) 1386
Bme18I GGWCC 1 cut(s) 1187
BmgT120I GGNCC 2 cut(s) 1187, 1377
BmiI GGNNCC 4 cut(s) 268, 1217, 1363, 1471
BmrFI CCNGG 1 cut(s) 1386
BmsI GCATC 1 cut(s) 1042
BpmI CTGGAG 1 cut(s) 657
BsaBI GATNNNNATC 1 cut(s) 288
BsaHI GRCGYC 1 cut(s) 213
BsaJI CCNNGG 3 cut(s) 270, 1031, 1473
Bsc4I CCNNNNNNNGG 2 cut(s) 121, 566
Bse1I ACTGG 2 cut(s) 42, 640
Bse8I GATNNNNATC 1 cut(s) 288
BseBI CCWGG 1 cut(s) 1386
BseDI CCNNGG 3 cut(s) 270, 1031, 1473
BseGI GGATG 1 cut(s) 1052
BseJI GATNNNNATC 1 cut(s) 288
BseLI CCNNNNNNNGG 2 cut(s) 121, 566
BseMII CTCAG 3 cut(s) 758, 1047, 1346
BseNI ACTGG 2 cut(s) 42, 640
BseRI GAGGAG 1 cut(s) 119
BseXI GCAGC 3 cut(s) 830, 999, 1029
BseYI CCCAGC 1 cut(s) 120
BsgI GTGCAG 2 cut(s) 837, 1019
Bsh1236I CGCG 1 cut(s) 1243
BshFI GGCC 2 cut(s) 47, 1379
BshNI GGYRCC 2 cut(s) 1361, 1469
BsiHKAI GWGCWC 1 cut(s) 129
BsiSI CCGG 2 cut(s) 620, 1359
BslFI GGGAC 1 cut(s) 1445
BslI CCNNNNNNNGG 2 cut(s) 121, 566
BsmAI GTCTC 1 cut(s) 925
BsmFI GGGAC 1 cut(s) 1445
BsmI GAATGC 1 cut(s) 378
BsnI GGCC 2 cut(s) 47, 1379
Bsp1286I GDGCHC 1 cut(s) 129
Bsp1407I TGTACA 1 cut(s) 1127
Bsp143I GATC 6 cut(s) 14, 289, 556, 574, 1006, 1432
Bsp19I CCATGG 1 cut(s) 1031
BspACI CCGC 3 cut(s) 20, 807, 1185
BspANI GGCC 2 cut(s) 47, 1379
BspCNI CTCAG 3 cut(s) 757, 1048, 1345
BspFNI CGCG 1 cut(s) 1243
BspLI GGNNCC 4 cut(s) 268, 1217, 1363, 1471
BspMI ACCTGC 1 cut(s) 587
BspPI GGATC 4 cut(s) 22, 551, 569, 1440
BspT107I GGYRCC 2 cut(s) 1361, 1469
BsrGI TGTACA 1 cut(s) 1127
BsrI ACTGG 2 cut(s) 42, 640
BssECI CCNNGG 3 cut(s) 270, 1031, 1473
BssMI GATC 6 cut(s) 14, 289, 556, 574, 1006, 1432
BssNI GRCGYC 1 cut(s) 213
BssT1I CCWWGG 3 cut(s) 270, 1031, 1473
Bst2UI CCWGG 1 cut(s) 1386
Bst4CI ACNGT 9 cut(s) 280, 445, 516, 652, 831, 863, 948, 1282, 1486
Bst6I CTCTTC 1 cut(s) 1173
BstACI GRCGYC 1 cut(s) 213
BstAPI GCANNNNNTGC 2 cut(s) 302, 535
BstAUI TGTACA 1 cut(s) 1127
BstC8I GCNNGC 1 cut(s) 1236
BstDEI CTNAG 5 cut(s) 166, 744, 1056, 1332, 1403
BstDSI CCRYGG 1 cut(s) 1031
BstF5I GGATG 1 cut(s) 1052
BstFNI CGCG 1 cut(s) 1243
BstHHI GCGC 2 cut(s) 144, 1245
BstKTI GATC 6 cut(s) 17, 292, 559, 577, 1009, 1435
BstMAI GTCTC 1 cut(s) 925
BstMBI GATC 6 cut(s) 14, 289, 556, 574, 1006, 1432
BstMWI GCNNNNNNNGC 7 cut(s) 302, 535, 815, 1079, 1235, 1240, 1376
BstNI CCWGG 1 cut(s) 1386
BstNSI RCATGY 1 cut(s) 984
BstSCI CCNGG 1 cut(s) 1384
BstUI CGCG 1 cut(s) 1243
BstV1I GCAGC 3 cut(s) 830, 999, 1029
BstX2I RGATCY 5 cut(s) 14, 289, 556, 574, 1006
BstXI CCANNNNNNTGG 3 cut(s) 189, 396, 1212
BstYI RGATCY 5 cut(s) 14, 289, 556, 574, 1006
BsuI GTATCC 1 cut(s) 36
BsuRI GGCC 2 cut(s) 47, 1379
BtgI CCRYGG 1 cut(s) 1031
BtsCI GGATG 1 cut(s) 1052
BtsI GCAGTG 1 cut(s) 48
BtsIMutI CAGTG 5 cut(s) 48, 458, 633, 868, 1278
BveI ACCTGC 1 cut(s) 587
Cac8I GCNNGC 1 cut(s) 1236
CfoI GCGC 2 cut(s) 144, 1245
Cfr13I GGNCC 2 cut(s) 1187, 1377
CpoI CGGWCCG 1 cut(s) 1187
CseI GACGC 1 cut(s) 202
Csp6I GTAC 7 cut(s) 105, 233, 239, 356, 1128, 1482, 1517
CspI CGGWCCG 1 cut(s) 1187
CviAII CATG 9 cut(s) 5, 248, 343, 535, 981, 1032, 1125, 1270, 1520
CviQI GTAC 7 cut(s) 105, 233, 239, 356, 1128, 1482, 1517
DdeI CTNAG 5 cut(s) 166, 744, 1056, 1332, 1403
DpnI GATC 6 cut(s) 16, 291, 558, 576, 1008, 1434
DpnII GATC 6 cut(s) 14, 289, 556, 574, 1006, 1432
EaeI YGGCCR 1 cut(s) 45
Eam1104I CTCTTC 1 cut(s) 1173
EarI CTCTTC 1 cut(s) 1173
Eco130I CCWWGG 3 cut(s) 270, 1031, 1473
Eco47I GGWCC 1 cut(s) 1187
Eco57I CTGAAG 2 cut(s) 182, 1059
EcoRII CCWGG 1 cut(s) 1384
EcoT14I CCWWGG 3 cut(s) 270, 1031, 1473
EcoT22I ATGCAT 1 cut(s) 6
ErhI CCWWGG 3 cut(s) 270, 1031, 1473
FaeI CATG 9 cut(s) 8, 251, 346, 538, 984, 1035, 1128, 1273, 1523
FaqI GGGAC 1 cut(s) 1445
FatI CATG 9 cut(s) 4, 247, 342, 534, 980, 1031, 1124, 1269, 1519
FauI CCCGC 1 cut(s) 13
FauNDI CATATG 1 cut(s) 430
FblI GTMKAC 2 cut(s) 518, 662
Fnu4HI GCNGC 3 cut(s) 819, 988, 1018
FokI GGATG 1 cut(s) 1059
Fsp4HI GCNGC 3 cut(s) 819, 988, 1018
FspBI CTAG 4 cut(s) 672, 894, 1101, 1543
FspI TGCGCA 1 cut(s) 143
GlaI GCGC 2 cut(s) 143, 1244
GluI GCNGC 3 cut(s) 819, 988, 1018
GsaI CCCAGC 1 cut(s) 124
GsuI CTGGAG 1 cut(s) 657
HaeIII GGCC 2 cut(s) 47, 1379
HapII CCGG 2 cut(s) 620, 1359
HgaI GACGC 1 cut(s) 202
HhaI GCGC 2 cut(s) 144, 1245
Hin1I GRCGYC 1 cut(s) 213
Hin1II CATG 9 cut(s) 8, 251, 346, 538, 984, 1035, 1128, 1273, 1523
Hin6I GCGC 2 cut(s) 142, 1243
HinP1I GCGC 2 cut(s) 142, 1243
HincII GTYRAC 2 cut(s) 519, 1288
HindII GTYRAC 2 cut(s) 519, 1288
HindIII AAGCTT 1 cut(s) 1071
HinfI GANTC 5 cut(s) 158, 321, 434, 779, 1426
HpaII CCGG 2 cut(s) 620, 1359
HphI GGTGA 2 cut(s) 104, 611
Hpy166II GTNNAC 4 cut(s) 519, 663, 1202, 1288
Hpy188I TCNGA 7 cut(s) 157, 175, 478, 699, 747, 1111, 1191
Hpy188III TCNNGA 8 cut(s) 182, 217, 719, 887, 928, 1140, 1430, 1451
Hpy8I GTNNAC 4 cut(s) 519, 663, 1202, 1288
HpyAV CCTTC 2 cut(s) 369, 1368
HpyCH4III ACNGT 9 cut(s) 280, 445, 516, 652, 831, 863, 948, 1282, 1486
HpyCH4IV ACGT 1 cut(s) 473
HpyCH4V TGCA 9 cut(s) 4, 101, 206, 259, 538, 596, 818, 1000, 1370
HpyF10VI GCNNNNNNNGC 7 cut(s) 302, 535, 815, 1079, 1235, 1240, 1376
HpyF3I CTNAG 5 cut(s) 166, 744, 1056, 1332, 1403
HpySE526I ACGT 1 cut(s) 473
Hsp92I GRCGYC 1 cut(s) 213
Hsp92II CATG 9 cut(s) 8, 251, 346, 538, 984, 1035, 1128, 1273, 1523
HspAI GCGC 2 cut(s) 142, 1243
Kzo9I GATC 6 cut(s) 14, 289, 556, 574, 1006, 1432
LmnI GCTCC 5 cut(s) 132, 272, 391, 526, 1215
Lsp1109I GCAGC 3 cut(s) 830, 999, 1029
LweI GCATC 1 cut(s) 1042
MaeI CTAG 4 cut(s) 672, 894, 1101, 1543
MaeII ACGT 1 cut(s) 473
MaeIII GTNAC 3 cut(s) 54, 399, 1523
MalI GATC 6 cut(s) 16, 291, 558, 576, 1008, 1434
MboI GATC 6 cut(s) 14, 289, 556, 574, 1006, 1432
MboII GAAGA 8 cut(s) 53, 299, 491, 566, 737, 1190, 1248, 1313
MfeI CAATTG 2 cut(s) 30, 1166
MflI RGATCY 5 cut(s) 14, 289, 556, 574, 1006
MhlI GDGCHC 1 cut(s) 129
MlyI GAGTC 2 cut(s) 152, 443
MmeI TCCRAC 3 cut(s) 387, 569, 1065
MnlI CCTC 7 cut(s) 88, 140, 715, 782, 1073, 1144, 1174
Mph1103I ATGCAT 1 cut(s) 6
MroXI GAANNNNTTC 1 cut(s) 872
MseI TTAA 6 cut(s) 368, 416, 453, 588, 1023, 1119
MslI CAYNNNNRTG 5 cut(s) 9, 672, 674, 861, 1268
MspA1I CMGCKG 1 cut(s) 809
MspI CCGG 2 cut(s) 620, 1359
MspR9I CCNGG 1 cut(s) 1386
MunI CAATTG 2 cut(s) 30, 1166
Mva1269I GAATGC 1 cut(s) 378
MvaI CCWGG 1 cut(s) 1386
MvnI CGCG 1 cut(s) 1243
MwoI GCNNNNNNNGC 7 cut(s) 302, 535, 815, 1079, 1235, 1240, 1376
NcoI CCATGG 1 cut(s) 1031
NdeI CATATG 1 cut(s) 430
NdeII GATC 6 cut(s) 14, 289, 556, 574, 1006, 1432
NlaIII CATG 9 cut(s) 8, 251, 346, 538, 984, 1035, 1128, 1273, 1523
NlaIV GGNNCC 4 cut(s) 268, 1217, 1363, 1471
NmuCI GTSAC 2 cut(s) 54, 399
NsbI TGCGCA 1 cut(s) 143
NsiI ATGCAT 1 cut(s) 6
NspI RCATGY 1 cut(s) 984
OliI CACNNNNGTG 3 cut(s) 672, 674, 861
PaqCI CACCTGC 1 cut(s) 587
PciI ACATGT 1 cut(s) 980
PctI GAATGC 1 cut(s) 378
PdmI GAANNNNTTC 1 cut(s) 872
PfeI GAWTC 3 cut(s) 321, 779, 1426
PflMI CCANNNNNTGG 1 cut(s) 566
PkrI GCNGC 3 cut(s) 820, 989, 1019
PleI GAGTC 2 cut(s) 152, 442
PpsI GAGTC 2 cut(s) 152, 442
PscI ACATGT 1 cut(s) 980
PsiI TTATAA 1 cut(s) 759
Psp6I CCWGG 1 cut(s) 1384
PspFI CCCAGC 1 cut(s) 120
PspGI CCWGG 1 cut(s) 1384
PspN4I GGNNCC 4 cut(s) 268, 1217, 1363, 1471
PspPI GGNCC 2 cut(s) 1187, 1377
PsuI RGATCY 5 cut(s) 14, 289, 556, 574, 1006
RsaI GTAC 7 cut(s) 106, 234, 240, 357, 1129, 1483, 1518
RsaNI GTAC 7 cut(s) 105, 233, 239, 356, 1128, 1482, 1517
RseI CAYNNNNRTG 5 cut(s) 9, 672, 674, 861, 1268
Rsr2I CGGWCCG 1 cut(s) 1187
RsrII CGGWCCG 1 cut(s) 1187
SalI GTCGAC 1 cut(s) 517
SaqAI TTAA 6 cut(s) 368, 416, 453, 588, 1023, 1119
SatI GCNGC 3 cut(s) 819, 988, 1018
Sau3AI GATC 6 cut(s) 14, 289, 556, 574, 1006, 1432
Sau96I GGNCC 2 cut(s) 1187, 1377
SchI GAGTC 2 cut(s) 152, 443
ScrFI CCNGG 1 cut(s) 1386
SduI GDGCHC 1 cut(s) 129
SfaNI GCATC 1 cut(s) 1042
SinI GGWCC 1 cut(s) 1187
SmiMI CAYNNNNRTG 5 cut(s) 9, 672, 674, 861, 1268
SpeI ACTAGT 2 cut(s) 671, 893
SsiI CCGC 3 cut(s) 20, 807, 1185
SspMI CTAG 4 cut(s) 672, 894, 1101, 1543
StyD4I CCNGG 1 cut(s) 1384
StyI CCWWGG 3 cut(s) 270, 1031, 1473
TaaI ACNGT 9 cut(s) 280, 445, 516, 652, 831, 863, 948, 1282, 1486
TaiI ACGT 1 cut(s) 476
TaqI TCGA 3 cut(s) 132, 518, 1450
TatI WGTACW 5 cut(s) 104, 238, 1127, 1481, 1516
TfiI GAWTC 3 cut(s) 321, 779, 1426
Tru1I TTAA 6 cut(s) 368, 416, 453, 588, 1023, 1119
Tru9I TTAA 6 cut(s) 368, 416, 453, 588, 1023, 1119
TscAI CASTG 5 cut(s) 48, 465, 640, 868, 1285
TseFI GTSAC 2 cut(s) 54, 399
TseI GCWGC 3 cut(s) 818, 987, 1017
Tsp45I GTSAC 2 cut(s) 54, 399
TspDTI ATGAA 8 cut(s) 21, 53, 300, 326, 523, 957, 1242, 1289
TspGWI ACGGA 2 cut(s) 514, 1059
TspRI CASTG 5 cut(s) 48, 465, 640, 868, 1285
Van91I CCANNNNNTGG 1 cut(s) 566
VpaK11BI GGWCC 1 cut(s) 1187
XapI RAATTY 3 cut(s) 836, 881, 1172
XceI RCATGY 1 cut(s) 984
XmiI GTMKAC 2 cut(s) 518, 662
XmnI GAANNNNTTC 1 cut(s) 872
XspI CTAG 4 cut(s) 672, 894, 1101, 1543
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.