Rroxscaffold_1G00036730

Protein TRANSPARENT TESTA

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0014106
Physical Location & Seq
Forward (+)
53612849 .. 53628046
15198 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00036730.1

Sequence Viewer

Length: 1251 bp
ATGGCAACGATGGAACCCACCTACCAAGTACGTGGTGGGTCACCTTGGCTTATCCGATCGTGTGATGATCCTTCCCAGCTGGCTTATGATATAAATGTGGAAATAATAGCAACAAGTAAGTGTAGCAATCATCACATCGTAAGTGCGGCAATTATTACGACATTAAGTATGTCAATGATTGTAGCCATAAGTGGTGATAATTATAGGAATAAATACGGTATTAATGGTTACTTGCCATGCAAGTTTACTTGCAGCTCAAGCTGTAATGCACCTATAAATAGGGGGCAAAACGACCAGAAAACTATCGGAAGTGTTCGGCTTTGGTTGGCAAGAGAAGTAGGAGGTCGGTTATTACGGTGGCCTGGTTCGACCTACGATTGGTGGAAGTACGGCTCTATTAGTCATGGTGGCTGGAATTGGGAATGGTTCGGGAGCGGACGTTTTATTCGCCTCAAGCCTTCAAATATGAGGACAGGCTGTGCTGTAAGGTTTACCGATACAAAGCCGGTGAAAAGAGAAGATATTGGGGTACAGAGAGAGGGTTTCGGAGTGAAAGGGGAGCAGATAGAGAAGGTTACAGTGGCACTGCACATTGGACTGCCTAATAGCACAACTGCAGATGATGAGAAGAATCATCCAAATGATGTCAAGGAAGAAGACGTAGTACTACCAATAACCAAGAATAGATTTAACGCCAATGGATGCTCTGCGACAGAGAGTAGGTTTTGGATACCGACGCCTGCTCAGATTCTTGTTGGGCCGATGCAGTTTGCTTGTTCCATTTGCAGCAAGACCTTCAATAGATACAACAACATGCAGATGCATATGTGGGGCCACGGATCTGAATTTAGGAAAGGGCCAGATTCTCTAAAAGGAACACAACCAGCCGCAATGCTGAGGCTACCATGCTACTGTTGTGCTCAGGGCTGCAAGAACAATATCAACCATCCAAGAGCCAAGCCACTCAAAGACTTCAGAACTCTCCAAACTCACTACAAGAGAAAGCATGGAGCTAAGCCATTTATGTGCAGAAAATGCGGCAAAACATTTGCAGTCAAAGGTGATTGGAGAACACATGAAAAGAACTGCGGCAAGTTGTGGTATTGCAGCTGTGGATCGGATTTCAAACACAAAAGATCGCTCAAAGACCACATCAGGTCCTTCGGAAAAGGGCATTCTCCACGTCCTTGTGTCGATGGTTTTCATGAGGATGATCAGAAGGAATGCATTACTGGTTCTGAGGATGAGTGA

Protein Analysis

416

Amino Acids

46.94

Weight (kDa)

9.24

Isoelectric Point (pI)

41.19

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-C2H2_STOP2_3rd PF23115 303 - 337 6.3e-19 STOP2-like, C2H2-type zinc finger
C2CH-3rd_BIRD-IDD PF22995 340 - 364 9.4e-12 BIRD-IDD transcription factor, third C2HC zinc finger
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: OG0014106)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G08290
fragaria_vesca FvH4_3g24680
malus_domestica MD03G1142800.v1.1 MD11G1163100.v1.1
prunus_persica Prupe.6G127700_v2.0.a1
pyrus_communis pycom03g09720 pycom11g13450
rosa_chinensis RchiOBHm_Chr5g0044241
rosa_laevigata RLG00000034258
rosa_multiflora Rmu_sc0000776.1_g000055
rosa_roxburghii Rroxscaffold_1G00036730
rosa_rugosa Rorug05G0212900
rosa_samantha Rh5AG297100 Rh5BG304500 Rh5CG331400 Rh5DG313400
rosa_wichuraiana Rw5G027510

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 435
AciI CCGC 5 cut(s) 146, 435, 888, 1038, 1089
AclWI GGATC 3 cut(s) 62, 847, 1123
AcsI RAATTY 1 cut(s) 845
AcuI CTGAAG 1 cut(s) 958
AcyI GRCGYC 1 cut(s) 737
AfaI GTAC 4 cut(s) 30, 389, 531, 666
AfiI CCNNNNNNNGG 1 cut(s) 378
AgsI TTSAA 3 cut(s) 462, 799, 1126
AjiI CACGTC 1 cut(s) 1184
AjnI CCWGG 1 cut(s) 361
AluBI AGCT 5 cut(s) 79, 255, 261, 1013, 1110
AluI AGCT 5 cut(s) 79, 255, 261, 1013, 1110
Alw21I GWGCWC 1 cut(s) 922
AlwI GGATC 3 cut(s) 62, 847, 1123
AoxI GGCC 4 cut(s) 359, 758, 832, 857
ApeKI GCWGC 4 cut(s) 252, 786, 927, 1107
ApoI RAATTY 1 cut(s) 845
ArsI GACNNNNNNTTYG 2 cut(s) 429, 461
AseI ATTAAT 1 cut(s) 222
AspS9I GGNCC 4 cut(s) 758, 832, 857, 1158
AsuHPI GGTGA 4 cut(s) 33, 206, 520, 1073
AvaII GGWCC 1 cut(s) 1158
BarI GAAGNNNNNNTAC 2 cut(s) 648, 680
BbsI GAAGAC 1 cut(s) 663
Bbv12I GWGCWC 1 cut(s) 922
BbvCI CCTCAGC 1 cut(s) 896
BbvI GCAGC 4 cut(s) 264, 798, 914, 1119
BccI CCATC 3 cut(s) 4, 954, 1190
BceAI ACGGC 1 cut(s) 406
BciT130I CCWGG 1 cut(s) 363
BciVI GTATCC 1 cut(s) 723
BclI TGATCA 1 cut(s) 1213
BfmI CTRYAG 1 cut(s) 615
BfuI GTATCC 1 cut(s) 723
BisI GCNGC 8 cut(s) 147, 253, 787, 888, 928, 1039, 1090, 1108
BlpI GCTNAGC 1 cut(s) 1014
BlsI GCNGC 8 cut(s) 148, 254, 788, 889, 929, 1040, 1091, 1109
BmcAI AGTACT 1 cut(s) 666
Bme1390I CCNGG 1 cut(s) 363
Bme18I GGWCC 1 cut(s) 1158
BmgBI CACGTC 1 cut(s) 1184
BmgT120I GGNCC 4 cut(s) 758, 832, 857, 1158
BmiI GGNNCC 2 cut(s) 15, 833
BmrFI CCNGG 1 cut(s) 363
BmsI GCATC 3 cut(s) 692, 753, 810
BpiI GAAGAC 1 cut(s) 663
Bpu10I CCTNAGC 2 cut(s) 896, 921
Bpu1102I GCTNAGC 1 cut(s) 1014
BpuEI CTTGAG 2 cut(s) 241, 437
BsaAI YACGTR 1 cut(s) 32
BsaHI GRCGYC 1 cut(s) 737
BsaJI CCNNGG 2 cut(s) 44, 835
BsaXI ACNNNNNCTCC 2 cut(s) 424, 454
Bsc4I CCNNNNNNNGG 1 cut(s) 378
Bse118I RCCGGY 1 cut(s) 505
Bse1I ACTGG 1 cut(s) 1237
Bse3DI GCAATG 1 cut(s) 897
BseBI CCWGG 1 cut(s) 363
BseDI CCNNGG 2 cut(s) 44, 835
BseGI GGATG 5 cut(s) 634, 707, 946, 1216, 1249
BseLI CCNNNNNNNGG 1 cut(s) 378
BseMI GCAATG 1 cut(s) 897
BseMII CTCAG 4 cut(s) 758, 887, 935, 1230
BseNI ACTGG 1 cut(s) 1237
BseXI GCAGC 4 cut(s) 264, 798, 914, 1119
BseYI CCCAGC 1 cut(s) 75
BsgI GTGCAG 2 cut(s) 572, 1048
Bsh1285I CGRYCG 1 cut(s) 59
BshFI GGCC 4 cut(s) 361, 760, 834, 859
BsiEI CGRYCG 1 cut(s) 59
BsiHKAI GWGCWC 1 cut(s) 922
BsiSI CCGG 1 cut(s) 506
BslI CCNNNNNNNGG 1 cut(s) 378
BsmI GAATGC 2 cut(s) 1174, 1229
BsnI GGCC 4 cut(s) 361, 760, 834, 859
Bsp1286I GDGCHC 1 cut(s) 922
Bsp143I GATC 6 cut(s) 56, 67, 839, 1115, 1136, 1213
Bsp1720I GCTNAGC 1 cut(s) 1014
BspACI CCGC 5 cut(s) 146, 435, 888, 1038, 1089
BspANI GGCC 4 cut(s) 361, 760, 834, 859
BspCNI CTCAG 4 cut(s) 757, 888, 934, 1231
BspHI TCATGA 1 cut(s) 1204
BspLI GGNNCC 2 cut(s) 15, 833
BspMAI CTGCAG 1 cut(s) 619
BspPI GGATC 3 cut(s) 62, 847, 1123
BsrBI CCGCTC 1 cut(s) 435
BsrDI GCAATG 1 cut(s) 897
BsrFI RCCGGY 1 cut(s) 505
BsrI ACTGG 1 cut(s) 1237
BssAI RCCGGY 1 cut(s) 505
BssECI CCNNGG 2 cut(s) 44, 835
BssMI GATC 6 cut(s) 56, 67, 839, 1115, 1136, 1213
BssNI GRCGYC 1 cut(s) 737
BssT1I CCWWGG 1 cut(s) 44
Bst2UI CCWGG 1 cut(s) 363
Bst4CI ACNGT 4 cut(s) 218, 357, 580, 914
BstACI GRCGYC 1 cut(s) 737
BstAPI GCANNNNNTGC 1 cut(s) 1035
BstBAI YACGTR 1 cut(s) 32
BstC8I GCNNGC 2 cut(s) 81, 741
BstDEI CTNAG 5 cut(s) 744, 896, 921, 1014, 1239
BstDSI CCRYGG 1 cut(s) 835
BstEII GGTNACC 1 cut(s) 39
BstF5I GGATG 5 cut(s) 634, 707, 946, 1216, 1249
BstKTI GATC 6 cut(s) 59, 70, 842, 1118, 1139, 1216
BstMBI GATC 6 cut(s) 56, 67, 839, 1115, 1136, 1213
BstMCI CGRYCG 1 cut(s) 59
BstMWI GCNNNNNNNGC 2 cut(s) 258, 1035
BstNI CCWGG 1 cut(s) 363
BstNSI RCATGY 1 cut(s) 817
BstPI GGTNACC 1 cut(s) 39
BstSCI CCNGG 1 cut(s) 361
BstSFI CTRYAG 1 cut(s) 615
BstV1I GCAGC 4 cut(s) 264, 798, 914, 1119
BstV2I GAAGAC 1 cut(s) 663
BstX2I RGATCY 1 cut(s) 839
BstXI CCANNNNNNTGG 1 cut(s) 32
BstYI RGATCY 1 cut(s) 839
BsuI GTATCC 1 cut(s) 723
BsuRI GGCC 4 cut(s) 361, 760, 834, 859
BtgI CCRYGG 1 cut(s) 835
BtrI CACGTC 1 cut(s) 1184
BtsCI GGATG 5 cut(s) 634, 707, 946, 1216, 1249
BtsI GCAGTG 1 cut(s) 584
BtsIMutI CAGTG 2 cut(s) 584, 585
Cac8I GCNNGC 2 cut(s) 81, 741
CciI TCATGA 1 cut(s) 1204
Cfr10I RCCGGY 1 cut(s) 505
Cfr13I GGNCC 4 cut(s) 758, 832, 857, 1158
CseI GACGC 1 cut(s) 745
Csp6I GTAC 4 cut(s) 29, 388, 530, 665
CviAII CATG 7 cut(s) 237, 404, 814, 906, 1007, 1076, 1205
CviQI GTAC 4 cut(s) 29, 388, 530, 665
DdeI CTNAG 5 cut(s) 744, 896, 921, 1014, 1239
DpnI GATC 6 cut(s) 58, 69, 841, 1117, 1138, 1215
DpnII GATC 6 cut(s) 56, 67, 839, 1115, 1136, 1213
Eco130I CCWWGG 1 cut(s) 44
Eco47I GGWCC 1 cut(s) 1158
Eco57I CTGAAG 1 cut(s) 958
Eco91I GGTNACC 1 cut(s) 39
EcoO109I RGGNCCY 1 cut(s) 1158
EcoO65I GGTNACC 1 cut(s) 39
EcoRII CCWGG 1 cut(s) 361
EcoT14I CCWWGG 1 cut(s) 44
EcoT22I ATGCAT 2 cut(s) 825, 1229
ErhI CCWWGG 1 cut(s) 44
FaeI CATG 7 cut(s) 240, 407, 817, 909, 1010, 1079, 1208
FatI CATG 7 cut(s) 236, 403, 813, 905, 1006, 1075, 1204
FauNDI CATATG 1 cut(s) 825
FbaI TGATCA 1 cut(s) 1213
Fnu4HI GCNGC 8 cut(s) 147, 253, 787, 888, 928, 1039, 1090, 1108
FokI GGATG 4 cut(s) 621, 714, 933, 1223
Fsp4HI GCNGC 8 cut(s) 147, 253, 787, 888, 928, 1039, 1090, 1108
GluI GCNGC 8 cut(s) 147, 253, 787, 888, 928, 1039, 1090, 1108
GsaI CCCAGC 1 cut(s) 79
HaeIII GGCC 4 cut(s) 361, 760, 834, 859
HapII CCGG 1 cut(s) 506
HgaI GACGC 1 cut(s) 745
Hin1I GRCGYC 1 cut(s) 737
Hin1II CATG 7 cut(s) 240, 407, 817, 909, 1010, 1079, 1208
HinfI GANTC 3 cut(s) 631, 748, 863
HpaII CCGG 1 cut(s) 506
HphI GGTGA 4 cut(s) 33, 206, 520, 1073
Hpy166II GTNNAC 2 cut(s) 246, 492
Hpy188III TCNNGA 2 cut(s) 430, 1205
Hpy8I GTNNAC 2 cut(s) 246, 492
Hpy99I CGWCG 1 cut(s) 739
HpyAV CCTTC 6 cut(s) 81, 468, 565, 805, 1171, 1213
HpyCH4III ACNGT 4 cut(s) 218, 357, 580, 914
HpyCH4IV ACGT 4 cut(s) 31, 439, 660, 1183
HpyF10VI GCNNNNNNNGC 2 cut(s) 258, 1035
HpyF3I CTNAG 5 cut(s) 744, 896, 921, 1014, 1239
HpySE526I ACGT 4 cut(s) 31, 439, 660, 1183
Hsp92I GRCGYC 1 cut(s) 737
Hsp92II CATG 7 cut(s) 240, 407, 817, 909, 1010, 1079, 1208
Ksp22I TGATCA 1 cut(s) 1213
Kzo9I GATC 6 cut(s) 56, 67, 839, 1115, 1136, 1213
LmnI GCTCC 3 cut(s) 432, 559, 1010
Lsp1109I GCAGC 4 cut(s) 264, 798, 914, 1119
LweI GCATC 3 cut(s) 692, 753, 810
MaeII ACGT 4 cut(s) 31, 439, 660, 1183
MaeIII GTNAC 3 cut(s) 39, 227, 574
MalI GATC 6 cut(s) 58, 69, 841, 1117, 1138, 1215
MbiI CCGCTC 1 cut(s) 435
MboI GATC 6 cut(s) 56, 67, 839, 1115, 1136, 1213
MboII GAAGA 4 cut(s) 530, 640, 665, 668
MflI RGATCY 1 cut(s) 839
MhlI GDGCHC 1 cut(s) 922
MluCI AATT 4 cut(s) 150, 199, 415, 845
MnlI CCTC 7 cut(s) 335, 461, 462, 532, 891, 1201, 1234
Mph1103I ATGCAT 2 cut(s) 825, 1229
MseI TTAA 3 cut(s) 164, 222, 690
MslI CAYNNNNRTG 4 cut(s) 639, 818, 1024, 1209
MspA1I CMGCKG 2 cut(s) 79, 1110
MspI CCGG 1 cut(s) 506
MspR9I CCNGG 1 cut(s) 363
Mva1269I GAATGC 2 cut(s) 1174, 1229
MvaI CCWGG 1 cut(s) 363
MwoI GCNNNNNNNGC 2 cut(s) 258, 1035
NdeI CATATG 1 cut(s) 825
NdeII GATC 6 cut(s) 56, 67, 839, 1115, 1136, 1213
NlaIII CATG 7 cut(s) 240, 407, 817, 909, 1010, 1079, 1208
NlaIV GGNNCC 2 cut(s) 15, 833
NmuCI GTSAC 1 cut(s) 39
NsiI ATGCAT 2 cut(s) 825, 1229
NspI RCATGY 1 cut(s) 817
PagI TCATGA 1 cut(s) 1204
PctI GAATGC 2 cut(s) 1174, 1229
PfeI GAWTC 3 cut(s) 631, 748, 863
PkrI GCNGC 8 cut(s) 148, 254, 788, 889, 929, 1040, 1091, 1109
Ple19I CGATCG 1 cut(s) 59
Ppu21I YACGTR 1 cut(s) 32
PpuMI RGGWCCY 1 cut(s) 1158
PshBI ATTAAT 1 cut(s) 222
Psp5II RGGWCCY 1 cut(s) 1158
Psp6I CCWGG 1 cut(s) 361
PspEI GGTNACC 1 cut(s) 39
PspFI CCCAGC 1 cut(s) 75
PspGI CCWGG 1 cut(s) 361
PspN4I GGNNCC 2 cut(s) 15, 833
PspPI GGNCC 4 cut(s) 758, 832, 857, 1158
PspPPI RGGWCCY 1 cut(s) 1158
PstI CTGCAG 1 cut(s) 619
PsuI RGATCY 1 cut(s) 839
PvuI CGATCG 1 cut(s) 59
PvuII CAGCTG 2 cut(s) 79, 1110
RsaI GTAC 4 cut(s) 30, 389, 531, 666
RsaNI GTAC 4 cut(s) 29, 388, 530, 665
RseI CAYNNNNRTG 4 cut(s) 639, 818, 1024, 1209
SaqAI TTAA 3 cut(s) 164, 222, 690
SatI GCNGC 8 cut(s) 147, 253, 787, 888, 928, 1039, 1090, 1108
Sau3AI GATC 6 cut(s) 56, 67, 839, 1115, 1136, 1213
Sau96I GGNCC 4 cut(s) 758, 832, 857, 1158
ScaI AGTACT 1 cut(s) 666
ScrFI CCNGG 1 cut(s) 363
SduI GDGCHC 1 cut(s) 922
SfaNI GCATC 3 cut(s) 692, 753, 810
SfcI CTRYAG 1 cut(s) 615
SinI GGWCC 1 cut(s) 1158
SmiMI CAYNNNNRTG 4 cut(s) 639, 818, 1024, 1209
SmlI CTYRAG 2 cut(s) 256, 452
SmoI CTYRAG 2 cut(s) 256, 452
Sse9I AATT 4 cut(s) 150, 199, 415, 845
SsiI CCGC 5 cut(s) 146, 435, 888, 1038, 1089
StyD4I CCNGG 1 cut(s) 361
StyI CCWWGG 1 cut(s) 44
TaaI ACNGT 4 cut(s) 218, 357, 580, 914
TaiI ACGT 4 cut(s) 34, 442, 663, 1186
TaqI TCGA 2 cut(s) 368, 1194
TasI AATT 4 cut(s) 150, 199, 415, 845
TatI WGTACW 1 cut(s) 664
TauI GCSGC 4 cut(s) 149, 890, 1041, 1092
TfiI GAWTC 3 cut(s) 631, 748, 863
Tru1I TTAA 3 cut(s) 164, 222, 690
Tru9I TTAA 3 cut(s) 164, 222, 690
TscAI CASTG 2 cut(s) 585, 591
TseFI GTSAC 1 cut(s) 39
TseI GCWGC 4 cut(s) 252, 786, 927, 1107
Tsp45I GTSAC 1 cut(s) 39
TspDTI ATGAA 2 cut(s) 1092, 1193
TspGWI ACGGA 1 cut(s) 852
TspRI CASTG 2 cut(s) 585, 591
VpaK11BI GGWCC 1 cut(s) 1158
VspI ATTAAT 1 cut(s) 222
XapI RAATTY 1 cut(s) 845
XceI RCATGY 1 cut(s) 817
XcmI CCANNNNNNNNNTGG 1 cut(s) 32
ZrmI AGTACT 1 cut(s) 666
Zsp2I ATGCAT 2 cut(s) 825, 1229
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.