Rroxscaffold_2G00087540

WSTF, HB1, Itc1p, MBD9 motif 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000989
Physical Location & Seq
Reverse (-)
9555216 .. 9559194
3979 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00087540.1

Sequence Viewer

Length: 1863 bp
ATGGCCGGAGTTCGTGTCGTCGGTGGCCGGATCTACGATTCCGAGAACGGAAAGACCTGTCACCAGTGCCGGCAGAAGACTAGGGATTTTGTGGCGTCGTGTAAGAATCTGAAGAAGAACGCTCGCTGCACCATTAGCTTTTGTCACAAATGCCTCTTGAACAGATATGGTGAGAAGGCTGAAGAGGTGGAGCTTTTGGAGGACTGGAATTGCCCAAAATGTAGGGGGAATTGTAATTGTAGTTTCTGCAGGAAGAAACAAGGCCTCAAACCCACTGGTCTTCTTGTTCACACGGCCAAGGAAGGTGGGTTTGGTTCTGTTTCGGAGATGTTGACTGCGAGAGGACCCGAGAATTTTGGTATTGAGAGGAAGGTTGCGGAGAAGGTGGCCGTCGATGAAAAGGAGAATTCTGTTGATCAAAAGGTTGAGGCCAGCCTGAATTCAACACAAAACCCTGAGGAGGGACAAGTCAAGAAAACAAAGAGGAAAGGATTGAAGGAAATCCGTAATGGCAGCAGAGATGAACCTAAAGTCTCTGAGGATGTTTCTGTAAAAGAGGTGATCCGTAATGGCAGCAGGGATGATCCTAAAGTCTCCAAGGATGTTGCTGTAAAAGAAGTGAAATCAAGAAAGAGAAAAAATAAAGATCGAAGAGAAGAAGCAGATGATGCGAAACTGCAAGGTGAAGAAGTTCAAAATGTTGTGAACAACAATGATGTCAAGAGGAAGAAAAAGGCCAAGGACAAGGTCAAGAGTGGCAAAGAGGCTTGCAGAGTCGAGGAATGCACCAAGAATATTCTGAACAAAGAAGTTGAGCTTCAGCTTCCTTTGCCTGAGGGCATTCCCTTAACAAGTGTCTTGGGAATTGAACTGCCTCCTGAGGATGCTGGAAACGCTCTGCAATTTTTGGAATTTTGTTCAGCTTTTGGAGAGGTTCTCAAATTCAAAAAAGCACAGGCTGAATCTATACTTGGTGAATTACTGCGCCAACGAAGTGGGCGAGCTGGCCGCCCTGGACAATACTCCTCACTTATTCGGTTTCACATGCAACTATTATCTCTACTACAGGAGGATATGGGAGAGGAGCCTTCATCTATAGATGAAATGAGCCACAAAAATTTATGGTTCCAAGATGTGGGTAAATGCATCTCTCAATCTGAGTCCGAACACCTATTGAAGGAACTGCCTACAGATTGTTTCAGTAGAGGTGGTGCTGGATATGATATCTTAGACCTCTCTCAGAAGCTCAGACTTTTAACTTACCTTTGTGATGAGGTGATTTGCACTTCTAAACTGAGGAGCTGGATAGAAGAAAAGCATGAAAAGATTGTTGAAAGTGAAAAGGAAGCAAAAGGAAAAGTTAATGCAGCCAAAGATAAGGAAAAACTCCTCAAGCGGAAGTTGCAAGATGAGGTGGCGAAGCTTATTATTGCAAAAAATGGTGCTCCTCTGTCAATTTCAGAACATGAAGCTCTTGTTTCACAAATAAAAAGTGAAGCAGCTCAAGCTCATGCTGAGTTGCTTGAAGCAGAGGGCATAGTGCCTAAAAAGAAACATAGATGTGATGCTTTAAGAACGGAGCCTTATCGTGTCGATGTTGATGGCCGCATCTTTTGGAAATTAAAGGGTTACAACAATGGAGAAGATGTCGTGCTTCAAGATTTGGGGGCTTGGGATGCAGTTGTATCTAAAGAAGAATGGTTTGTTTATGGTGTGGAGACAAAGGAAGCAATTGACAATTACTGTTCTTCTTTAAGGAGAAAAAAATCTAGTGGAACCATGTCGCAAACTGTTCCTCGTGAAAGCGATGAAGAAAACATGTGGATGAGGGCCATGGTTATTTCAAATGGCATATACTCCTAA
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
DDT WHIM1 zf-4CXXC_R1

Protein Analysis

620

Amino Acids

69.75

Weight (kDa)

8.48

Isoelectric Point (pI)

43.88

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-4CXXC_R1 PF10497 12 - 111 1.8e-36 Zinc-finger domain of monoamine-oxidase A repressor R1
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)
AccB7I CCANNNNNTGG 1 cut(s) 1135
AciI CCGC 4 cut(s) 377, 1009, 1396, 1606
AclWI GGATC 3 cut(s) 38, 556, 578
AcoI YGGCCR 6 cut(s) 3, 25, 294, 387, 1006, 1603
AcsI RAATTY 6 cut(s) 352, 406, 439, 911, 941, 1117
AcuI CTGAAG 3 cut(s) 131, 201, 803
AcyI GRCGYC 1 cut(s) 95
AfiI CCNNNNNNNGG 4 cut(s) 460, 461, 1135, 1177
AflIII ACRYGT 1 cut(s) 1818
AjnI CCWGG 1 cut(s) 1012
AjuI GAANNNNNNNTTGG 4 cut(s) 294, 326, 954, 986
Alw21I GWGCWC 1 cut(s) 1447
Alw26I GTCTC 3 cut(s) 538, 598, 1712
AlwI GGATC 3 cut(s) 38, 556, 578
Ama87I CYCGRG 1 cut(s) 347
ApeKI GCWGC 5 cut(s) 126, 513, 573, 1367, 1499
ApoI RAATTY 6 cut(s) 352, 406, 439, 911, 941, 1117
Asp700I GAANNNNTTC 1 cut(s) 690
AspLEI GCGC 1 cut(s) 987
AspS9I GGNCC 2 cut(s) 344, 1830
AsuHPI GGTGA 6 cut(s) 53, 182, 571, 695, 986, 1288
AvaI CYCGRG 1 cut(s) 347
AvaII GGWCC 1 cut(s) 344
AxyI CCTNAGG 3 cut(s) 456, 834, 879
BauI CACGAG 1 cut(s) 1797
BbsI GAAGAC 2 cut(s) 83, 272
Bbv12I GWGCWC 1 cut(s) 1447
BbvI GCAGC 5 cut(s) 113, 525, 585, 1379, 1511
BccI CCATC 1 cut(s) 1595
BceAI ACGGC 2 cut(s) 309, 374
BciT130I CCWGG 1 cut(s) 1014
BclI TGATCA 1 cut(s) 415
BcoDI GTCTC 3 cut(s) 538, 598, 1712
BfaI CTAG 2 cut(s) 81, 1770
BfmI CTRYAG 4 cut(s) 247, 1064, 1095, 1188
BisI GCNGC 7 cut(s) 127, 514, 574, 1009, 1368, 1500, 1606
BlsI GCNGC 7 cut(s) 128, 515, 575, 1010, 1369, 1501, 1607
Bme1390I CCNGG 1 cut(s) 1014
Bme18I GGWCC 1 cut(s) 344
BmeT110I CYCGRG 1 cut(s) 347
BmgT120I GGNCC 2 cut(s) 344, 1830
BmiI GGNNCC 5 cut(s) 346, 1086, 1127, 1581, 1777
BmrFI CCNGG 1 cut(s) 1014
BmsI GCATC 6 cut(s) 658, 874, 1155, 1555, 1617, 1666
BpiI GAAGAC 2 cut(s) 83, 272
BplI GAGNNNNNCTC 2 cut(s) 921, 953
BpuEI CTTGAG 2 cut(s) 1376, 1488
BsaHI GRCGYC 1 cut(s) 95
BsaJI CCNNGG 5 cut(s) 297, 597, 738, 1012, 1833
BsaXI ACNNNNNCTCC 3 cut(s) 30, 1632, 1662
Bsc4I CCNNNNNNNGG 4 cut(s) 460, 461, 1135, 1177
Bse118I RCCGGY 1 cut(s) 69
Bse1I ACTGG 3 cut(s) 64, 209, 280
Bse21I CCTNAGG 3 cut(s) 456, 834, 879
BseBI CCWGG 1 cut(s) 1014
BseDI CCNNGG 5 cut(s) 297, 597, 738, 1012, 1833
BseGI GGATG 6 cut(s) 547, 586, 607, 889, 1681, 1830
BseLI CCNNNNNNNGG 4 cut(s) 460, 461, 1135, 1177
BseMII CTCAG 9 cut(s) 447, 528, 825, 870, 1149, 1253, 1261, 1286, 1506
BseNI ACTGG 3 cut(s) 64, 209, 280
BseRI GAGGAG 6 cut(s) 473, 1015, 1097, 1312, 1379, 1437
BseXI GCAGC 5 cut(s) 113, 525, 585, 1379, 1511
BsgI GTGCAG 1 cut(s) 112
BsiHKAI GWGCWC 1 cut(s) 1447
BsiHKCI CYCGRG 1 cut(s) 347
BsiSI CCGG 3 cut(s) 6, 28, 70
BslFI GGGAC 1 cut(s) 477
BslI CCNNNNNNNGG 4 cut(s) 460, 461, 1135, 1177
BsmAI GTCTC 3 cut(s) 538, 598, 1712
BsmFI GGGAC 1 cut(s) 477
BsmI GAATGC 2 cut(s) 788, 840
BsoBI CYCGRG 1 cut(s) 347
Bsp1286I GDGCHC 1 cut(s) 1447
Bsp143I GATC 5 cut(s) 30, 415, 561, 583, 646
Bsp19I CCATGG 1 cut(s) 1833
BspACI CCGC 4 cut(s) 377, 1009, 1396, 1606
BspCNI CTCAG 9 cut(s) 448, 529, 826, 871, 1150, 1252, 1260, 1287, 1507
BspLI GGNNCC 5 cut(s) 346, 1086, 1127, 1581, 1777
BspMAI CTGCAG 1 cut(s) 251
BspPI GGATC 3 cut(s) 38, 556, 578
BsrFI RCCGGY 1 cut(s) 69
BsrI ACTGG 3 cut(s) 64, 209, 280
BssAI RCCGGY 1 cut(s) 69
BssECI CCNNGG 5 cut(s) 297, 597, 738, 1012, 1833
BssMI GATC 5 cut(s) 30, 415, 561, 583, 646
BssNI GRCGYC 1 cut(s) 95
BssSI CACGAG 1 cut(s) 1797
BssT1I CCWWGG 4 cut(s) 297, 597, 738, 1833
Bst2BI CACGAG 1 cut(s) 1797
Bst2UI CCWGG 1 cut(s) 1014
Bst4CI ACNGT 2 cut(s) 1745, 1792
Bst6I CTCTTC 2 cut(s) 177, 646
BstACI GRCGYC 1 cut(s) 95
BstAPI GCANNNNNTGC 1 cut(s) 668
BstC8I GCNNGC 6 cut(s) 71, 124, 433, 769, 1002, 1006
BstDSI CCRYGG 1 cut(s) 1833
BstENI CCTNNNNNAGG 1 cut(s) 1175
BstF5I GGATG 6 cut(s) 547, 586, 607, 889, 1681, 1830
BstHHI GCGC 1 cut(s) 987
BstKTI GATC 5 cut(s) 33, 418, 564, 586, 649
BstMAI GTCTC 3 cut(s) 538, 598, 1712
BstMBI GATC 5 cut(s) 30, 415, 561, 583, 646
BstMWI GCNNNNNNNGC 7 cut(s) 135, 668, 829, 893, 1402, 1505, 1676
BstNI CCWGG 1 cut(s) 1014
BstNSI RCATGY 2 cut(s) 1048, 1822
BstSCI CCNGG 1 cut(s) 1012
BstSFI CTRYAG 4 cut(s) 247, 1064, 1095, 1188
BstV1I GCAGC 5 cut(s) 113, 525, 585, 1379, 1511
BstV2I GAAGAC 2 cut(s) 83, 272
BstX2I RGATCY 1 cut(s) 30
BstXI CCANNNNNNTGG 1 cut(s) 995
BstYI RGATCY 1 cut(s) 30
Bsu36I CCTNAGG 3 cut(s) 456, 834, 879
BtgI CCRYGG 1 cut(s) 1833
BtgZI GCGATG 1 cut(s) 1821
BtsCI GGATG 6 cut(s) 547, 586, 607, 889, 1681, 1830
BtsIMutI CAGTG 2 cut(s) 71, 273
Cac8I GCNNGC 6 cut(s) 71, 124, 433, 769, 1002, 1006
CfoI GCGC 1 cut(s) 987
Cfr10I RCCGGY 1 cut(s) 69
Cfr13I GGNCC 2 cut(s) 344, 1830
CseI GACGC 1 cut(s) 84
CspCI CAANNNNNGTGG 2 cut(s) 286, 321
CviAII CATG 7 cut(s) 1045, 1319, 1466, 1511, 1780, 1819, 1834
DpnI GATC 5 cut(s) 32, 417, 563, 585, 648
DpnII GATC 5 cut(s) 30, 415, 561, 583, 646
EaeI YGGCCR 6 cut(s) 3, 25, 294, 387, 1006, 1603
Eam1104I CTCTTC 2 cut(s) 177, 646
EarI CTCTTC 2 cut(s) 177, 646
Eco130I CCWWGG 4 cut(s) 297, 597, 738, 1833
Eco147I AGGCCT 1 cut(s) 264
Eco32I GATATC 1 cut(s) 1225
Eco47I GGWCC 1 cut(s) 344
Eco57I CTGAAG 3 cut(s) 131, 201, 803
Eco81I CCTNAGG 3 cut(s) 456, 834, 879
Eco88I CYCGRG 1 cut(s) 347
EcoNI CCTNNNNNAGG 1 cut(s) 1175
EcoO109I RGGNCCY 1 cut(s) 344
EcoRI GAATTC 2 cut(s) 406, 439
EcoRII CCWGG 1 cut(s) 1012
EcoRV GATATC 1 cut(s) 1225
EcoT14I CCWWGG 4 cut(s) 297, 597, 738, 1833
EcoT22I ATGCAT 1 cut(s) 1148
ErhI CCWWGG 4 cut(s) 297, 597, 738, 1833
FaeI CATG 7 cut(s) 1048, 1322, 1469, 1514, 1783, 1822, 1837
FalI AAGNNNNNCTT 2 cut(s) 801, 833
FaqI GGGAC 1 cut(s) 477
FatI CATG 7 cut(s) 1044, 1318, 1465, 1510, 1779, 1818, 1833
FbaI TGATCA 1 cut(s) 415
Fnu4HI GCNGC 7 cut(s) 127, 514, 574, 1009, 1368, 1500, 1606
FokI GGATG 6 cut(s) 554, 593, 614, 896, 1688, 1837
Fsp4HI GCNGC 7 cut(s) 127, 514, 574, 1009, 1368, 1500, 1606
FspBI CTAG 2 cut(s) 81, 1770
GlaI GCGC 1 cut(s) 986
GluI GCNGC 7 cut(s) 127, 514, 574, 1009, 1368, 1500, 1606
HapII CCGG 3 cut(s) 6, 28, 70
HgaI GACGC 1 cut(s) 84
HhaI GCGC 1 cut(s) 987
Hin1I GRCGYC 1 cut(s) 95
Hin1II CATG 7 cut(s) 1048, 1322, 1469, 1514, 1783, 1822, 1837
Hin6I GCGC 1 cut(s) 985
HinP1I GCGC 1 cut(s) 985
HincII GTYRAC 1 cut(s) 333
HindII GTYRAC 1 cut(s) 333
HindIII AAGCTT 1 cut(s) 1421
HinfI GANTC 5 cut(s) 38, 106, 774, 962, 1160
HpaII CCGG 3 cut(s) 6, 28, 70
HphI GGTGA 6 cut(s) 53, 182, 571, 695, 986, 1288
Hpy166II GTNNAC 3 cut(s) 289, 333, 706
Hpy188III TCNNGA 8 cut(s) 157, 472, 627, 721, 751, 878, 1658, 1799
Hpy8I GTNNAC 3 cut(s) 289, 333, 706
Hpy99I CGWCG 3 cut(s) 23, 100, 395
HpyAV CCTTC 7 cut(s) 169, 296, 364, 376, 490, 1098, 1171
HpyCH4III ACNGT 2 cut(s) 1745, 1792
HpyF10VI GCNNNNNNNGC 7 cut(s) 135, 668, 829, 893, 1402, 1505, 1676
Hsp92I GRCGYC 1 cut(s) 95
Hsp92II CATG 7 cut(s) 1048, 1322, 1469, 1514, 1783, 1822, 1837
HspAI GCGC 1 cut(s) 985
KroI GCCGGC 1 cut(s) 69
KroNI GCCGGC 1 cut(s) 71
Ksp22I TGATCA 1 cut(s) 415
Kzo9I GATC 5 cut(s) 30, 415, 561, 583, 646
LmnI GCTCC 5 cut(s) 190, 1084, 1299, 1450, 1579
Lsp1109I GCAGC 5 cut(s) 113, 525, 585, 1379, 1511
LweI GCATC 6 cut(s) 658, 874, 1155, 1555, 1617, 1666
MaeI CTAG 2 cut(s) 81, 1770
MaeIII GTNAC 3 cut(s) 59, 143, 1628
MalI GATC 5 cut(s) 32, 417, 563, 585, 648
MboI GATC 5 cut(s) 30, 415, 561, 583, 646
MfeI CAATTG 1 cut(s) 1731
MflI RGATCY 1 cut(s) 30
MhlI GDGCHC 1 cut(s) 1447
MlyI GAGTC 2 cut(s) 783, 1169
Mph1103I ATGCAT 1 cut(s) 1148
MroNI GCCGGC 1 cut(s) 69
MroXI GAANNNNTTC 1 cut(s) 690
MseI TTAA 6 cut(s) 848, 1256, 1362, 1571, 1622, 1754
MslI CAYNNNNRTG 2 cut(s) 1560, 1823
MspI CCGG 3 cut(s) 6, 28, 70
MspR9I CCNGG 1 cut(s) 1014
MunI CAATTG 1 cut(s) 1731
Mva1269I GAATGC 2 cut(s) 788, 840
MvaI CCWGG 1 cut(s) 1014
MwoI GCNNNNNNNGC 7 cut(s) 135, 668, 829, 893, 1402, 1505, 1676
NaeI GCCGGC 1 cut(s) 71
NcoI CCATGG 1 cut(s) 1833
NdeII GATC 5 cut(s) 30, 415, 561, 583, 646
NgoMIV GCCGGC 1 cut(s) 69
NlaIII CATG 7 cut(s) 1048, 1322, 1469, 1514, 1783, 1822, 1837
NlaIV GGNNCC 5 cut(s) 346, 1086, 1127, 1581, 1777
NmuCI GTSAC 2 cut(s) 59, 143
NsiI ATGCAT 1 cut(s) 1148
NspI RCATGY 2 cut(s) 1048, 1822
PceI AGGCCT 1 cut(s) 264
PciI ACATGT 1 cut(s) 1818
PcsI WCGNNNNNNNCGW 1 cut(s) 997
PctI GAATGC 2 cut(s) 788, 840
PdiI GCCGGC 1 cut(s) 71
PdmI GAANNNNTTC 1 cut(s) 690
PfeI GAWTC 3 cut(s) 38, 106, 962
PflFI GACNNNGTC 1 cut(s) 746
PflMI CCANNNNNTGG 1 cut(s) 1135
PkrI GCNGC 7 cut(s) 128, 515, 575, 1010, 1369, 1501, 1607
PleI GAGTC 2 cut(s) 782, 1168
PpsI GAGTC 2 cut(s) 782, 1168
PpuMI RGGWCCY 1 cut(s) 344
PscI ACATGT 1 cut(s) 1818
Psp5II RGGWCCY 1 cut(s) 344
Psp6I CCWGG 1 cut(s) 1012
PspGI CCWGG 1 cut(s) 1012
PspN4I GGNNCC 5 cut(s) 346, 1086, 1127, 1581, 1777
PspPI GGNCC 2 cut(s) 344, 1830
PspPPI RGGWCCY 1 cut(s) 344
PstI CTGCAG 1 cut(s) 251
PsuI RGATCY 1 cut(s) 30
PsyI GACNNNGTC 1 cut(s) 746
RseI CAYNNNNRTG 2 cut(s) 1560, 1823
SaqAI TTAA 6 cut(s) 848, 1256, 1362, 1571, 1622, 1754
SatI GCNGC 7 cut(s) 127, 514, 574, 1009, 1368, 1500, 1606
Sau3AI GATC 5 cut(s) 30, 415, 561, 583, 646
Sau96I GGNCC 2 cut(s) 344, 1830
SchI GAGTC 2 cut(s) 783, 1169
ScrFI CCNGG 1 cut(s) 1014
SduI GDGCHC 1 cut(s) 1447
SfaNI GCATC 6 cut(s) 658, 874, 1155, 1555, 1617, 1666
SfcI CTRYAG 4 cut(s) 247, 1064, 1095, 1188
SinI GGWCC 1 cut(s) 344
SmiMI CAYNNNNRTG 2 cut(s) 1560, 1823
SmlI CTYRAG 2 cut(s) 1391, 1503
SmoI CTYRAG 2 cut(s) 1391, 1503
SseBI AGGCCT 1 cut(s) 264
SsiI CCGC 4 cut(s) 377, 1009, 1396, 1606
SspI AATATT 1 cut(s) 796
SspMI CTAG 2 cut(s) 81, 1770
StuI AGGCCT 1 cut(s) 264
StyD4I CCNGG 1 cut(s) 1012
StyI CCWWGG 4 cut(s) 297, 597, 738, 1833
TaaI ACNGT 2 cut(s) 1745, 1792
TaqI TCGA 4 cut(s) 393, 649, 777, 1593
TauI GCSGC 2 cut(s) 1011, 1608
TfiI GAWTC 3 cut(s) 38, 106, 962
Tru1I TTAA 6 cut(s) 848, 1256, 1362, 1571, 1622, 1754
Tru9I TTAA 6 cut(s) 848, 1256, 1362, 1571, 1622, 1754
TscAI CASTG 2 cut(s) 71, 280
TseFI GTSAC 2 cut(s) 59, 143
TseI GCWGC 5 cut(s) 126, 513, 573, 1367, 1499
Tsp45I GTSAC 2 cut(s) 59, 143
TspDTI ATGAA 7 cut(s) 411, 537, 1080, 1116, 1335, 1482, 1824
TspGWI ACGGA 4 cut(s) 63, 494, 554, 1592
TspRI CASTG 2 cut(s) 71, 280
Tth111I GACNNNGTC 1 cut(s) 746
Van91I CCANNNNNTGG 1 cut(s) 1135
VpaK11BI GGWCC 1 cut(s) 344
XagI CCTNNNNNAGG 1 cut(s) 1175
XapI RAATTY 6 cut(s) 352, 406, 439, 911, 941, 1117
XceI RCATGY 2 cut(s) 1048, 1822
XmnI GAANNNNTTC 1 cut(s) 690
XspI CTAG 2 cut(s) 81, 1770
Zsp2I ATGCAT 1 cut(s) 1148
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.