Rw3G028520

Belongs to the CTL (choline transporter-like) family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr3
OG0004978
Physical Location & Seq
Forward (+)
42734869 .. 42736829
1961 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw3G028520.1

Sequence Viewer

Length: 1305 bp
ATGCCCAATCCATTGTCCGGGAGAAAGCCCAGCTGCTTGACGAGGGTGTCACCGAATAAAAACTGGCGTAGCTCCATTCAATATCCAAGTACGGCGGGGGAATTTGTCATGAGGCTCTTCACATTTCTTTTCTCCTTGCACCTAGTCTTGATCGCCTTCTTGGTAATCTTTCTGACAGTTTACGGTCTCATTTCCACCAATCACAAGCACCATTTCCACCCACTACAGTTCTATGCTCCACTGCTCACTTCAACACTCTGCTCTGCAATTGTCGCTTTAATATGGCAATGGGTCACCAGGTTAAGCCCTTCGAAAGCCATTAAAACAGCCTTTTGGCTCAGCCCCTTGCTAACCTGCGCAGTTGGTGTACTTCTCATATCTATAAGTTCTGCTGGGAGTTTGGTTGCAGGTGGGGTTGCAATCATCTGTGCGCTCATTCAATCGCTGTATGCCTGCTGGGATATTATCTGTTTCTACAGCTGTCCCTCCTCCCAAAATCCAACATTACTCATTCTATCAATTTTTACCTGTATCCTCTACCTCTCTTTCTTGGTATCCGGCATCGGAGGAGCCACTGCCATAAGAAGCAGCTTTAGTGTCCTGTTTATCTCGGTTATCTTGCCGAGCATGGCATGGACTATGCATCTCATCAAGAACCTGCTGCTAGTCACAATTTCACGCATCAAGTACATGCACTTTGCATGCGGAGAAGATGTTGACACAAGTGAGGCTTTCTGCAACACACTTAAGCACTCAATGGGGAGTATCTGCATTGGCTCCATCTTGGTTCCAGTTCTCGGAGTTATTCGGGGGTCAGCCAGAGGCATGAAATTGGTTGCAGGGGATACAGACGAGTTTCTATTTTCATGCGCCAACTGCTATTCAGGACTGGCTTCGACTCTGGTAATGTATGGGAATCGCTGGGGTTTTGTGCATGTTGGAGTCTATAACAAGGGCTTTGTGCAGGCATCAGCTGATACATGGGAGATGTTCAGGAATATAGAACTAAGAGAAATAATCGACTTAGATCTCACTACATCGTTCTGTTTTCTTTCTGGGGTGGTCGGAGGTGCAATATGTAGCCTAGTCAGTGGAACTTGGACTCTTGCAATTCATAAGAGTTATGCTACTGAAGTCTCCTTATATGCATTCTTGATTGGCTATTTCATGTGCAGGATTGCTGTGGCATGGCCACAAGCATGTGTTTTGTCTTACTACGTAGCTTATGCAGAGAACCCTAATAGCACGCGATTTGACTCAACACTTCCTGTTCGCATTGAAGAGCTTCGGAGATTTCAAGCTTAA
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
Choline_transpo

Protein Analysis

434

Amino Acids

47.81

Weight (kDa)

8.71

Isoelectric Point (pI)

46.72

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Choline_transpo PF04515 143 - 413 1.3e-22 Plasma-membrane choline transporter
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 398
AasI GACNNNNNNGTC 1 cut(s) 46
Acc16I TGCGCA 1 cut(s) 358
Acc36I ACCTGC 3 cut(s) 362, 398, 666
AccII CGCG 1 cut(s) 1249
AciI CCGC 2 cut(s) 95, 705
AcoI YGGCCR 1 cut(s) 1190
AcsI RAATTY 1 cut(s) 101
AcuI CTGAAG 1 cut(s) 1152
AfaI GTAC 3 cut(s) 91, 369, 689
AfiI CCNNNNNNNGG 2 cut(s) 17, 797
AflII CTTAAG 1 cut(s) 746
AgsI TTSAA 5 cut(s) 80, 252, 440, 1280, 1298
AjnI CCWGG 1 cut(s) 296
AluBI AGCT 8 cut(s) 33, 72, 480, 591, 974, 1223, 1285, 1301
AluI AGCT 8 cut(s) 33, 72, 480, 591, 974, 1223, 1285, 1301
Alw26I GTCTC 2 cut(s) 191, 1141
AoxI GGCC 1 cut(s) 1190
ApeKI GCWGC 3 cut(s) 33, 588, 661
ApoI RAATTY 1 cut(s) 101
Asp700I GAANNNNTTC 1 cut(s) 1284
AspLEI GCGC 3 cut(s) 359, 433, 872
AsuC2I CCSGG 1 cut(s) 19
AsuHPI GGTGA 2 cut(s) 42, 286
AsuII TTCGAA 1 cut(s) 311
BalI TGGCCA 1 cut(s) 1192
BbvI GCAGC 3 cut(s) 20, 600, 648
BccI CCATC 1 cut(s) 788
BceAI ACGGC 1 cut(s) 108
BciT130I CCWGG 1 cut(s) 298
BciVI GTATCC 3 cut(s) 542, 565, 838
BcnI CCSGG 1 cut(s) 19
BcoDI GTCTC 2 cut(s) 191, 1141
BfaI CTAG 3 cut(s) 143, 665, 1085
BfmI CTRYAG 2 cut(s) 224, 475
BfrI CTTAAG 1 cut(s) 746
BfuAI ACCTGC 3 cut(s) 362, 398, 666
BfuI GTATCC 3 cut(s) 542, 565, 838
BglII AGATCT 1 cut(s) 1027
BisI GCNGC 3 cut(s) 34, 589, 662
BlpI GCTNAGC 1 cut(s) 338
BlsI GCNGC 3 cut(s) 35, 590, 663
Bme1390I CCNGG 2 cut(s) 19, 298
BmiI GGNNCC 3 cut(s) 571, 778, 789
BmrFI CCNGG 2 cut(s) 19, 298
BmsI GCATC 4 cut(s) 570, 652, 690, 977
Bpu1102I GCTNAGC 1 cut(s) 338
Bpu14I TTCGAA 1 cut(s) 311
BpuMI CCSGG 1 cut(s) 19
BsaAI YACGTR 1 cut(s) 1219
BsaI GGTCTC 1 cut(s) 191
BsaXI ACNNNNNCTCC 2 cut(s) 699, 729
Bsc4I CCNNNNNNNGG 2 cut(s) 17, 797
Bse1I ACTGG 3 cut(s) 68, 791, 894
Bse3DI GCAATG 1 cut(s) 293
BseBI CCWGG 1 cut(s) 298
BseLI CCNNNNNNNGG 2 cut(s) 17, 797
BseMI GCAATG 1 cut(s) 293
BseMII CTCAG 1 cut(s) 352
BseNI ACTGG 3 cut(s) 68, 791, 894
BseRI GAGGAG 2 cut(s) 478, 582
BseXI GCAGC 3 cut(s) 20, 600, 648
BseYI CCCAGC 4 cut(s) 29, 392, 456, 921
BsgI GTGCAG 2 cut(s) 983, 1192
Bsh1236I CGCG 1 cut(s) 1249
BshFI GGCC 1 cut(s) 1192
BsiSI CCGG 2 cut(s) 18, 558
BslFI GGGAC 1 cut(s) 468
BslI CCNNNNNNNGG 2 cut(s) 17, 797
BsmAI GTCTC 2 cut(s) 191, 1141
BsmFI GGGAC 1 cut(s) 468
BsmI GAATGC 1 cut(s) 1148
BsnI GGCC 1 cut(s) 1192
Bso31I GGTCTC 1 cut(s) 191
Bsp119I TTCGAA 1 cut(s) 311
Bsp143I GATC 2 cut(s) 150, 1027
Bsp1720I GCTNAGC 1 cut(s) 338
BspACI CCGC 2 cut(s) 95, 705
BspANI GGCC 1 cut(s) 1192
BspCNI CTCAG 1 cut(s) 351
BspFNI CGCG 1 cut(s) 1249
BspHI TCATGA 1 cut(s) 108
BspLI GGNNCC 3 cut(s) 571, 778, 789
BspMI ACCTGC 3 cut(s) 362, 398, 666
BspQI GCTCTTC 2 cut(s) 122, 1275
BspT104I TTCGAA 1 cut(s) 311
BspTI CTTAAG 1 cut(s) 746
BspTNI GGTCTC 1 cut(s) 191
BsrDI GCAATG 1 cut(s) 293
BsrI ACTGG 3 cut(s) 68, 791, 894
BssMI GATC 2 cut(s) 150, 1027
Bst2UI CCWGG 1 cut(s) 298
Bst4CI ACNGT 3 cut(s) 178, 185, 228
Bst6I CTCTTC 2 cut(s) 122, 1275
BstAFI CTTAAG 1 cut(s) 746
BstBAI YACGTR 1 cut(s) 1219
BstBI TTCGAA 1 cut(s) 311
BstC8I GCNNGC 4 cut(s) 454, 703, 966, 1247
BstDEI CTNAG 3 cut(s) 338, 1007, 1024
BstEII GGTNACC 1 cut(s) 292
BstFNI CGCG 1 cut(s) 1249
BstHHI GCGC 3 cut(s) 359, 433, 872
BstKTI GATC 2 cut(s) 153, 1030
BstMAI GTCTC 2 cut(s) 191, 1141
BstMBI GATC 2 cut(s) 150, 1027
BstMWI GCNNNNNNNGC 2 cut(s) 272, 876
BstNI CCWGG 1 cut(s) 298
BstNSI RCATGY 4 cut(s) 694, 705, 938, 1203
BstPI GGTNACC 1 cut(s) 292
BstSCI CCNGG 2 cut(s) 17, 296
BstSFI CTRYAG 2 cut(s) 224, 475
BstSNI TACGTA 1 cut(s) 1219
BstUI CGCG 1 cut(s) 1249
BstV1I GCAGC 3 cut(s) 20, 600, 648
BstX2I RGATCY 1 cut(s) 1027
BstYI RGATCY 1 cut(s) 1027
BsuI GTATCC 3 cut(s) 542, 565, 838
BsuRI GGCC 1 cut(s) 1192
BtsI GCAGTG 2 cut(s) 239, 573
BtsIMutI CAGTG 3 cut(s) 239, 573, 1096
BveI ACCTGC 3 cut(s) 362, 398, 666
Cac8I GCNNGC 4 cut(s) 454, 703, 966, 1247
CciI TCATGA 1 cut(s) 108
CfoI GCGC 3 cut(s) 359, 433, 872
CsiI ACCWGGT 1 cut(s) 296
Csp6I GTAC 3 cut(s) 90, 368, 688
CviQI GTAC 3 cut(s) 90, 368, 688
DdeI CTNAG 3 cut(s) 338, 1007, 1024
DpnI GATC 2 cut(s) 152, 1029
DpnII GATC 2 cut(s) 150, 1027
DrdI GACNNNNNNGTC 1 cut(s) 46
DseDI GACNNNNNNGTC 1 cut(s) 46
EaeI YGGCCR 1 cut(s) 1190
Eam1104I CTCTTC 2 cut(s) 122, 1275
EarI CTCTTC 2 cut(s) 122, 1275
Eco105I TACGTA 1 cut(s) 1219
Eco31I GGTCTC 1 cut(s) 191
Eco57I CTGAAG 1 cut(s) 1152
Eco91I GGTNACC 1 cut(s) 292
EcoO65I GGTNACC 1 cut(s) 292
EcoRII CCWGG 1 cut(s) 296
EcoT22I ATGCAT 2 cut(s) 645, 1150
FalI AAGNNNNNCTT 2 cut(s) 715, 747
FaqI GGGAC 1 cut(s) 468
FauI CCCGC 1 cut(s) 88
Fnu4HI GCNGC 3 cut(s) 34, 589, 662
Fsp4HI GCNGC 3 cut(s) 34, 589, 662
FspBI CTAG 3 cut(s) 143, 665, 1085
FspI TGCGCA 1 cut(s) 358
GlaI GCGC 3 cut(s) 358, 432, 871
GluI GCNGC 3 cut(s) 34, 589, 662
GsaI CCCAGC 4 cut(s) 33, 396, 460, 925
HaeIII GGCC 1 cut(s) 1192
HapII CCGG 2 cut(s) 18, 558
HhaI GCGC 3 cut(s) 359, 433, 872
Hin6I GCGC 3 cut(s) 357, 431, 870
HinP1I GCGC 3 cut(s) 357, 431, 870
HincII GTYRAC 1 cut(s) 718
HindII GTYRAC 1 cut(s) 718
HindIII AAGCTT 1 cut(s) 1299
HinfI GANTC 5 cut(s) 898, 916, 942, 1102, 1256
HpaII CCGG 2 cut(s) 18, 558
HphI GGTGA 2 cut(s) 42, 286
Hpy166II GTNNAC 3 cut(s) 181, 368, 718
Hpy188I TCNGA 5 cut(s) 174, 566, 800, 1067, 1290
Hpy188III TCNNGA 6 cut(s) 109, 148, 652, 885, 994, 1153
Hpy8I GTNNAC 3 cut(s) 181, 368, 718
HpyAV CCTTC 2 cut(s) 166, 318
HpyCH4III ACNGT 3 cut(s) 178, 185, 228
HpyCH4IV ACGT 1 cut(s) 1218
HpyF10VI GCNNNNNNNGC 2 cut(s) 272, 876
HpyF3I CTNAG 3 cut(s) 338, 1007, 1024
HpySE526I ACGT 1 cut(s) 1218
HspAI GCGC 3 cut(s) 357, 431, 870
Kzo9I GATC 2 cut(s) 150, 1027
LguI GCTCTTC 2 cut(s) 122, 1275
LmnI GCTCC 4 cut(s) 77, 241, 569, 782
Lsp1109I GCAGC 3 cut(s) 20, 600, 648
LweI GCATC 4 cut(s) 570, 652, 690, 977
MabI ACCWGGT 1 cut(s) 296
MaeI CTAG 3 cut(s) 143, 665, 1085
MaeII ACGT 1 cut(s) 1218
MaeIII GTNAC 3 cut(s) 48, 292, 667
MalI GATC 2 cut(s) 152, 1029
MboI GATC 2 cut(s) 150, 1027
MboII GAAGA 3 cut(s) 109, 722, 1292
MfeI CAATTG 1 cut(s) 267
MflI RGATCY 1 cut(s) 1027
MlsI TGGCCA 1 cut(s) 1192
MluCI AATT 6 cut(s) 101, 267, 519, 672, 830, 1110
MluNI TGGCCA 1 cut(s) 1192
MlyI GAGTC 4 cut(s) 892, 951, 1096, 1250
MmeI TCCRAC 3 cut(s) 524, 919, 1045
Mox20I TGGCCA 1 cut(s) 1192
Mph1103I ATGCAT 2 cut(s) 645, 1150
MroXI GAANNNNTTC 1 cut(s) 1284
MscI TGGCCA 1 cut(s) 1192
MseI TTAA 5 cut(s) 278, 302, 321, 747, 1303
MslI CAYNNNNRTG 1 cut(s) 1198
Msp20I TGGCCA 1 cut(s) 1192
MspA1I CMGCKG 3 cut(s) 33, 480, 974
MspCI CTTAAG 1 cut(s) 746
MspI CCGG 2 cut(s) 18, 558
MspR9I CCNGG 2 cut(s) 19, 298
MunI CAATTG 1 cut(s) 267
Mva1269I GAATGC 1 cut(s) 1148
MvaI CCWGG 1 cut(s) 298
MvnI CGCG 1 cut(s) 1249
MwoI GCNNNNNNNGC 2 cut(s) 272, 876
NciI CCSGG 1 cut(s) 19
NdeII GATC 2 cut(s) 150, 1027
NlaIV GGNNCC 3 cut(s) 571, 778, 789
NmeAIII GCCGAG 1 cut(s) 648
NmuCI GTSAC 3 cut(s) 48, 292, 667
NsbI TGCGCA 1 cut(s) 358
NsiI ATGCAT 2 cut(s) 645, 1150
NspI RCATGY 4 cut(s) 694, 705, 938, 1203
NspV TTCGAA 1 cut(s) 311
PaeI GCATGC 1 cut(s) 705
PagI TCATGA 1 cut(s) 108
PaqCI CACCTGC 1 cut(s) 398
PciSI GCTCTTC 2 cut(s) 122, 1275
PctI GAATGC 1 cut(s) 1148
PdmI GAANNNNTTC 1 cut(s) 1284
PfeI GAWTC 1 cut(s) 916
PfoI TCCNGGA 1 cut(s) 17
PkrI GCNGC 3 cut(s) 35, 590, 663
PleI GAGTC 4 cut(s) 892, 950, 1096, 1250
PpsI GAGTC 4 cut(s) 892, 950, 1096, 1250
Ppu21I YACGTR 1 cut(s) 1219
Psp6I CCWGG 1 cut(s) 296
PspEI GGTNACC 1 cut(s) 292
PspFI CCCAGC 4 cut(s) 29, 392, 456, 921
PspGI CCWGG 1 cut(s) 296
PspN4I GGNNCC 3 cut(s) 571, 778, 789
PsuI RGATCY 1 cut(s) 1027
PvuII CAGCTG 3 cut(s) 33, 480, 974
RsaI GTAC 3 cut(s) 91, 369, 689
RsaNI GTAC 3 cut(s) 90, 368, 688
RseI CAYNNNNRTG 1 cut(s) 1198
SapI GCTCTTC 2 cut(s) 122, 1275
SaqAI TTAA 5 cut(s) 278, 302, 321, 747, 1303
SatI GCNGC 3 cut(s) 34, 589, 662
Sau3AI GATC 2 cut(s) 150, 1027
SchI GAGTC 4 cut(s) 892, 951, 1096, 1250
ScrFI CCNGG 2 cut(s) 19, 298
SexAI ACCWGGT 1 cut(s) 296
SfaNI GCATC 4 cut(s) 570, 652, 690, 977
SfcI CTRYAG 2 cut(s) 224, 475
SfuI TTCGAA 1 cut(s) 311
SmiMI CAYNNNNRTG 1 cut(s) 1198
SmlI CTYRAG 1 cut(s) 746
SmoI CTYRAG 1 cut(s) 746
SnaBI TACGTA 1 cut(s) 1219
SphI GCATGC 1 cut(s) 705
Sse9I AATT 6 cut(s) 101, 267, 519, 672, 830, 1110
SsiI CCGC 2 cut(s) 95, 705
SspMI CTAG 3 cut(s) 143, 665, 1085
StyD4I CCNGG 2 cut(s) 17, 296
TaaI ACNGT 3 cut(s) 178, 185, 228
TaiI ACGT 1 cut(s) 1221
TaqI TCGA 3 cut(s) 311, 896, 1020
TasI AATT 6 cut(s) 101, 267, 519, 672, 830, 1110
TatI WGTACW 2 cut(s) 367, 687
TfiI GAWTC 1 cut(s) 916
Tru1I TTAA 5 cut(s) 278, 302, 321, 747, 1303
Tru9I TTAA 5 cut(s) 278, 302, 321, 747, 1303
TscAI CASTG 3 cut(s) 246, 580, 1096
TseFI GTSAC 3 cut(s) 48, 292, 667
TseI GCWGC 3 cut(s) 33, 588, 661
Tsp45I GTSAC 3 cut(s) 48, 292, 667
TspDTI ATGAA 4 cut(s) 842, 855, 1103, 1156
TspRI CASTG 3 cut(s) 246, 580, 1096
Vha464I CTTAAG 1 cut(s) 746
XapI RAATTY 1 cut(s) 101
XceI RCATGY 4 cut(s) 694, 705, 938, 1203
XmnI GAANNNNTTC 1 cut(s) 1284
XspI CTAG 3 cut(s) 143, 665, 1085
Zsp2I ATGCAT 2 cut(s) 645, 1150
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.