Rh7DG195100

viral nucleocapsid

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr7D
OG0030495
Physical Location & Seq
Forward (+)
18315544 .. 18316869
1326 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh7DG195100.1

Sequence Viewer

Length: 1326 bp
ATGGCAGATATCAGGCCAGAGGACTATGTAAAGGTATTTGCAGCATCAGGACAATGCACACATGTTGACTACGATTATAAGACAGTATTTGCTACACCAATATATAAAGTAGGGAACATGGATGCTGTGGCCATAAATAATGCGTTTAATACAATTATGGGAAAGGACAAGATTACAGAAGTAGAGTTCTTTAATTTCATTTGTGCTGGGCTAAACATCAGAAGTGTTGTAGATCCCAACAAACCATTATTGGTCTTTGCCAAGACAGATGGGATGTGTTCAGACTATGATACAGCGGTTCCATCAAGTGCAATTAGTGTCAATATGGATCAGAGCATAGCAGCAGGTACAAAACGTGTACCAGTGTCAGTGCCCAACCCAGCATCATCAGGACAGAGCTCTGCAACAGAGAGTGCAACAGACCAAGCATTAGCTCATGCATTCATCTGTGCTTGGTTAACCAGGTTTTGCATCAAGGAAGCAGGTGACCAACTCAAAAACCAGCTAGCATCTCTACAGAAAACATACCTGATGTTTTACAAGAGGAGCTCCACAGTTTTTGACACATTCAGACCCACAAAAGAATGGGTTAACAGCTTAAGGTTGGCCTTCTCTTCTTTCACCAGATGCAGGCATACTCTGGCACTTCACATGGGGGTAGGAGAGACATACCACAAAGTTAACATGTCCAGGAATTATAATCTGCTCAGATTCTGTTACTTCCAAAATCTCGAGTTCATGGGCATGCATTCGTATGCTCTTCTAGTAGAGATCATGAATAAGCTATCTCTAGCTCCTGCTCTTGTTCTGACATGGCTAAGAATGGATGGTGTTACAGCTGCAATAGATGAAATAGCCCATATTCTGCAGCATTATGATAACGGGATGATCCCTGATGGACTCTCGAAAGAAAGGGTGTGGAAGTATGCTAGACTAATAAATGAACGGTATTTCAACAGAATGCAAACTTCTTACAACCCTGAACTTGTTGCTATGCTCAGCTACATAAAGATCTTCCTAGGGCTTGCAGATGAAATAGGGTACAGATCCCCTCTTAACATTGCTGCTATCAAAGGGAATAACCTTCTAAAAGCATCAGCTAAGAGAAAAGCCACCATATTTATAGAATGCAAAGAACAGCTGCACAGTGTGGCCGCCGATGCCTCCATCATAGAAAAAATATATGCCAAACGAAAGACGGCTGATCTCCCCAACTTCACAACAATACAAACTATGGAAGGAGGACCTAGTGAGACTTTCACAGGTGGGGGACAAAATAAGAGAGGAAACAGTGATGTGGACCAAGCATCCAAGAAGTCCAGATGA
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

441

Amino Acids

49.26

Weight (kDa)

8.9

Isoelectric Point (pI)

43.75

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rhabdo_ncap_2 PF03216 132 - 336 4.1e-28 Rhabdovirus nucleoprotein
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: OG0030495)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr7g0201361
rosa_samantha Rh7DG195100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 78, 699
AarI CACCTGC 1 cut(s) 473
Acc36I ACCTGC 2 cut(s) 335, 473
AciI CCGC 2 cut(s) 296, 1155
AclWI GGATC 4 cut(s) 227, 336, 883, 1041
AcoI YGGCCR 2 cut(s) 129, 1152
AdeI CACNNNGTG 1 cut(s) 1150
AfaI GTAC 3 cut(s) 349, 360, 1043
AfiI CCNNNNNNNGG 1 cut(s) 630
AflII CTTAAG 1 cut(s) 598
AflIII ACRYGT 3 cut(s) 61, 355, 684
AgsI TTSAA 1 cut(s) 955
AjnI CCWGG 2 cut(s) 461, 689
Alw21I GWGCWC 2 cut(s) 401, 551
Alw26I GTCTC 2 cut(s) 659, 1247
AlwI GGATC 4 cut(s) 227, 336, 883, 1041
AlwNI CAGNNNCTG 1 cut(s) 714
Ama87I CYCGRG 1 cut(s) 731
AoxI GGCC 4 cut(s) 14, 129, 606, 1152
ApeKI GCWGC 6 cut(s) 41, 341, 839, 868, 1064, 1141
AspA2I CCTAGG 1 cut(s) 1018
AspS9I GGNCC 2 cut(s) 1244, 1300
AsuHPI GGTGA 2 cut(s) 497, 613
AsuNHI GCTAGC 1 cut(s) 505
AvaI CYCGRG 1 cut(s) 731
AvaII GGWCC 2 cut(s) 1244, 1300
AvrII CCTAGG 1 cut(s) 1018
BaeGI GKGCMC 1 cut(s) 375
BaeI ACNNNNGTAYC 2 cut(s) 282, 315
BalI TGGCCA 1 cut(s) 131
BanII GRGCYC 2 cut(s) 401, 551
Bbv12I GWGCWC 2 cut(s) 401, 551
BbvI GCAGC 6 cut(s) 53, 353, 826, 880, 1051, 1128
BccI CCATC 5 cut(s) 263, 310, 821, 890, 1175
BceAI ACGGC 1 cut(s) 1215
BciT130I CCWGG 2 cut(s) 463, 691
BcoDI GTCTC 2 cut(s) 659, 1247
BfaI CTAG 6 cut(s) 506, 764, 791, 930, 1019, 1248
BfmI CTRYAG 2 cut(s) 515, 866
BfrI CTTAAG 1 cut(s) 598
BfuAI ACCTGC 2 cut(s) 335, 473
BglII AGATCT 1 cut(s) 1011
BisI GCNGC 7 cut(s) 42, 342, 840, 869, 1065, 1142, 1155
BlnI CCTAGG 1 cut(s) 1018
BlpI GCTNAGC 1 cut(s) 998
BlsI GCNGC 7 cut(s) 43, 343, 841, 870, 1066, 1143, 1156
Bme1390I CCNGG 2 cut(s) 463, 691
Bme18I GGWCC 2 cut(s) 1244, 1300
BmeT110I CYCGRG 1 cut(s) 731
BmgT120I GGNCC 2 cut(s) 1244, 1300
BmiI GGNNCC 1 cut(s) 300
BmrFI CCNGG 2 cut(s) 463, 691
BmsI GCATC 9 cut(s) 53, 112, 392, 480, 518, 617, 1103, 1150, 1316
BmtI GCTAGC 1 cut(s) 509
Bpu1102I GCTNAGC 1 cut(s) 998
BsaJI CCNNGG 1 cut(s) 1018
Bsc4I CCNNNNNNNGG 1 cut(s) 630
Bse1I ACTGG 1 cut(s) 362
Bse3DI GCAATG 1 cut(s) 1059
BseBI CCWGG 2 cut(s) 463, 691
BseDI CCNNGG 1 cut(s) 1018
BseGI GGATG 5 cut(s) 127, 279, 832, 891, 1307
BseLI CCNNNNNNNGG 1 cut(s) 630
BseMI GCAATG 1 cut(s) 1059
BseMII CTCAG 2 cut(s) 721, 1012
BseNI ACTGG 1 cut(s) 362
BseRI GAGGAG 1 cut(s) 559
BseSI GKGCMC 1 cut(s) 375
BseXI GCAGC 6 cut(s) 53, 353, 826, 880, 1051, 1128
BseYI CCCAGC 2 cut(s) 206, 379
BsgI GTGCAG 1 cut(s) 1127
BshFI GGCC 4 cut(s) 16, 131, 608, 1154
BsiHKAI GWGCWC 2 cut(s) 401, 551
BsiHKCI CYCGRG 1 cut(s) 731
BslFI GGGAC 1 cut(s) 1284
BslI CCNNNNNNNGG 1 cut(s) 630
BsmAI GTCTC 2 cut(s) 659, 1247
BsmFI GGGAC 1 cut(s) 1284
BsmI GAATGC 4 cut(s) 440, 748, 966, 1133
BsnI GGCC 4 cut(s) 16, 131, 608, 1154
BsoBI CYCGRG 1 cut(s) 731
Bsp1286I GDGCHC 3 cut(s) 375, 401, 551
Bsp143I GATC 7 cut(s) 232, 328, 771, 888, 1011, 1046, 1204
Bsp1720I GCTNAGC 1 cut(s) 998
BspACI CCGC 2 cut(s) 296, 1155
BspANI GGCC 4 cut(s) 16, 131, 608, 1154
BspCNI CTCAG 2 cut(s) 720, 1011
BspHI TCATGA 1 cut(s) 774
BspLI GGNNCC 1 cut(s) 300
BspMAI CTGCAG 1 cut(s) 870
BspMI ACCTGC 2 cut(s) 335, 473
BspOI GCTAGC 1 cut(s) 509
BspPI GGATC 4 cut(s) 227, 336, 883, 1041
BspQI GCTCTTC 1 cut(s) 765
BspTI CTTAAG 1 cut(s) 598
BsrDI GCAATG 1 cut(s) 1059
BsrI ACTGG 1 cut(s) 362
BssECI CCNNGG 1 cut(s) 1018
BssMI GATC 7 cut(s) 232, 328, 771, 888, 1011, 1046, 1204
BssT1I CCWWGG 1 cut(s) 1018
Bst2UI CCWGG 2 cut(s) 463, 691
Bst4CI ACNGT 5 cut(s) 85, 556, 948, 1148, 1292
Bst6I CTCTTC 2 cut(s) 619, 765
BstAFI CTTAAG 1 cut(s) 598
BstC8I GCNNGC 4 cut(s) 507, 632, 746, 1026
BstDEI CTNAG 4 cut(s) 707, 818, 998, 1101
BstEII GGTNACC 1 cut(s) 485
BstF5I GGATG 5 cut(s) 127, 279, 832, 891, 1307
BstKTI GATC 7 cut(s) 235, 331, 774, 891, 1014, 1049, 1207
BstMAI GTCTC 2 cut(s) 659, 1247
BstMBI GATC 7 cut(s) 232, 328, 771, 888, 1011, 1046, 1204
BstMWI GCNNNNNNNGC 1 cut(s) 1160
BstNI CCWGG 2 cut(s) 463, 691
BstNSI RCATGY 3 cut(s) 65, 688, 748
BstPI GGTNACC 1 cut(s) 485
BstSCI CCNGG 2 cut(s) 461, 689
BstSFI CTRYAG 2 cut(s) 515, 866
BstSLI GKGCMC 1 cut(s) 375
BstV1I GCAGC 6 cut(s) 53, 353, 826, 880, 1051, 1128
BstX2I RGATCY 3 cut(s) 232, 1011, 1046
BstYI RGATCY 3 cut(s) 232, 1011, 1046
BsuRI GGCC 4 cut(s) 16, 131, 608, 1154
BtsCI GGATG 5 cut(s) 127, 279, 832, 891, 1307
BtsIMutI CAGTG 4 cut(s) 369, 375, 1153, 1297
BveI ACCTGC 2 cut(s) 335, 473
Cac8I GCNNGC 4 cut(s) 507, 632, 746, 1026
CaiI CAGNNNCTG 1 cut(s) 714
CciI TCATGA 1 cut(s) 774
Cfr13I GGNCC 2 cut(s) 1244, 1300
CsiI ACCWGGT 1 cut(s) 461
Csp6I GTAC 3 cut(s) 348, 359, 1042
CspCI CAANNNNNGTGG 2 cut(s) 541, 576
CviAII CATG 9 cut(s) 62, 118, 437, 652, 685, 739, 745, 775, 813
CviQI GTAC 3 cut(s) 348, 359, 1042
DdeI CTNAG 4 cut(s) 707, 818, 998, 1101
DpnI GATC 7 cut(s) 234, 330, 773, 890, 1013, 1048, 1206
DpnII GATC 7 cut(s) 232, 328, 771, 888, 1011, 1046, 1204
DraIII CACNNNGTG 1 cut(s) 1150
EaeI YGGCCR 2 cut(s) 129, 1152
Eam1104I CTCTTC 2 cut(s) 619, 765
EarI CTCTTC 2 cut(s) 619, 765
Ecl136II GAGCTC 2 cut(s) 399, 549
Eco130I CCWWGG 1 cut(s) 1018
Eco24I GRGCYC 2 cut(s) 401, 551
Eco32I GATATC 1 cut(s) 10
Eco47I GGWCC 2 cut(s) 1244, 1300
Eco53kI GAGCTC 2 cut(s) 399, 549
Eco88I CYCGRG 1 cut(s) 731
Eco91I GGTNACC 1 cut(s) 485
EcoICRI GAGCTC 2 cut(s) 399, 549
EcoO109I RGGNCCY 1 cut(s) 1244
EcoO65I GGTNACC 1 cut(s) 485
EcoRII CCWGG 2 cut(s) 461, 689
EcoRV GATATC 1 cut(s) 10
EcoT14I CCWWGG 1 cut(s) 1018
EcoT22I ATGCAT 2 cut(s) 442, 750
EcoT38I GRGCYC 2 cut(s) 401, 551
ErhI CCWWGG 1 cut(s) 1018
FaeI CATG 9 cut(s) 65, 121, 440, 655, 688, 742, 748, 778, 816
FaqI GGGAC 1 cut(s) 1284
FatI CATG 9 cut(s) 61, 117, 436, 651, 684, 738, 744, 774, 812
Fnu4HI GCNGC 7 cut(s) 42, 342, 840, 869, 1065, 1142, 1155
FokI GGATG 5 cut(s) 134, 286, 839, 898, 1294
FriOI GRGCYC 2 cut(s) 401, 551
Fsp4HI GCNGC 7 cut(s) 42, 342, 840, 869, 1065, 1142, 1155
FspBI CTAG 6 cut(s) 506, 764, 791, 930, 1019, 1248
GluI GCNGC 7 cut(s) 42, 342, 840, 869, 1065, 1142, 1155
GsaI CCCAGC 2 cut(s) 210, 383
HaeIII GGCC 4 cut(s) 16, 131, 608, 1154
Hin1II CATG 9 cut(s) 65, 121, 440, 655, 688, 742, 748, 778, 816
HincII GTYRAC 4 cut(s) 67, 459, 592, 682
HindII GTYRAC 4 cut(s) 67, 459, 592, 682
HinfI GANTC 2 cut(s) 711, 900
HpaI GTTAAC 3 cut(s) 459, 592, 682
HphI GGTGA 2 cut(s) 497, 613
Hpy166II GTNNAC 6 cut(s) 67, 359, 459, 592, 682, 1300
Hpy188I TCNGA 6 cut(s) 221, 283, 333, 572, 710, 810
Hpy188III TCNNGA 6 cut(s) 48, 390, 731, 775, 904, 1320
Hpy8I GTNNAC 6 cut(s) 67, 359, 459, 592, 682, 1300
HpyAV CCTTC 3 cut(s) 619, 1094, 1232
HpyCH4III ACNGT 5 cut(s) 85, 556, 948, 1148, 1292
HpyCH4IV ACGT 1 cut(s) 355
HpyF10VI GCNNNNNNNGC 1 cut(s) 1160
HpyF3I CTNAG 4 cut(s) 707, 818, 998, 1101
HpySE526I ACGT 1 cut(s) 355
Hsp92II CATG 9 cut(s) 65, 121, 440, 655, 688, 742, 748, 778, 816
KspAI GTTAAC 3 cut(s) 459, 592, 682
Kzo9I GATC 7 cut(s) 232, 328, 771, 888, 1011, 1046, 1204
LguI GCTCTTC 1 cut(s) 765
LmnI GCTCC 3 cut(s) 546, 554, 799
Lsp1109I GCAGC 6 cut(s) 53, 353, 826, 880, 1051, 1128
LweI GCATC 9 cut(s) 53, 112, 392, 480, 518, 617, 1103, 1150, 1316
MabI ACCWGGT 1 cut(s) 461
MaeI CTAG 6 cut(s) 506, 764, 791, 930, 1019, 1248
MaeII ACGT 1 cut(s) 355
MaeIII GTNAC 3 cut(s) 485, 716, 832
MalI GATC 7 cut(s) 234, 330, 773, 890, 1013, 1048, 1206
MboI GATC 7 cut(s) 232, 328, 771, 888, 1011, 1046, 1204
MboII GAAGA 3 cut(s) 606, 752, 1006
MflI RGATCY 3 cut(s) 232, 1011, 1046
MhlI GDGCHC 3 cut(s) 375, 401, 551
MlsI TGGCCA 1 cut(s) 131
MluCI AATT 4 cut(s) 153, 193, 312, 694
MluNI TGGCCA 1 cut(s) 131
MlyI GAGTC 1 cut(s) 894
MnlI CCTC 6 cut(s) 13, 537, 1062, 1174, 1235, 1277
Mox20I TGGCCA 1 cut(s) 131
Mph1103I ATGCAT 2 cut(s) 442, 750
MscI TGGCCA 1 cut(s) 131
MseI TTAA 7 cut(s) 147, 192, 458, 591, 599, 681, 1056
MslI CAYNNNNRTG 2 cut(s) 743, 753
Msp20I TGGCCA 1 cut(s) 131
MspA1I CMGCKG 3 cut(s) 296, 839, 1141
MspCI CTTAAG 1 cut(s) 598
MspR9I CCNGG 2 cut(s) 463, 691
Mva1269I GAATGC 4 cut(s) 440, 748, 966, 1133
MvaI CCWGG 2 cut(s) 463, 691
MwoI GCNNNNNNNGC 1 cut(s) 1160
NdeII GATC 7 cut(s) 232, 328, 771, 888, 1011, 1046, 1204
NheI GCTAGC 1 cut(s) 505
NlaIII CATG 9 cut(s) 65, 121, 440, 655, 688, 742, 748, 778, 816
NlaIV GGNNCC 1 cut(s) 300
NmuCI GTSAC 1 cut(s) 485
NsiI ATGCAT 2 cut(s) 442, 750
NspI RCATGY 3 cut(s) 65, 688, 748
PaeI GCATGC 1 cut(s) 748
PaeR7I CTCGAG 1 cut(s) 731
PagI TCATGA 1 cut(s) 774
PaqCI CACCTGC 1 cut(s) 473
PciI ACATGT 2 cut(s) 61, 684
PciSI GCTCTTC 1 cut(s) 765
PctI GAATGC 4 cut(s) 440, 748, 966, 1133
PfeI GAWTC 1 cut(s) 711
PfoI TCCNGGA 1 cut(s) 689
PkrI GCNGC 7 cut(s) 43, 343, 841, 870, 1066, 1143, 1156
PleI GAGTC 1 cut(s) 894
PpsI GAGTC 1 cut(s) 894
PpuMI RGGWCCY 1 cut(s) 1244
PscI ACATGT 2 cut(s) 61, 684
PsiI TTATAA 2 cut(s) 78, 699
Psp124BI GAGCTC 2 cut(s) 401, 551
Psp5II RGGWCCY 1 cut(s) 1244
Psp6I CCWGG 2 cut(s) 461, 689
PspEI GGTNACC 1 cut(s) 485
PspFI CCCAGC 2 cut(s) 206, 379
PspGI CCWGG 2 cut(s) 461, 689
PspN4I GGNNCC 1 cut(s) 300
PspPI GGNCC 2 cut(s) 1244, 1300
PspPPI RGGWCCY 1 cut(s) 1244
PstI CTGCAG 1 cut(s) 870
PstNI CAGNNNCTG 1 cut(s) 714
PsuI RGATCY 3 cut(s) 232, 1011, 1046
PvuII CAGCTG 2 cut(s) 839, 1141
RsaI GTAC 3 cut(s) 349, 360, 1043
RsaNI GTAC 3 cut(s) 348, 359, 1042
RseI CAYNNNNRTG 2 cut(s) 743, 753
SacI GAGCTC 2 cut(s) 401, 551
SapI GCTCTTC 1 cut(s) 765
SaqAI TTAA 7 cut(s) 147, 192, 458, 591, 599, 681, 1056
SatI GCNGC 7 cut(s) 42, 342, 840, 869, 1065, 1142, 1155
Sau3AI GATC 7 cut(s) 232, 328, 771, 888, 1011, 1046, 1204
Sau96I GGNCC 2 cut(s) 1244, 1300
SchI GAGTC 1 cut(s) 894
ScrFI CCNGG 2 cut(s) 463, 691
SduI GDGCHC 3 cut(s) 375, 401, 551
SexAI ACCWGGT 1 cut(s) 461
SfaNI GCATC 9 cut(s) 53, 112, 392, 480, 518, 617, 1103, 1150, 1316
SfcI CTRYAG 2 cut(s) 515, 866
Sfr274I CTCGAG 1 cut(s) 731
SinI GGWCC 2 cut(s) 1244, 1300
SlaI CTCGAG 1 cut(s) 731
SmiMI CAYNNNNRTG 2 cut(s) 743, 753
SmlI CTYRAG 2 cut(s) 598, 731
SmoI CTYRAG 2 cut(s) 598, 731
SphI GCATGC 1 cut(s) 748
Sse9I AATT 4 cut(s) 153, 193, 312, 694
SsiI CCGC 2 cut(s) 296, 1155
SspMI CTAG 6 cut(s) 506, 764, 791, 930, 1019, 1248
SstI GAGCTC 2 cut(s) 401, 551
StyD4I CCNGG 2 cut(s) 461, 689
StyI CCWWGG 1 cut(s) 1018
TaaI ACNGT 5 cut(s) 85, 556, 948, 1148, 1292
TaiI ACGT 1 cut(s) 358
TaqI TCGA 2 cut(s) 732, 905
TasI AATT 4 cut(s) 153, 193, 312, 694
TauI GCSGC 1 cut(s) 1157
TfiI GAWTC 1 cut(s) 711
Tru1I TTAA 7 cut(s) 147, 192, 458, 591, 599, 681, 1056
Tru9I TTAA 7 cut(s) 147, 192, 458, 591, 599, 681, 1056
TscAI CASTG 4 cut(s) 369, 375, 1153, 1297
TseFI GTSAC 1 cut(s) 485
TseI GCWGC 6 cut(s) 41, 341, 839, 868, 1064, 1141
Tsp45I GTSAC 1 cut(s) 485
TspDTI ATGAA 7 cut(s) 187, 433, 727, 791, 864, 957, 1047
TspRI CASTG 4 cut(s) 369, 375, 1153, 1297
Vha464I CTTAAG 1 cut(s) 598
VpaK11BI GGWCC 2 cut(s) 1244, 1300
XceI RCATGY 3 cut(s) 65, 688, 748
XhoI CTCGAG 1 cut(s) 731
XmaJI CCTAGG 1 cut(s) 1018
XspI CTAG 6 cut(s) 506, 764, 791, 930, 1019, 1248
Zsp2I ATGCAT 2 cut(s) 442, 750
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.