Rroxscaffold_1G00006850

APO protein 4

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0002143
Physical Location & Seq
Forward (+)
8852071 .. 8855883
3813 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00006850.1

Sequence Viewer

Length: 984 bp
ATGGTGCTGAGGAGAAAATTGGGGGAGAGTTCGAATTTCAGTTACAAAATGATGTTGAGCTTTTCGAGGTATTACAGCTCAAACAAAGTGGACTTAAAGAAGCTGAGGCCTATGATTCTGAAGAGAATCCAGGACCGAGCTAAGGACTATCCGGTGCAGAGCATGATACCAGTGGCTGAGGAGGTCCTTAATTCCCGGAGGCTTCTTATTCAAGGCGTCTCTACCCTCCTCAAAGTGATCCCAGTTGTGGCCTGCAAACGTCGTGGCAGAAATCGGGTTCATGAGTGGATAACTGGTAGTTTGAAAGATGTACTTGTTCCAGTAGAGGCATTTCACTTGAAGCACATGTTCCAGGGTGTTATCAAACATAACCAAAGGTTTGATTATGACCGTGTTCCTGCAGTTGTTGAGCTGTGCTGGCAAGCAGGGGCAAATGATGAAAATCTGTATTCTGGTACTTGGAACCCAGAAAGTGATTGTGTTGCTGTTGAAGGAGCTGAGTCATTGTCACCTGCTGAACTCACTCTGGTTGCCAATGGAACTTTGAGGGCCTGGGAAATACTTAGAAATGGCGTGAAGAAATTGTTGATGGTTTATCCAGCAAAAGTGTGTAAAGACTGTTCAGAAGTCCATGTTGGGCCATCTGGGCATAAGGCGAGGCTTTGTGGACTTTTTAAGTATGAGCATTGGCAAGGAACCCACTTTTGGAGAAAAGCATCTGTAAATGATCTTGTTCCTCCAAACATTTTATGGCGGAGGCGGTGTCAAGATCCTCCTGTGCTTTTGAATGAAGGAAGGGGCTATTATGGGCATGCTCCAGCAGTAGTAGAACTATGTGCACAGGCAGGTGCTATTGTGCCTTCAAAGTATCGTTGTATGATGAAAGTGGAGGGTTTAACTTCAGTTGTAAATCAAGGTTTACCCCCTCCGCCATTTAACCTGACAGAACCATACAGGTTACTCCATCCGAAAGATCATGTTTAA
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
APO_RNA-bind

Protein Analysis

327

Amino Acids

37.15

Weight (kDa)

9.5

Isoelectric Point (pI)

48.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
APO_RNA-bind PF05634 28 - 87 4.6e-07 APO RNA-binding
APO_RNA-bind PF05634 89 - 145 2e-18 APO RNA-binding
APO_RNA-bind PF05634 173 - 287 1.4e-19 APO RNA-binding
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)
AarI CACCTGC 2 cut(s) 520, 836
Acc36I ACCTGC 2 cut(s) 520, 836
AciI CCGC 3 cut(s) 754, 760, 929
AclWI GGATC 2 cut(s) 232, 764
AcsI RAATTY 1 cut(s) 34
AcuI CTGAAG 2 cut(s) 140, 885
AcyI GRCGYC 1 cut(s) 216
AfaI GTAC 2 cut(s) 312, 457
AfiI CCNNNNNNNGG 3 cut(s) 142, 247, 705
AflIII ACRYGT 1 cut(s) 345
AgsI TTSAA 6 cut(s) 212, 304, 340, 491, 787, 864
AjnI CCWGG 3 cut(s) 129, 351, 551
AjuI GAANNNNNNNTTGG 4 cut(s) 618, 650, 688, 720
AluBI AGCT 6 cut(s) 60, 78, 103, 140, 412, 497
AluI AGCT 6 cut(s) 60, 78, 103, 140, 412, 497
Alw21I GWGCWC 1 cut(s) 841
Alw26I GTCTC 1 cut(s) 223
Alw44I GTGCAC 1 cut(s) 837
AlwI GGATC 2 cut(s) 232, 764
AlwNI CAGNNNCTG 1 cut(s) 176
AoxI GGCC 4 cut(s) 107, 249, 549, 638
ApaLI GTGCAC 1 cut(s) 837
ApoI RAATTY 1 cut(s) 34
AspS9I GGNCC 4 cut(s) 133, 184, 549, 638
AsuC2I CCSGG 1 cut(s) 196
AsuHPI GGTGA 1 cut(s) 501
AsuII TTCGAA 1 cut(s) 32
AvaII GGWCC 2 cut(s) 133, 184
BaeGI GKGCMC 1 cut(s) 841
Bbv12I GWGCWC 1 cut(s) 841
BbvCI CCTCAGC 3 cut(s) 8, 104, 177
BccI CCATC 3 cut(s) 583, 649, 972
BciT130I CCWGG 3 cut(s) 131, 353, 553
BcnI CCSGG 1 cut(s) 196
BcoDI GTCTC 1 cut(s) 223
BfmI CTRYAG 1 cut(s) 399
BfuAI ACCTGC 2 cut(s) 520, 836
BglI GCCNNNNNGGC 1 cut(s) 646
Bme1390I CCNGG 4 cut(s) 131, 196, 353, 553
Bme18I GGWCC 2 cut(s) 133, 184
BmgT120I GGNCC 4 cut(s) 133, 184, 549, 638
BmiI GGNNCC 2 cut(s) 464, 697
BmrFI CCNGG 4 cut(s) 131, 196, 353, 553
BmrI ACTGGG 1 cut(s) 236
BmsI GCATC 1 cut(s) 725
BmuI ACTGGG 1 cut(s) 236
BpmI CTGGAG 1 cut(s) 801
Bpu10I CCTNAGC 4 cut(s) 8, 104, 141, 177
Bpu14I TTCGAA 1 cut(s) 32
BpuMI CCSGG 1 cut(s) 196
BsaBI GATNNNNATC 1 cut(s) 441
BsaHI GRCGYC 1 cut(s) 216
BsaJI CCNNGG 2 cut(s) 352, 552
BsaWI WCCGGW 1 cut(s) 151
BsaXI ACNNNNNCTCC 2 cut(s) 748, 778
Bsc4I CCNNNNNNNGG 3 cut(s) 142, 247, 705
Bse1I ACTGG 4 cut(s) 170, 242, 298, 320
Bse8I GATNNNNATC 1 cut(s) 441
BseBI CCWGG 3 cut(s) 131, 353, 553
BseDI CCNNGG 2 cut(s) 352, 552
BseGI GGATG 1 cut(s) 964
BseJI GATNNNNATC 1 cut(s) 441
BseLI CCNNNNNNNGG 3 cut(s) 142, 247, 705
BseMII CTCAG 3 cut(s) 95, 168, 489
BseNI ACTGG 4 cut(s) 170, 242, 298, 320
BseRI GAGGAG 3 cut(s) 25, 194, 218
BseSI GKGCMC 1 cut(s) 841
BsgI GTGCAG 1 cut(s) 176
BshFI GGCC 4 cut(s) 109, 251, 551, 640
BsiHKAI GWGCWC 1 cut(s) 841
BsiSI CCGG 2 cut(s) 152, 196
BslI CCNNNNNNNGG 3 cut(s) 142, 247, 705
BsmAI GTCTC 1 cut(s) 223
BsmBI CGTCTC 1 cut(s) 223
BsnI GGCC 4 cut(s) 109, 251, 551, 640
Bsp119I TTCGAA 1 cut(s) 32
Bsp1286I GDGCHC 1 cut(s) 841
Bsp143I GATC 4 cut(s) 237, 727, 769, 973
BspACI CCGC 3 cut(s) 754, 760, 929
BspANI GGCC 4 cut(s) 109, 251, 551, 640
BspCNI CTCAG 3 cut(s) 96, 169, 490
BspHI TCATGA 1 cut(s) 280
BspLI GGNNCC 2 cut(s) 464, 697
BspMAI CTGCAG 1 cut(s) 403
BspMI ACCTGC 2 cut(s) 520, 836
BspPI GGATC 2 cut(s) 232, 764
BspT104I TTCGAA 1 cut(s) 32
BsrI ACTGG 4 cut(s) 170, 242, 298, 320
BssECI CCNNGG 2 cut(s) 352, 552
BssMI GATC 4 cut(s) 237, 727, 769, 973
BssNI GRCGYC 1 cut(s) 216
Bst2UI CCWGG 3 cut(s) 131, 353, 553
Bst4CI ACNGT 2 cut(s) 392, 620
Bst6I CTCTTC 1 cut(s) 116
BstACI GRCGYC 1 cut(s) 216
BstBI TTCGAA 1 cut(s) 32
BstC8I GCNNGC 4 cut(s) 253, 419, 423, 813
BstDEI CTNAG 6 cut(s) 8, 104, 141, 177, 498, 563
BstF5I GGATG 1 cut(s) 964
BstKTI GATC 4 cut(s) 240, 730, 772, 976
BstMAI GTCTC 1 cut(s) 223
BstMBI GATC 4 cut(s) 237, 727, 769, 973
BstMWI GCNNNNNNNGC 2 cut(s) 418, 646
BstNI CCWGG 3 cut(s) 131, 353, 553
BstNSI RCATGY 2 cut(s) 349, 815
BstSCI CCNGG 4 cut(s) 129, 194, 351, 551
BstSFI CTRYAG 1 cut(s) 399
BstSLI GKGCMC 1 cut(s) 841
BstX2I RGATCY 1 cut(s) 769
BstYI RGATCY 1 cut(s) 769
BsuRI GGCC 4 cut(s) 109, 251, 551, 640
BtsCI GGATG 1 cut(s) 964
BtsIMutI CAGTG 1 cut(s) 177
BveI ACCTGC 2 cut(s) 520, 836
Cac8I GCNNGC 4 cut(s) 253, 419, 423, 813
CaiI CAGNNNCTG 1 cut(s) 176
CciI TCATGA 1 cut(s) 280
Cfr13I GGNCC 4 cut(s) 133, 184, 549, 638
CseI GACGC 1 cut(s) 205
Csp6I GTAC 2 cut(s) 311, 456
CspCI CAANNNNNGTGG 4 cut(s) 69, 104, 244, 279
CviAII CATG 6 cut(s) 163, 281, 346, 632, 812, 977
CviQI GTAC 2 cut(s) 311, 456
DdeI CTNAG 6 cut(s) 8, 104, 141, 177, 498, 563
DpnI GATC 4 cut(s) 239, 729, 771, 975
DpnII GATC 4 cut(s) 237, 727, 769, 973
Eam1104I CTCTTC 1 cut(s) 116
EarI CTCTTC 1 cut(s) 116
EciI GGCGGA 2 cut(s) 769, 918
Eco147I AGGCCT 1 cut(s) 109
Eco47I GGWCC 2 cut(s) 133, 184
Eco57I CTGAAG 2 cut(s) 140, 885
EcoO109I RGGNCCY 2 cut(s) 184, 549
EcoRII CCWGG 3 cut(s) 129, 351, 551
Esp3I CGTCTC 1 cut(s) 223
FaeI CATG 6 cut(s) 166, 284, 349, 635, 815, 980
FalI AAGNNNNNCTT 2 cut(s) 297, 329
FatI CATG 6 cut(s) 162, 280, 345, 631, 811, 976
FokI GGATG 1 cut(s) 951
GsuI CTGGAG 1 cut(s) 801
HaeIII GGCC 4 cut(s) 109, 251, 551, 640
HapII CCGG 2 cut(s) 152, 196
HgaI GACGC 1 cut(s) 205
Hin1I GRCGYC 1 cut(s) 216
Hin1II CATG 6 cut(s) 166, 284, 349, 635, 815, 980
HinfI GANTC 3 cut(s) 115, 126, 500
HpaII CCGG 2 cut(s) 152, 196
HphI GGTGA 1 cut(s) 501
Hpy166II GTNNAC 4 cut(s) 91, 668, 839, 920
Hpy188I TCNGA 3 cut(s) 120, 625, 969
Hpy188III TCNNGA 2 cut(s) 281, 767
Hpy8I GTNNAC 4 cut(s) 91, 668, 839, 920
Hpy99I CGWCG 1 cut(s) 264
HpyAV CCTTC 4 cut(s) 485, 785, 789, 870
HpyCH4III ACNGT 2 cut(s) 392, 620
HpyCH4IV ACGT 1 cut(s) 259
HpyCH4V TGCA 4 cut(s) 157, 255, 401, 839
HpyF10VI GCNNNNNNNGC 2 cut(s) 418, 646
HpyF3I CTNAG 6 cut(s) 8, 104, 141, 177, 498, 563
HpySE526I ACGT 1 cut(s) 259
Hsp92I GRCGYC 1 cut(s) 216
Hsp92II CATG 6 cut(s) 166, 284, 349, 635, 815, 980
Kzo9I GATC 4 cut(s) 237, 727, 769, 973
LmnI GCTCC 2 cut(s) 494, 820
LweI GCATC 1 cut(s) 725
MaeII ACGT 1 cut(s) 259
MaeIII GTNAC 3 cut(s) 41, 507, 957
MalI GATC 4 cut(s) 239, 729, 771, 975
MboI GATC 4 cut(s) 237, 727, 769, 973
MboII GAAGA 2 cut(s) 133, 589
MflI RGATCY 1 cut(s) 769
MhlI GDGCHC 1 cut(s) 841
MluCI AATT 4 cut(s) 17, 34, 190, 581
MlyI GAGTC 1 cut(s) 509
MseI TTAA 6 cut(s) 95, 189, 675, 896, 936, 982
MspI CCGG 2 cut(s) 152, 196
MspR9I CCNGG 4 cut(s) 131, 196, 353, 553
MvaI CCWGG 3 cut(s) 131, 353, 553
MwoI GCNNNNNNNGC 2 cut(s) 418, 646
NciI CCSGG 1 cut(s) 196
NdeII GATC 4 cut(s) 237, 727, 769, 973
NlaIII CATG 6 cut(s) 166, 284, 349, 635, 815, 980
NlaIV GGNNCC 2 cut(s) 464, 697
NmuCI GTSAC 1 cut(s) 507
NspI RCATGY 2 cut(s) 349, 815
NspV TTCGAA 1 cut(s) 32
PaeI GCATGC 1 cut(s) 815
PagI TCATGA 1 cut(s) 280
PaqCI CACCTGC 2 cut(s) 520, 836
PceI AGGCCT 1 cut(s) 109
PciI ACATGT 1 cut(s) 345
PfeI GAWTC 2 cut(s) 115, 126
PfoI TCCNGGA 2 cut(s) 129, 194
PleI GAGTC 1 cut(s) 508
PpsI GAGTC 1 cut(s) 508
PpuMI RGGWCCY 1 cut(s) 184
PscI ACATGT 1 cut(s) 345
Psp5II RGGWCCY 1 cut(s) 184
Psp6I CCWGG 3 cut(s) 129, 351, 551
PspGI CCWGG 3 cut(s) 129, 351, 551
PspN4I GGNNCC 2 cut(s) 464, 697
PspPI GGNCC 4 cut(s) 133, 184, 549, 638
PspPPI RGGWCCY 1 cut(s) 184
PsrI GAACNNNNNNTAC 2 cut(s) 604, 636
PstI CTGCAG 1 cut(s) 403
PstNI CAGNNNCTG 1 cut(s) 176
PsuI RGATCY 1 cut(s) 769
RsaI GTAC 2 cut(s) 312, 457
RsaNI GTAC 2 cut(s) 311, 456
SaqAI TTAA 6 cut(s) 95, 189, 675, 896, 936, 982
Sau3AI GATC 4 cut(s) 237, 727, 769, 973
Sau96I GGNCC 4 cut(s) 133, 184, 549, 638
SchI GAGTC 1 cut(s) 509
ScrFI CCNGG 4 cut(s) 131, 196, 353, 553
SduI GDGCHC 1 cut(s) 841
SfaNI GCATC 1 cut(s) 725
SfcI CTRYAG 1 cut(s) 399
SfuI TTCGAA 1 cut(s) 32
SinI GGWCC 2 cut(s) 133, 184
SphI GCATGC 1 cut(s) 815
Sse9I AATT 4 cut(s) 17, 34, 190, 581
SseBI AGGCCT 1 cut(s) 109
SsiI CCGC 3 cut(s) 754, 760, 929
StuI AGGCCT 1 cut(s) 109
StyD4I CCNGG 4 cut(s) 129, 194, 351, 551
TaaI ACNGT 2 cut(s) 392, 620
TaiI ACGT 1 cut(s) 262
TaqI TCGA 2 cut(s) 32, 65
TaqII GACCGA 1 cut(s) 150
TasI AATT 4 cut(s) 17, 34, 190, 581
TatI WGTACW 1 cut(s) 310
TfiI GAWTC 2 cut(s) 115, 126
Tru1I TTAA 6 cut(s) 95, 189, 675, 896, 936, 982
Tru9I TTAA 6 cut(s) 95, 189, 675, 896, 936, 982
TscAI CASTG 1 cut(s) 177
TseFI GTSAC 1 cut(s) 507
Tsp45I GTSAC 1 cut(s) 507
TspDTI ATGAA 4 cut(s) 269, 453, 804, 896
TspRI CASTG 1 cut(s) 177
VneI GTGCAC 1 cut(s) 837
VpaK11BI GGWCC 2 cut(s) 133, 184
XapI RAATTY 1 cut(s) 34
XceI RCATGY 2 cut(s) 349, 815
XcmI CCANNNNNNNNNTGG 1 cut(s) 747
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.