Rorug06G0121300

Hippocampus abundant

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000006
OG0001419
Physical Location & Seq
Reverse (-)
16709152 .. 16714742
5591 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0121300.1

Sequence Viewer

Length: 1134 bp
ATGTCAGTCGCCGAGCTCAAGGAGCGCCACGCGGCGGCCAGCGAGACGGTCAACTCGCTCCGGGAGCGGTTGAAGCAGAAGCGAGCCTCGTTGCTGGACACCGATGTGGCTGGTTATGCAAGGTCTCAGGGGAAGGCTGCCCTTACTTTTGGCCCTACTGATCTTGTTTGCTGCAGAACATTGCAGGGTCATACCGGAAAGGTGTATTCATTAGATTGGACTCCAGAAAGGAATCGAATTGTTAGTGCATCCCAAGATGGGAGATTGATAGTCTGGAATGCACTAACAAGCCAGAAGACCCATGCCATAAAGCTGCCTTGTGCATGGGTCATGACTTGTGCTTTTTCACCAACTGGTCAATCTGTTGCTTGTGGTGGTCTTGATAGTGTTTGCTCGATATTCAACTTGAGTTCCCCGTGCGACAAGGATGGGAATCTGCCCGTGTCAAGAACGCTTAATGGGCATAAGGGTTATGTTTCTGCTTGCCAATATGTTCCAGATGAAGATACTCACTTGATTACTGGATCCGGTGACCAAACATGTGTCTTGTGGGATATTACTACTGGACTCAGGACTTCAGTTTTTGGAGGCGAGTTTCAGTCTGGACACACTGCAGACGTACTGAGTGTCTCCATCTGTCAAACCAACTCGAGATTGTTTGTATCTGGTTCTTGTGATGCAACCGCGCGATTGTGGGACACTCGTGTTGCAAGTCGAGCAGTGCGGACTTTTCATGGTCATGAGGGAGATGTCAATGCAGTGAAGTTCTTTCCAGATGGTAATAGATTTGGAACTGGGTCAGATGATGGAACTTGTAGGTTATTTGACATAAGGACTGGCCACCAACTCCAAGTATACCACCAGCAACATGGTGATAATGAAAGCCCACCTGTGAAAACCATTGCATTCTCAATATCAGGAAGGCTTCTGTTTGCTGGATACACAAATGGTGATTGCTATGTATGGGATACTTTGTTGGCAAGGGTGGTTTTGAACTTGGGATCTCTCCAAAACTCACATGAGGCCCAGATTAGCTGTTTGGGTTTGTCAGCTGATGGAAGTGCATTGTGTACTGGAAGTTGGGATACTAATTTAAAGATATGGGCTTTTGGAGGGCATAGGAAAATAATTTGA
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
MFS_1

Protein Analysis

377

Amino Acids

40.8

Weight (kDa)

7.16

Isoelectric Point (pI)

30.78

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
WD40_Gbeta PF25391 49 - 368 4.4e-101 G protein beta WD-40 repeat protein
WD40 PF00400 56 - 93 3.9e-09 WD domain, G-beta repeat
Beta-prop_CAF1B_HIR1 PF24105 56 - 138 7.2e-11 CAF1B/HIR1 beta-propeller domain
WD40_CDC20-Fz PF24807 56 - 190 5.2e-15 CDC20/Fizzy WD40 domain
Beta-prop_WDR5 PF25175 56 - 136 2.2e-12 WDR5 beta-propeller domain
Beta-prop_WDR3_1st PF25173 57 - 137 2.3e-09 WDR3 first beta-propeller domain
WD40_Prp19 PF24814 57 - 138 4.3e-09 Prp19 WD40 domain
Beta-prop_THOC3 PF25174 59 - 136 1.2e-12 THOC3 beta-propeller domain
WD40_WDHD1_1st PF24817 59 - 188 6.6e-09 WDHD1 first WD40 domain
EIF3I PF24805 60 - 123 2.8e-06 EIF3I
Beta-prop_EML PF23409 62 - 277 1.5e-08 Echinoderm microtubule-associated protein first beta-propeller
Beta-prop_EML_2 PF23414 67 - 190 5e-10 Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR36-Utp21_1st PF25171 78 - 231 1.3e-08 WDR36/Utp21 first beta-propeller
Beta-prop_WDR3_1st PF25173 89 - 277 1.6e-25 WDR3 first beta-propeller domain
Beta-prop_THOC3 PF25174 109 - 193 1.3e-11 THOC3 beta-propeller domain
WDR55 PF24796 109 - 247 1.5e-06 WDR55
Beta-prop_WDR5 PF25175 110 - 329 4.4e-34 WDR5 beta-propeller domain
Beta-prop_TEP1_2nd PF25047 142 - 257 4.5e-14 TEP-1 second beta-propeller
WD40 PF00400 150 - 185 3e-06 WD domain, G-beta repeat
WD40_Prp19 PF24814 159 - 369 1e-26 Prp19 WD40 domain
Beta-prop_THOC3 PF25174 201 - 369 4.6e-24 THOC3 beta-propeller domain
Beta-prop_CAF1B_HIR1 PF24105 201 - 289 1.7e-09 CAF1B/HIR1 beta-propeller domain
Beta-prop_WDR3_2nd PF25172 202 - 292 8.8e-06 WDR3 second beta-propeller domain
WD40_WDHD1_1st PF24817 204 - 370 3.3e-13 WDHD1 first WD40 domain
WD40_CDC20-Fz PF24807 209 - 304 2e-10 CDC20/Fizzy WD40 domain
Beta-prop_EML_2 PF23414 214 - 370 1.2e-13 Echinoderm microtubule-associated protein second beta-propeller
Beta-prop_WDR90_POC16_2nd PF23393 218 - 324 3.2e-07 WDR90/POC16, second beta-propeller
Beta-prop_WDR36-Utp21_1st PF25171 223 - 370 2.4e-11 WDR36/Utp21 first beta-propeller
WD40 PF00400 241 - 276 1.2e-09 WD domain, G-beta repeat
Beta-prop_WDR3_2nd PF25172 241 - 373 3.9e-06 WDR3 second beta-propeller domain
WDR55 PF24796 241 - 370 2.2e-08 WDR55
EIF3I PF24805 242 - 312 1.6e-06 EIF3I
Beta-prop_WDR3_1st PF25173 274 - 370 3.1e-10 WDR3 first beta-propeller domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 1 cut(s) 67
AccI GTMKAC 1 cut(s) 855
AccII CGCG 3 cut(s) 32, 686, 688
AciI CCGC 5 cut(s) 32, 35, 67, 684, 724
AclWI GGATC 3 cut(s) 519, 532, 1009
AcoI YGGCCR 2 cut(s) 36, 838
AcuI CTGAAG 1 cut(s) 561
AfaI GTAC 2 cut(s) 621, 1072
AfiI CCNNNNNNNGG 2 cut(s) 34, 258
AflIII ACRYGT 1 cut(s) 539
AgsI TTSAA 3 cut(s) 73, 403, 994
AleI CACNNNNGTG 1 cut(s) 104
AluBI AGCT 4 cut(s) 16, 313, 1035, 1052
AluI AGCT 4 cut(s) 16, 313, 1035, 1052
Alw21I GWGCWC 1 cut(s) 18
Alw26I GTCTC 3 cut(s) 38, 129, 634
AlwI GGATC 3 cut(s) 519, 532, 1009
Ama87I CYCGRG 1 cut(s) 649
AoxI GGCC 4 cut(s) 36, 151, 838, 1023
ApeKI GCWGC 3 cut(s) 137, 171, 313
AspLEI GCGC 2 cut(s) 27, 688
AspS9I GGNCC 2 cut(s) 152, 1024
AsuC2I CCSGG 1 cut(s) 62
AsuHPI GGTGA 4 cut(s) 339, 542, 884, 962
AvaI CYCGRG 1 cut(s) 649
BalI TGGCCA 1 cut(s) 840
BamHI GGATCC 1 cut(s) 524
BanII GRGCYC 1 cut(s) 18
BarI GAAGNNNNNNTAC 2 cut(s) 1069, 1101
BauI CACGAG 1 cut(s) 702
BbsI GAAGAC 1 cut(s) 302
Bbv12I GWGCWC 1 cut(s) 18
BbvI GCAGC 3 cut(s) 124, 158, 300
BccI CCATC 6 cut(s) 251, 422, 641, 770, 800, 1049
BciVI GTATCC 3 cut(s) 932, 961, 1078
BcnI CCSGG 1 cut(s) 62
BcoDI GTCTC 3 cut(s) 38, 129, 634
BfmI CTRYAG 2 cut(s) 172, 612
BfoI RGCGCY 1 cut(s) 28
BfuI GTATCC 3 cut(s) 932, 961, 1078
BisI GCNGC 5 cut(s) 33, 36, 138, 172, 314
BlsI GCNGC 5 cut(s) 34, 37, 139, 173, 315
Bme1390I CCNGG 1 cut(s) 62
BmeT110I CYCGRG 1 cut(s) 649
BmgT120I GGNCC 2 cut(s) 152, 1024
BmiI GGNNCC 1 cut(s) 526
BmrFI CCNGG 1 cut(s) 62
BmrI ACTGGG 1 cut(s) 804
BmsI GCATC 2 cut(s) 257, 667
BmuI ACTGGG 1 cut(s) 804
BpiI GAAGAC 1 cut(s) 302
BpmI CTGGAG 1 cut(s) 207
BpuEI CTTGAG 1 cut(s) 427
BpuMI CCSGG 1 cut(s) 62
BsaBI GATNNNNATC 1 cut(s) 432
BsaI GGTCTC 1 cut(s) 129
BsaWI WCCGGW 2 cut(s) 194, 527
Bsc4I CCNNNNNNNGG 2 cut(s) 34, 258
Bse1I ACTGG 6 cut(s) 358, 526, 568, 799, 841, 1078
Bse3DI GCAATG 2 cut(s) 179, 900
Bse8I GATNNNNATC 1 cut(s) 432
BseGI GGATG 2 cut(s) 248, 433
BseJI GATNNNNATC 1 cut(s) 432
BseLI CCNNNNNNNGG 2 cut(s) 34, 258
BseMI GCAATG 2 cut(s) 179, 900
BseMII CTCAG 3 cut(s) 140, 583, 614
BseNI ACTGG 6 cut(s) 358, 526, 568, 799, 841, 1078
BseXI GCAGC 3 cut(s) 124, 158, 300
Bsh1236I CGCG 3 cut(s) 32, 686, 688
BshFI GGCC 4 cut(s) 38, 153, 840, 1025
BsiHKAI GWGCWC 1 cut(s) 18
BsiHKCI CYCGRG 1 cut(s) 649
BsiSI CCGG 3 cut(s) 61, 195, 528
BslFI GGGAC 1 cut(s) 710
BslI CCNNNNNNNGG 2 cut(s) 34, 258
BsmAI GTCTC 3 cut(s) 38, 129, 634
BsmBI CGTCTC 1 cut(s) 38
BsmFI GGGAC 1 cut(s) 710
BsmI GAATGC 2 cut(s) 283, 905
BsnI GGCC 4 cut(s) 38, 153, 840, 1025
Bso31I GGTCTC 1 cut(s) 129
BsoBI CYCGRG 1 cut(s) 649
Bsp1286I GDGCHC 1 cut(s) 18
Bsp143I GATC 3 cut(s) 160, 524, 1001
BspACI CCGC 5 cut(s) 32, 35, 67, 684, 724
BspANI GGCC 4 cut(s) 38, 153, 840, 1025
BspCNI CTCAG 3 cut(s) 139, 582, 615
BspFNI CGCG 3 cut(s) 32, 686, 688
BspHI TCATGA 2 cut(s) 330, 739
BspLI GGNNCC 1 cut(s) 526
BspMAI CTGCAG 2 cut(s) 176, 616
BspPI GGATC 3 cut(s) 519, 532, 1009
BspTNI GGTCTC 1 cut(s) 129
BsrBI CCGCTC 1 cut(s) 67
BsrDI GCAATG 2 cut(s) 179, 900
BsrI ACTGG 6 cut(s) 358, 526, 568, 799, 841, 1078
BssMI GATC 3 cut(s) 160, 524, 1001
BssNAI GTATAC 1 cut(s) 856
BssSI CACGAG 1 cut(s) 702
Bst1107I GTATAC 1 cut(s) 856
Bst2BI CACGAG 1 cut(s) 702
Bst4CI ACNGT 1 cut(s) 49
BstC8I GCNNGC 3 cut(s) 40, 84, 484
BstDEI CTNAG 3 cut(s) 126, 569, 623
BstEII GGTNACC 1 cut(s) 530
BstF5I GGATG 2 cut(s) 248, 433
BstFNI CGCG 3 cut(s) 32, 686, 688
BstH2I RGCGCY 1 cut(s) 28
BstHHI GCGC 2 cut(s) 27, 688
BstKTI GATC 3 cut(s) 163, 527, 1004
BstMAI GTCTC 3 cut(s) 38, 129, 634
BstMBI GATC 3 cut(s) 160, 524, 1001
BstMWI GCNNNNNNNGC 6 cut(s) 22, 64, 73, 116, 460, 716
BstNSI RCATGY 1 cut(s) 543
BstPI GGTNACC 1 cut(s) 530
BstSCI CCNGG 1 cut(s) 60
BstSFI CTRYAG 2 cut(s) 172, 612
BstUI CGCG 3 cut(s) 32, 686, 688
BstV1I GCAGC 3 cut(s) 124, 158, 300
BstV2I GAAGAC 1 cut(s) 302
BstX2I RGATCY 2 cut(s) 524, 1001
BstXI CCANNNNNNTGG 1 cut(s) 869
BstYI RGATCY 2 cut(s) 524, 1001
BstZ17I GTATAC 1 cut(s) 856
BsuI GTATCC 3 cut(s) 932, 961, 1078
BsuRI GGCC 4 cut(s) 38, 153, 840, 1025
BtsCI GGATG 2 cut(s) 248, 433
BtsI GCAGTG 3 cut(s) 609, 726, 765
BtsIMutI CAGTG 3 cut(s) 609, 726, 765
Cac8I GCNNGC 3 cut(s) 40, 84, 484
CciI TCATGA 2 cut(s) 330, 739
CfoI GCGC 2 cut(s) 27, 688
Cfr13I GGNCC 2 cut(s) 152, 1024
Csp6I GTAC 2 cut(s) 620, 1071
CviAII CATG 8 cut(s) 302, 324, 331, 540, 734, 740, 869, 1019
CviQI GTAC 2 cut(s) 620, 1071
DdeI CTNAG 3 cut(s) 126, 569, 623
DpnI GATC 3 cut(s) 162, 526, 1003
DpnII GATC 3 cut(s) 160, 524, 1001
DraI TTTAAA 1 cut(s) 1095
EaeI YGGCCR 2 cut(s) 36, 838
Ecl136II GAGCTC 1 cut(s) 16
Eco24I GRGCYC 1 cut(s) 18
Eco31I GGTCTC 1 cut(s) 129
Eco53kI GAGCTC 1 cut(s) 16
Eco57I CTGAAG 1 cut(s) 561
Eco88I CYCGRG 1 cut(s) 649
Eco91I GGTNACC 1 cut(s) 530
EcoICRI GAGCTC 1 cut(s) 16
EcoO65I GGTNACC 1 cut(s) 530
EcoT38I GRGCYC 1 cut(s) 18
Esp3I CGTCTC 1 cut(s) 38
FaeI CATG 8 cut(s) 305, 327, 334, 543, 737, 743, 872, 1022
FaqI GGGAC 1 cut(s) 710
FatI CATG 8 cut(s) 301, 323, 330, 539, 733, 739, 868, 1018
FblI GTMKAC 1 cut(s) 855
Fnu4HI GCNGC 5 cut(s) 33, 36, 138, 172, 314
FokI GGATG 2 cut(s) 235, 440
FriOI GRGCYC 1 cut(s) 18
Fsp4HI GCNGC 5 cut(s) 33, 36, 138, 172, 314
GlaI GCGC 2 cut(s) 26, 687
GluI GCNGC 5 cut(s) 33, 36, 138, 172, 314
GsuI CTGGAG 1 cut(s) 207
HaeII RGCGCY 1 cut(s) 28
HaeIII GGCC 4 cut(s) 38, 153, 840, 1025
HapII CCGG 3 cut(s) 61, 195, 528
HhaI GCGC 2 cut(s) 27, 688
Hin1II CATG 8 cut(s) 305, 327, 334, 543, 737, 743, 872, 1022
Hin6I GCGC 2 cut(s) 25, 686
HinP1I GCGC 2 cut(s) 25, 686
HincII GTYRAC 1 cut(s) 52
HindII GTYRAC 1 cut(s) 52
HinfI GANTC 4 cut(s) 220, 232, 433, 567
HpaII CCGG 3 cut(s) 61, 195, 528
HphI GGTGA 4 cut(s) 339, 542, 884, 962
Hpy166II GTNNAC 3 cut(s) 52, 856, 1071
Hpy188I TCNGA 1 cut(s) 802
Hpy8I GTNNAC 3 cut(s) 52, 856, 1071
HpyAV CCTTC 2 cut(s) 127, 915
HpyCH4III ACNGT 1 cut(s) 49
HpyCH4IV ACGT 1 cut(s) 618
HpyF10VI GCNNNNNNNGC 6 cut(s) 22, 64, 73, 116, 460, 716
HpyF3I CTNAG 3 cut(s) 126, 569, 623
HpySE526I ACGT 1 cut(s) 618
Hsp92II CATG 8 cut(s) 305, 327, 334, 543, 737, 743, 872, 1022
HspAI GCGC 2 cut(s) 25, 686
Kzo9I GATC 3 cut(s) 160, 524, 1001
LmnI GCTCC 3 cut(s) 22, 63, 64
Lsp1109I GCAGC 3 cut(s) 124, 158, 300
LweI GCATC 2 cut(s) 257, 667
MaeII ACGT 1 cut(s) 618
MaeIII GTNAC 1 cut(s) 530
MalI GATC 3 cut(s) 162, 526, 1003
MbiI CCGCTC 1 cut(s) 67
MboI GATC 3 cut(s) 160, 524, 1001
MboII GAAGA 2 cut(s) 307, 515
MflI RGATCY 2 cut(s) 524, 1001
MhlI GDGCHC 1 cut(s) 18
MlsI TGGCCA 1 cut(s) 840
MluCI AATT 3 cut(s) 237, 1090, 1128
MluNI TGGCCA 1 cut(s) 840
MlyI GAGTC 2 cut(s) 214, 561
MnlI CCTC 5 cut(s) 97, 581, 736, 1015, 1106
Mox20I TGGCCA 1 cut(s) 840
MscI TGGCCA 1 cut(s) 840
MseI TTAA 2 cut(s) 456, 1094
MslI CAYNNNNRTG 2 cut(s) 104, 738
Msp20I TGGCCA 1 cut(s) 840
MspA1I CMGCKG 1 cut(s) 1052
MspI CCGG 3 cut(s) 61, 195, 528
MspR9I CCNGG 1 cut(s) 62
Mva1269I GAATGC 2 cut(s) 283, 905
MvnI CGCG 3 cut(s) 32, 686, 688
MwoI GCNNNNNNNGC 6 cut(s) 22, 64, 73, 116, 460, 716
NciI CCSGG 1 cut(s) 62
NdeII GATC 3 cut(s) 160, 524, 1001
NlaIII CATG 8 cut(s) 305, 327, 334, 543, 737, 743, 872, 1022
NlaIV GGNNCC 1 cut(s) 526
NmeAIII GCCGAG 1 cut(s) 37
NmuCI GTSAC 1 cut(s) 530
NspI RCATGY 1 cut(s) 543
OliI CACNNNNGTG 1 cut(s) 104
PaeR7I CTCGAG 1 cut(s) 649
PagI TCATGA 2 cut(s) 330, 739
PciI ACATGT 1 cut(s) 539
PctI GAATGC 2 cut(s) 283, 905
PfeI GAWTC 2 cut(s) 232, 433
PfoI TCCNGGA 1 cut(s) 60
PkrI GCNGC 5 cut(s) 34, 37, 139, 173, 315
PleI GAGTC 2 cut(s) 214, 561
PpsI GAGTC 2 cut(s) 214, 561
PscI ACATGT 1 cut(s) 539
Psp124BI GAGCTC 1 cut(s) 18
PspEI GGTNACC 1 cut(s) 530
PspN4I GGNNCC 1 cut(s) 526
PspPI GGNCC 2 cut(s) 152, 1024
PstI CTGCAG 2 cut(s) 176, 616
PsuI RGATCY 2 cut(s) 524, 1001
PvuII CAGCTG 1 cut(s) 1052
RsaI GTAC 2 cut(s) 621, 1072
RsaNI GTAC 2 cut(s) 620, 1071
RseI CAYNNNNRTG 2 cut(s) 104, 738
SacI GAGCTC 1 cut(s) 18
SaqAI TTAA 2 cut(s) 456, 1094
SatI GCNGC 5 cut(s) 33, 36, 138, 172, 314
Sau3AI GATC 3 cut(s) 160, 524, 1001
Sau96I GGNCC 2 cut(s) 152, 1024
SchI GAGTC 2 cut(s) 214, 561
ScrFI CCNGG 1 cut(s) 62
SduI GDGCHC 1 cut(s) 18
SetI ASST 9 cut(s) 18, 125, 204, 315, 621, 821, 892, 1037, 1054
SfaNI GCATC 2 cut(s) 257, 667
SfcI CTRYAG 2 cut(s) 172, 612
Sfr274I CTCGAG 1 cut(s) 649
SlaI CTCGAG 1 cut(s) 649
SmiMI CAYNNNNRTG 2 cut(s) 104, 738
SmlI CTYRAG 3 cut(s) 17, 406, 649
SmoI CTYRAG 3 cut(s) 17, 406, 649
Sse9I AATT 3 cut(s) 237, 1090, 1128
SsiI CCGC 5 cut(s) 32, 35, 67, 684, 724
SstI GAGCTC 1 cut(s) 18
StyD4I CCNGG 1 cut(s) 60
TaaI ACNGT 1 cut(s) 49
TaiI ACGT 1 cut(s) 621
TaqI TCGA 4 cut(s) 235, 395, 650, 715
TasI AATT 3 cut(s) 237, 1090, 1128
TatI WGTACW 1 cut(s) 1070
TauI GCSGC 2 cut(s) 35, 38
TfiI GAWTC 2 cut(s) 232, 433
Tru1I TTAA 2 cut(s) 456, 1094
Tru9I TTAA 2 cut(s) 456, 1094
TscAI CASTG 3 cut(s) 616, 726, 765
TseFI GTSAC 1 cut(s) 530
TseI GCWGC 3 cut(s) 137, 171, 313
Tsp45I GTSAC 1 cut(s) 530
TspDTI ATGAA 4 cut(s) 198, 516, 722, 894
TspRI CASTG 3 cut(s) 616, 726, 765
XceI RCATGY 1 cut(s) 543
XcmI CCANNNNNNNNNTGG 1 cut(s) 866
XhoI CTCGAG 1 cut(s) 649
XmiI GTMKAC 1 cut(s) 855
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.