Rroxscaffold_6G00427840

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0014542
Physical Location & Seq
Reverse (-)
48393888 .. 48398550
4663 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00427840.1

Sequence Viewer

Length: 1578 bp
ATGGCCGACGACCTGTTTGAAGGTCTGCCTCCGCCTTCTTCTGCAAACCCTGTTTCCTCTTCTGAGCCTCAAGAACAGCCCAAAGAACCCAAACCCAAACCAAAGTTCGCTTCTTTCAGCACCGACTCTTCTTCTTCTTCTTCTTCTTCCCCTTCTCCTTCTTCTCAAGCTCCAAAACCAGCTCTGAAAAGCGCGTTGAAGAAGCCTAAGGAGCCCTCTGAGCCAAACCCAGTTCTCAAAAGCGCCCTCAAGCGGCCCAAGGAGCCCTCTGAACCAAAGCCAGAAGGAATGCAGCTTGTGGAGAATGTGTTTCTTCGTGTTTTTCTTGACGTGTGGATTGAAATGAAGCTGACGTGTTGTAAATGGTTCTTACCCACTGTGCCTGAGAAAAAGCTTTCAGAGAATGTGGTTCTTTGTGTTGTCTTGATGCGGTTTCTTTCCCGTACAAGTTACAGCTGCCAATGGGAGAGGAAAAAGAAAAAAGGTGACTTTAAATCCACTGCTGATGCCTCAGGGCAACAGCTGCCAATATGGGATTACGGGTCTCAACATTCTGTTGGCATTTTGACCACTGTGCCTGGAAAGAAGTTGAGGTTTAAAACCACGACCGATGCCTCAGAGAAACAGGTTATAGAGGCCATGCAGAAGATAGCTTCACATATAAAGAATCCTACAAAGTTTGGGAAGGCTTCAAAGCTTGCCATCCAGCTGATTCAGGCAGGAAGTGTCAAGGCCGAAACCAGTGATTACTTCTTTTCCATATTAGAGGCTGCAATGACATCATCTACCTCTTGCACGGATCCTTCCATACGAGCAGATATCCATGCACTCTTCTCAGCAGCACAAGATGCCTTTGAGTGTCTCAATAAGAAGCAAAAGAATCAGTTAACAACATGGACAATCAGAGCTGTGATGGCAAATGATTTACTCACTGATGACAGCTTCCTGTTTTCAAAAACAGCTGGACAATTAAAAGAAGAAATATCTAATCTGCCAGTTGCAACTGAGGATGATGACAGAGAAGAAGCAGCTGCCCTGGAAGTTGAAACTAAAACAACTGATGAGGATGATCTAATGAAGGACATGACTTCGGATGTACCGGATGAAGAAAATAATGAGAAAGAGTCTGATCCATTTGGGCTAGATGCATTTTTAACTCCAAGCTCTATGAAGAAAGGTGATAAAGTAAAGGGAAAGAAAGATGTAACTCCCAAAGTCAAGGAGGAGGAAGAGACCAAGAGATTCCTCAAGTCACAGAGAGAAGCCTTGGTCCTTTGTTTAGAGATAGCTGCTCGGCGTTATAAAACTCCATGGTGCCAGACAGTTATAGACATATTAGCAAAGCATGCTTTTGATAACACAAGGAGGTTCACATCTGAACAAAGGAATGCCATTGGGAAACTTTGGGCTTCCATACGGGAACAGCATAATCGTAGAAAACAAGGGAAAACAGTTACTGGGAAACTTGACGTGAATGGTTTCGAATGGCTGCAGCAAAAATATGCTAATGAGAAGATCAGCATTCGGCATTCTGTTGGCGGTAGTGGGGATCGTAAAACTGAAATGTGGCTTGGTTGA
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
No domains found.

Protein Analysis

525

Amino Acids

58.67

Weight (kDa)

8.63

Isoelectric Point (pI)

48.81

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0014542)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G04560
fragaria_vesca FvH4_6g02310
malus_domestica MD04G1228300.v1.1 MD04G1228400.v1.1 MD12G1245500.v1.1
prunus_persica Prupe.6G348300_v2.0.a1
pyrus_communis pycom12g22500
rosa_chinensis RchiOBHm_Chr3g0450061
rosa_laevigata RLG00000025760
rosa_multiflora Rmu_sc0002646.1_g000024
rosa_roxburghii Rroxscaffold_6G00427840
rosa_rugosa Rorug02G0625200
rosa_samantha Rh3AG024300 Rh3BG024900 Rh3CG023800 Rh3DG024900
rosa_wichuraiana Rw3G001940

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1302
AccB1I GGYRCC 1 cut(s) 1314
AccII CGCG 1 cut(s) 194
AciI CCGC 4 cut(s) 32, 253, 430, 1539
AclWI GGATC 4 cut(s) 794, 807, 1124, 1557
AcoI YGGCCR 1 cut(s) 3
AfaI GTAC 2 cut(s) 445, 1098
AfiI CCNNNNNNNGG 1 cut(s) 252
AflIII ACRYGT 2 cut(s) 330, 353
AgsI TTSAA 6 cut(s) 20, 199, 341, 693, 954, 1046
AjiI CACGTC 3 cut(s) 331, 354, 1471
AjnI CCWGG 2 cut(s) 577, 1035
AjuI GAANNNNNNNTTGG 5 cut(s) 89, 94, 121, 126, 1554
Alw26I GTCTC 3 cut(s) 549, 866, 1226
AlwI GGATC 4 cut(s) 794, 807, 1124, 1557
AlwNI CAGNNNCTG 1 cut(s) 1457
AoxI GGCC 4 cut(s) 3, 254, 636, 732
ArsI GACNNNNNNTTYG 1 cut(s) 31
Asp700I GAANNNNTTC 1 cut(s) 1478
AspLEI GCGC 2 cut(s) 194, 245
AspS9I GGNCC 2 cut(s) 255, 1270
AsuHPI GGTGA 2 cut(s) 497, 1190
AsuII TTCGAA 1 cut(s) 1482
AvaII GGWCC 1 cut(s) 1270
AxyI CCTNAGG 2 cut(s) 207, 511
BamHI GGATCC 1 cut(s) 799
BanI GGYRCC 1 cut(s) 1314
BanII GRGCYC 2 cut(s) 216, 267
BccI CCATC 2 cut(s) 710, 907
BciT130I CCWGG 2 cut(s) 579, 1037
BcoDI GTCTC 3 cut(s) 549, 866, 1226
BfaI CTAG 1 cut(s) 1142
BfmI CTRYAG 1 cut(s) 1490
BfoI RGCGCY 1 cut(s) 246
Bme1390I CCNGG 2 cut(s) 579, 1037
Bme18I GGWCC 1 cut(s) 1270
BmgBI CACGTC 3 cut(s) 331, 354, 1471
BmgT120I GGNCC 2 cut(s) 255, 1270
BmiI GGNNCC 4 cut(s) 213, 264, 801, 1316
BmrFI CCNGG 2 cut(s) 579, 1037
BmrI ACTGGG 2 cut(s) 224, 1467
BmsI GCATC 5 cut(s) 417, 496, 601, 838, 1135
BmuI ACTGGG 2 cut(s) 224, 1467
Bpu14I TTCGAA 1 cut(s) 1482
BpuEI CTTGAG 4 cut(s) 54, 150, 233, 1232
BsaI GGTCTC 2 cut(s) 549, 1226
BsaJI CCNNGG 4 cut(s) 258, 1035, 1266, 1310
BsaWI WCCGGW 1 cut(s) 1099
BsaXI ACNNNNNCTCC 2 cut(s) 293, 323
Bsc4I CCNNNNNNNGG 1 cut(s) 252
Bse1I ACTGG 4 cut(s) 230, 741, 995, 1462
Bse21I CCTNAGG 2 cut(s) 207, 511
Bse3DI GCAATG 1 cut(s) 780
BseBI CCWGG 2 cut(s) 579, 1037
BseDI CCNNGG 4 cut(s) 258, 1035, 1266, 1310
BseGI GGATG 5 cut(s) 702, 1015, 1072, 1099, 1108
BseLI CCNNNNNNNGG 1 cut(s) 252
BseMI GCAATG 1 cut(s) 780
BseMII CTCAG 7 cut(s) 54, 210, 375, 525, 630, 849, 996
BseNI ACTGG 4 cut(s) 230, 741, 995, 1462
BseRI GAGGAG 1 cut(s) 1238
Bsh1236I CGCG 1 cut(s) 194
Bsh1285I CGRYCG 1 cut(s) 609
BshFI GGCC 4 cut(s) 5, 256, 638, 734
BshNI GGYRCC 1 cut(s) 1314
BsiEI CGRYCG 1 cut(s) 609
BsiSI CCGG 1 cut(s) 1100
BslI CCNNNNNNNGG 1 cut(s) 252
BsmAI GTCTC 3 cut(s) 549, 866, 1226
BsmI GAATGC 4 cut(s) 294, 1393, 1521, 1528
BsnI GGCC 4 cut(s) 5, 256, 638, 734
Bso31I GGTCTC 2 cut(s) 549, 1226
Bsp119I TTCGAA 1 cut(s) 1482
Bsp1286I GDGCHC 2 cut(s) 216, 267
Bsp143I GATC 5 cut(s) 799, 1069, 1129, 1515, 1549
Bsp19I CCATGG 1 cut(s) 1310
BspACI CCGC 4 cut(s) 32, 253, 430, 1539
BspANI GGCC 4 cut(s) 5, 256, 638, 734
BspCNI CTCAG 7 cut(s) 55, 211, 376, 524, 629, 848, 997
BspFNI CGCG 1 cut(s) 194
BspLI GGNNCC 4 cut(s) 213, 264, 801, 1316
BspMAI CTGCAG 1 cut(s) 1494
BspPI GGATC 4 cut(s) 794, 807, 1124, 1557
BspT104I TTCGAA 1 cut(s) 1482
BspT107I GGYRCC 1 cut(s) 1314
BspTNI GGTCTC 2 cut(s) 549, 1226
BsrDI GCAATG 1 cut(s) 780
BsrI ACTGG 4 cut(s) 230, 741, 995, 1462
BssECI CCNNGG 4 cut(s) 258, 1035, 1266, 1310
BssMI GATC 5 cut(s) 799, 1069, 1129, 1515, 1549
BssT1I CCWWGG 3 cut(s) 258, 1266, 1310
Bst2UI CCWGG 2 cut(s) 579, 1037
Bst4CI ACNGT 4 cut(s) 379, 574, 1324, 1453
Bst6I CTCTTC 4 cut(s) 64, 133, 836, 1224
BstAPI GCANNNNNTGC 3 cut(s) 523, 848, 1346
BstBI TTCGAA 1 cut(s) 1482
BstC8I GCNNGC 2 cut(s) 699, 1347
BstDEI CTNAG 8 cut(s) 63, 207, 219, 384, 511, 616, 835, 1005
BstDSI CCRYGG 1 cut(s) 1310
BstF5I GGATG 5 cut(s) 702, 1015, 1072, 1099, 1108
BstFNI CGCG 1 cut(s) 194
BstH2I RGCGCY 1 cut(s) 246
BstHHI GCGC 2 cut(s) 194, 245
BstKTI GATC 5 cut(s) 802, 1072, 1132, 1518, 1552
BstMAI GTCTC 3 cut(s) 549, 866, 1226
BstMBI GATC 5 cut(s) 799, 1069, 1129, 1515, 1549
BstMCI CGRYCG 1 cut(s) 609
BstMWI GCNNNNNNNGC 7 cut(s) 211, 220, 262, 523, 848, 914, 1346
BstNI CCWGG 2 cut(s) 579, 1037
BstNSI RCATGY 1 cut(s) 1349
BstSCI CCNGG 2 cut(s) 577, 1035
BstSFI CTRYAG 1 cut(s) 1490
BstUI CGCG 1 cut(s) 194
BstX2I RGATCY 1 cut(s) 799
BstYI RGATCY 1 cut(s) 799
Bsu36I CCTNAGG 2 cut(s) 207, 511
BsuRI GGCC 4 cut(s) 5, 256, 638, 734
BtgI CCRYGG 1 cut(s) 1310
BtrI CACGTC 3 cut(s) 331, 354, 1471
BtsCI GGATG 5 cut(s) 702, 1015, 1072, 1099, 1108
BtsI GCAGTG 1 cut(s) 498
BtsIMutI CAGTG 5 cut(s) 375, 498, 570, 748, 930
Cac8I GCNNGC 2 cut(s) 699, 1347
CaiI CAGNNNCTG 1 cut(s) 1457
CfoI GCGC 2 cut(s) 194, 245
Cfr13I GGNCC 2 cut(s) 255, 1270
Csp6I GTAC 2 cut(s) 444, 1097
CviAII CATG 6 cut(s) 640, 824, 894, 1084, 1311, 1346
CviQI GTAC 2 cut(s) 444, 1097
DdeI CTNAG 8 cut(s) 63, 207, 219, 384, 511, 616, 835, 1005
DpnI GATC 5 cut(s) 801, 1071, 1131, 1517, 1551
DpnII GATC 5 cut(s) 799, 1069, 1129, 1515, 1549
DraI TTTAAA 2 cut(s) 493, 598
EaeI YGGCCR 1 cut(s) 3
Eam1104I CTCTTC 4 cut(s) 64, 133, 836, 1224
EarI CTCTTC 4 cut(s) 64, 133, 836, 1224
EciI GGCGGA 1 cut(s) 21
Eco130I CCWWGG 3 cut(s) 258, 1266, 1310
Eco24I GRGCYC 2 cut(s) 216, 267
Eco31I GGTCTC 2 cut(s) 549, 1226
Eco32I GATATC 1 cut(s) 820
Eco47I GGWCC 1 cut(s) 1270
Eco81I CCTNAGG 2 cut(s) 207, 511
EcoRII CCWGG 2 cut(s) 577, 1035
EcoRV GATATC 1 cut(s) 820
EcoT14I CCWWGG 3 cut(s) 258, 1266, 1310
EcoT22I ATGCAT 1 cut(s) 1150
EcoT38I GRGCYC 2 cut(s) 216, 267
ErhI CCWWGG 3 cut(s) 258, 1266, 1310
FaeI CATG 6 cut(s) 643, 827, 897, 1087, 1314, 1349
FatI CATG 6 cut(s) 639, 823, 893, 1083, 1310, 1345
FokI GGATG 5 cut(s) 689, 1022, 1079, 1106, 1115
FriOI GRGCYC 2 cut(s) 216, 267
FspBI CTAG 1 cut(s) 1142
GlaI GCGC 2 cut(s) 193, 244
HaeII RGCGCY 1 cut(s) 246
HaeIII GGCC 4 cut(s) 5, 256, 638, 734
HapII CCGG 1 cut(s) 1100
HhaI GCGC 2 cut(s) 194, 245
Hin1II CATG 6 cut(s) 643, 827, 897, 1087, 1314, 1349
Hin6I GCGC 2 cut(s) 192, 243
HinP1I GCGC 2 cut(s) 192, 243
HincII GTYRAC 1 cut(s) 888
HindII GTYRAC 1 cut(s) 888
HindIII AAGCTT 2 cut(s) 392, 695
HinfI GANTC 6 cut(s) 125, 667, 712, 880, 1124, 1242
HpaI GTTAAC 1 cut(s) 888
HpaII CCGG 1 cut(s) 1100
HphI GGTGA 2 cut(s) 497, 1190
Hpy166II GTNNAC 2 cut(s) 888, 1371
Hpy188III TCNNGA 3 cut(s) 71, 326, 424
Hpy8I GTNNAC 2 cut(s) 888, 1371
Hpy99I CGWCG 1 cut(s) 11
HpyAV CCTTC 8 cut(s) 14, 45, 162, 168, 278, 679, 813, 1072
HpyCH4III ACNGT 4 cut(s) 379, 574, 1324, 1453
HpyCH4IV ACGT 3 cut(s) 330, 353, 1470
HpyCH4V TGCA 9 cut(s) 44, 292, 643, 773, 795, 827, 1001, 1148, 1492
HpyF10VI GCNNNNNNNGC 7 cut(s) 211, 220, 262, 523, 848, 914, 1346
HpyF3I CTNAG 8 cut(s) 63, 207, 219, 384, 511, 616, 835, 1005
HpySE526I ACGT 3 cut(s) 330, 353, 1470
Hsp92II CATG 6 cut(s) 643, 827, 897, 1087, 1314, 1349
HspAI GCGC 2 cut(s) 192, 243
KspAI GTTAAC 1 cut(s) 888
Kzo9I GATC 5 cut(s) 799, 1069, 1129, 1515, 1549
LmnI GCTCC 3 cut(s) 175, 211, 262
LweI GCATC 5 cut(s) 417, 496, 601, 838, 1135
MaeI CTAG 1 cut(s) 1142
MaeII ACGT 3 cut(s) 330, 353, 1470
MaeIII GTNAC 5 cut(s) 449, 485, 1204, 1251, 1453
MalI GATC 5 cut(s) 801, 1071, 1131, 1517, 1551
MboI GATC 5 cut(s) 799, 1069, 1129, 1515, 1549
MflI RGATCY 1 cut(s) 799
MhlI GDGCHC 2 cut(s) 216, 267
MluCI AATT 1 cut(s) 968
MlyI GAGTC 2 cut(s) 119, 1133
Mph1103I ATGCAT 1 cut(s) 1150
MroXI GAANNNNTTC 1 cut(s) 1478
MseI TTAA 5 cut(s) 492, 597, 887, 971, 1154
MspA1I CMGCKG 5 cut(s) 456, 523, 709, 962, 1031
MspI CCGG 1 cut(s) 1100
MspR9I CCNGG 2 cut(s) 579, 1037
Mva1269I GAATGC 4 cut(s) 294, 1393, 1521, 1528
MvaI CCWGG 2 cut(s) 579, 1037
MvnI CGCG 1 cut(s) 194
MwoI GCNNNNNNNGC 7 cut(s) 211, 220, 262, 523, 848, 914, 1346
NcoI CCATGG 1 cut(s) 1310
NdeII GATC 5 cut(s) 799, 1069, 1129, 1515, 1549
NlaIII CATG 6 cut(s) 643, 827, 897, 1087, 1314, 1349
NlaIV GGNNCC 4 cut(s) 213, 264, 801, 1316
NmeAIII GCCGAG 1 cut(s) 1273
NmuCI GTSAC 2 cut(s) 485, 1251
NsiI ATGCAT 1 cut(s) 1150
NspI RCATGY 1 cut(s) 1349
NspV TTCGAA 1 cut(s) 1482
PaeI GCATGC 1 cut(s) 1349
PctI GAATGC 4 cut(s) 294, 1393, 1521, 1528
PdmI GAANNNNTTC 1 cut(s) 1478
PfeI GAWTC 4 cut(s) 667, 712, 880, 1242
PleI GAGTC 2 cut(s) 119, 1132
PpsI GAGTC 2 cut(s) 119, 1132
PsiI TTATAA 1 cut(s) 1302
Psp6I CCWGG 2 cut(s) 577, 1035
PspGI CCWGG 2 cut(s) 577, 1035
PspN4I GGNNCC 4 cut(s) 213, 264, 801, 1316
PspPI GGNCC 2 cut(s) 255, 1270
PstI CTGCAG 1 cut(s) 1494
PstNI CAGNNNCTG 1 cut(s) 1457
PsuI RGATCY 1 cut(s) 799
PvuII CAGCTG 5 cut(s) 456, 523, 709, 962, 1031
RsaI GTAC 2 cut(s) 445, 1098
RsaNI GTAC 2 cut(s) 444, 1097
SaqAI TTAA 5 cut(s) 492, 597, 887, 971, 1154
Sau3AI GATC 5 cut(s) 799, 1069, 1129, 1515, 1549
Sau96I GGNCC 2 cut(s) 255, 1270
SchI GAGTC 2 cut(s) 119, 1133
ScrFI CCNGG 2 cut(s) 579, 1037
SduI GDGCHC 2 cut(s) 216, 267
SfaNI GCATC 5 cut(s) 417, 496, 601, 838, 1135
SfcI CTRYAG 1 cut(s) 1490
SfuI TTCGAA 1 cut(s) 1482
SinI GGWCC 1 cut(s) 1270
SmlI CTYRAG 4 cut(s) 69, 165, 248, 1247
SmoI CTYRAG 4 cut(s) 69, 165, 248, 1247
SphI GCATGC 1 cut(s) 1349
Sse9I AATT 1 cut(s) 968
SsiI CCGC 4 cut(s) 32, 253, 430, 1539
SspMI CTAG 1 cut(s) 1142
StyD4I CCNGG 2 cut(s) 577, 1035
StyI CCWWGG 3 cut(s) 258, 1266, 1310
TaaI ACNGT 4 cut(s) 379, 574, 1324, 1453
TaiI ACGT 3 cut(s) 333, 356, 1473
TaqI TCGA 1 cut(s) 1482
TaqII GACCGA 1 cut(s) 623
TasI AATT 1 cut(s) 968
TauI GCSGC 1 cut(s) 256
TfiI GAWTC 4 cut(s) 667, 712, 880, 1242
Tru1I TTAA 5 cut(s) 492, 597, 887, 971, 1154
Tru9I TTAA 5 cut(s) 492, 597, 887, 971, 1154
TscAI CASTG 5 cut(s) 382, 505, 577, 748, 937
TseFI GTSAC 2 cut(s) 485, 1251
Tsp45I GTSAC 2 cut(s) 485, 1251
TspDTI ATGAA 4 cut(s) 359, 1091, 1119, 1184
TspGWI ACGGA 1 cut(s) 812
TspRI CASTG 5 cut(s) 382, 505, 577, 748, 937
VpaK11BI GGWCC 1 cut(s) 1270
XceI RCATGY 1 cut(s) 1349
XmnI GAANNNNTTC 1 cut(s) 1478
XspI CTAG 1 cut(s) 1142
Zsp2I ATGCAT 1 cut(s) 1150
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.