Rroxscaffold_3G00270230

domain in transcription factors and synapse-associated proteins

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000003
OG0003016
Physical Location & Seq
Reverse (-)
62841681 .. 62844319
2639 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00270230.1

Sequence Viewer

Length: 819 bp
ATGGAGTTATGGAACAAAGCCCGCGGCGTCGCCGAGGAGGCGGCGAAGCGATCGCAGGATCTCACGATCGGCGGCGCGTGGAAGCTCTCCGACACCGTCTCCGACACCGCCAAGCGCTCCAAGGAGATCATCGCCGCCGAGGCCTCCAAGCGAGCCGATCACATCAAGCAATTTGCCGACGCCTTTGCTCCGTCGCTACCGCAGCCACCTGCGGCGGAGAGTCCACAACAACAAGAACAAGAGAAGGATCTGGAAGCGTTTGGAATCACCGAGGAGTTGAGAGACTTCGCTAACGGAATGACTTTTGTCACGTTCAAAGATTTTCCTCTTCCAGATGATACACGATTCTCTGATGTTCCAACAGTCACAAATGTTAGGCAGGATCTTACGGAGTGGCAAGAAAAGCATGCCAATCTTGTTCTTTCGACCGTTGAGGAAATTTCAAAATTAAGATATGAGTTGTGTCCACGTGTTATGACCGAAAGGAAATTTTGGAGGATATATTTCATACTAGTTAACAATCATGTCGCACCCTATGAGAAGCGTTATCTGGAGGAAGTTAAGCAAAAGTCAACTGAACAATTTTTAGATGACAGAGTAAAGGAACCTACTAAAGTTGAAACAACTTCTAAAGCAGAGGATAAGGAAGAAAAACATCACACTAAAACTTCAACCTCATCAACTACGGATCAAGACTTGGATGCATTTCTCCTGGGGGACAGTGATGATGATCCAGATCATGATGGTGGGGACTTTGACTTTGATGGTGATTTCGACAAATTAGTGGACGGATCGGATGAAGAGAAGGACAAGTTGTAG
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
BSD

Protein Analysis

272

Amino Acids

31.06

Weight (kDa)

4.65

Isoelectric Point (pI)

48.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
BSD PF03909 130 - 176 7.1e-11 BSD domain
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 1 cut(s) 217
Acc36I ACCTGC 1 cut(s) 217
AccII CGCG 2 cut(s) 24, 77
AciI CCGC 9 cut(s) 22, 24, 41, 72, 108, 135, 200, 212, 215
AclWI GGATC 6 cut(s) 66, 255, 390, 696, 725, 799
AcsI RAATTY 2 cut(s) 438, 488
AcvI CACGTG 1 cut(s) 470
AcyI GRCGYC 2 cut(s) 27, 180
AfeI AGCGCT 1 cut(s) 116
AflIII ACRYGT 1 cut(s) 469
AgsI TTSAA 4 cut(s) 316, 444, 620, 672
AhlI ACTAGT 1 cut(s) 511
AjnI CCWGG 1 cut(s) 711
AluBI AGCT 1 cut(s) 85
AluI AGCT 1 cut(s) 85
Alw26I GTCTC 2 cut(s) 103, 276
AlwI GGATC 6 cut(s) 66, 255, 390, 696, 725, 799
Aor51HI AGCGCT 1 cut(s) 116
AoxI GGCC 1 cut(s) 141
ApeKI GCWGC 1 cut(s) 202
ApoI RAATTY 2 cut(s) 438, 488
ArsI GACNNNNNNTTYG 2 cut(s) 743, 775
AsiSI GCGATCGC 1 cut(s) 53
AspLEI GCGC 2 cut(s) 77, 117
AsuHPI GGTGA 2 cut(s) 259, 779
BbrPI CACGTG 1 cut(s) 470
BbvI GCAGC 1 cut(s) 214
BccI CCATC 2 cut(s) 737, 758
BcgI CGANNNNNNTGC 2 cut(s) 167, 201
BciT130I CCWGG 1 cut(s) 713
BcoDI GTCTC 2 cut(s) 103, 276
BcuI ACTAGT 1 cut(s) 511
BfaI CTAG 1 cut(s) 512
BfoI RGCGCY 1 cut(s) 118
BfuAI ACCTGC 1 cut(s) 217
BglI GCCNNNNNGGC 2 cut(s) 38, 140
BisI GCNGC 6 cut(s) 25, 42, 73, 135, 203, 213
BlsI GCNGC 6 cut(s) 26, 43, 74, 136, 204, 214
Bme1390I CCNGG 1 cut(s) 713
BmiI GGNNCC 1 cut(s) 606
BmrFI CCNGG 1 cut(s) 713
BmsI GCATC 1 cut(s) 691
BoxI GACNNNNGTC 1 cut(s) 305
BpmI CTGGAG 1 cut(s) 572
BsaAI YACGTR 1 cut(s) 470
BsaBI GATNNNNATC 2 cut(s) 729, 735
BsaHI GRCGYC 2 cut(s) 27, 180
BsaJI CCNNGG 6 cut(s) 22, 33, 120, 138, 270, 712
BsaXI ACNNNNNCTCC 2 cut(s) 83, 113
Bse8I GATNNNNATC 2 cut(s) 729, 735
BseBI CCWGG 1 cut(s) 713
BseDI CCNNGG 6 cut(s) 22, 33, 120, 138, 270, 712
BseGI GGATG 2 cut(s) 706, 802
BseJI GATNNNNATC 2 cut(s) 729, 735
BseRI GAGGAG 2 cut(s) 50, 287
BseXI GCAGC 1 cut(s) 214
Bsh1236I CGCG 2 cut(s) 24, 77
Bsh1285I CGRYCG 3 cut(s) 53, 69, 429
BshFI GGCC 1 cut(s) 143
BsiEI CGRYCG 3 cut(s) 53, 69, 429
BslFI GGGAC 2 cut(s) 731, 764
BsmAI GTCTC 2 cut(s) 103, 276
BsmBI CGTCTC 1 cut(s) 103
BsmFI GGGAC 2 cut(s) 731, 764
BsnI GGCC 1 cut(s) 143
BspACI CCGC 9 cut(s) 22, 24, 41, 72, 108, 135, 200, 212, 215
BspANI GGCC 1 cut(s) 143
BspFNI CGCG 2 cut(s) 24, 77
BspHI TCATGA 1 cut(s) 739
BspLI GGNNCC 1 cut(s) 606
BspMI ACCTGC 1 cut(s) 217
BspPI GGATC 6 cut(s) 66, 255, 390, 696, 725, 799
BssECI CCNNGG 6 cut(s) 22, 33, 120, 138, 270, 712
BssNI GRCGYC 2 cut(s) 27, 180
BssT1I CCWWGG 1 cut(s) 120
Bst2UI CCWGG 1 cut(s) 713
Bst4CI ACNGT 4 cut(s) 97, 364, 430, 722
Bst6I CTCTTC 2 cut(s) 333, 795
BstACI GRCGYC 2 cut(s) 27, 180
BstBAI YACGTR 1 cut(s) 470
BstC8I GCNNGC 3 cut(s) 22, 153, 408
BstDSI CCRYGG 1 cut(s) 22
BstF5I GGATG 2 cut(s) 706, 802
BstFNI CGCG 2 cut(s) 24, 77
BstH2I RGCGCY 1 cut(s) 118
BstHHI GCGC 2 cut(s) 77, 117
BstMAI GTCTC 2 cut(s) 103, 276
BstMCI CGRYCG 3 cut(s) 53, 69, 429
BstMWI GCNNNNNNNGC 4 cut(s) 38, 140, 202, 403
BstNI CCWGG 1 cut(s) 713
BstNSI RCATGY 1 cut(s) 410
BstPAI GACNNNNGTC 1 cut(s) 305
BstSCI CCNGG 1 cut(s) 711
BstUI CGCG 2 cut(s) 24, 77
BstV1I GCAGC 1 cut(s) 214
BstX2I RGATCY 3 cut(s) 58, 247, 382
BstYI RGATCY 3 cut(s) 58, 247, 382
BsuRI GGCC 1 cut(s) 143
BtgI CCRYGG 1 cut(s) 22
BtgZI GCGATG 1 cut(s) 115
BtsCI GGATG 2 cut(s) 706, 802
BtsIMutI CAGTG 1 cut(s) 727
BveI ACCTGC 1 cut(s) 217
Cac8I GCNNGC 3 cut(s) 22, 153, 408
CciI TCATGA 1 cut(s) 739
CfoI GCGC 2 cut(s) 77, 117
Cfr42I CCGCGG 1 cut(s) 25
CseI GACGC 2 cut(s) 16, 188
CviAII CATG 3 cut(s) 407, 524, 740
CviJI RGCY 5 cut(s) 20, 85, 143, 155, 205
CviKI_1 RGCY 5 cut(s) 20, 85, 143, 155, 205
Eam1104I CTCTTC 2 cut(s) 333, 795
EarI CTCTTC 2 cut(s) 333, 795
EciI GGCGGA 1 cut(s) 230
Eco130I CCWWGG 1 cut(s) 120
Eco147I AGGCCT 1 cut(s) 143
Eco47III AGCGCT 1 cut(s) 116
Eco72I CACGTG 1 cut(s) 470
EcoRII CCWGG 1 cut(s) 711
EcoT14I CCWWGG 1 cut(s) 120
EcoT22I ATGCAT 1 cut(s) 706
ErhI CCWWGG 1 cut(s) 120
Esp3I CGTCTC 1 cut(s) 103
FaeI CATG 3 cut(s) 410, 527, 743
FaiI YATR 9 cut(s) 10, 408, 456, 476, 502, 509, 525, 537, 741
FaqI GGGAC 2 cut(s) 731, 764
FatI CATG 3 cut(s) 406, 523, 739
FauI CCCGC 1 cut(s) 29
Fnu4HI GCNGC 6 cut(s) 25, 42, 73, 135, 203, 213
FokI GGATG 2 cut(s) 713, 809
Fsp4HI GCNGC 6 cut(s) 25, 42, 73, 135, 203, 213
FspBI CTAG 1 cut(s) 512
GlaI GCGC 2 cut(s) 76, 116
GluI GCNGC 6 cut(s) 25, 42, 73, 135, 203, 213
GsuI CTGGAG 1 cut(s) 572
HaeII RGCGCY 1 cut(s) 118
HaeIII GGCC 1 cut(s) 143
HgaI GACGC 2 cut(s) 16, 188
HhaI GCGC 2 cut(s) 77, 117
Hin1I GRCGYC 2 cut(s) 27, 180
Hin1II CATG 3 cut(s) 410, 527, 743
Hin6I GCGC 2 cut(s) 75, 115
HinP1I GCGC 2 cut(s) 75, 115
HincII GTYRAC 2 cut(s) 517, 573
HindII GTYRAC 2 cut(s) 517, 573
HinfI GANTC 3 cut(s) 220, 264, 345
HpaI GTTAAC 1 cut(s) 517
HphI GGTGA 2 cut(s) 259, 779
Hpy166II GTNNAC 5 cut(s) 224, 467, 517, 573, 787
Hpy188I TCNGA 4 cut(s) 91, 103, 352, 796
Hpy188III TCNNGA 7 cut(s) 64, 251, 332, 551, 692, 734, 740
Hpy8I GTNNAC 5 cut(s) 224, 467, 517, 573, 787
Hpy99I CGWCG 3 cut(s) 32, 182, 196
HpyAV CCTTC 2 cut(s) 238, 799
HpyCH4III ACNGT 4 cut(s) 97, 364, 430, 722
HpyCH4IV ACGT 2 cut(s) 311, 469
HpyCH4V TGCA 1 cut(s) 704
HpyF10VI GCNNNNNNNGC 4 cut(s) 38, 140, 202, 403
HpySE526I ACGT 2 cut(s) 311, 469
Hsp92I GRCGYC 2 cut(s) 27, 180
Hsp92II CATG 3 cut(s) 410, 527, 743
HspAI GCGC 2 cut(s) 75, 115
KspAI GTTAAC 1 cut(s) 517
KspI CCGCGG 1 cut(s) 25
LmnI GCTCC 2 cut(s) 122, 193
LpnPI CCDG 9 cut(s) 41, 222, 236, 345, 365, 536, 698, 725, 747
Lsp1109I GCAGC 1 cut(s) 214
LweI GCATC 1 cut(s) 691
MaeI CTAG 1 cut(s) 512
MaeII ACGT 2 cut(s) 311, 469
MaeIII GTNAC 2 cut(s) 307, 364
MboII GAAGA 3 cut(s) 320, 659, 812
MflI RGATCY 3 cut(s) 58, 247, 382
MluCI AATT 6 cut(s) 170, 438, 446, 488, 581, 779
MlyI GAGTC 1 cut(s) 229
MmeI TCCRAC 3 cut(s) 114, 126, 383
Mph1103I ATGCAT 1 cut(s) 706
MseI TTAA 3 cut(s) 449, 516, 561
MslI CAYNNNNRTG 1 cut(s) 744
MspA1I CMGCKG 1 cut(s) 24
MspR9I CCNGG 1 cut(s) 713
MvaI CCWGG 1 cut(s) 713
MvnI CGCG 2 cut(s) 24, 77
MwoI GCNNNNNNNGC 4 cut(s) 38, 140, 202, 403
NlaIII CATG 3 cut(s) 410, 527, 743
NlaIV GGNNCC 1 cut(s) 606
NmeAIII GCCGAG 2 cut(s) 58, 163
NmuCI GTSAC 2 cut(s) 307, 364
NsiI ATGCAT 1 cut(s) 706
NspI RCATGY 1 cut(s) 410
PaeI GCATGC 1 cut(s) 410
PagI TCATGA 1 cut(s) 739
PaqCI CACCTGC 1 cut(s) 217
PceI AGGCCT 1 cut(s) 143
PfeI GAWTC 2 cut(s) 264, 345
PflFI GACNNNGTC 1 cut(s) 95
PkrI GCNGC 6 cut(s) 26, 43, 74, 136, 204, 214
Ple19I CGATCG 2 cut(s) 53, 69
PleI GAGTC 1 cut(s) 228
PmaCI CACGTG 1 cut(s) 470
PmlI CACGTG 1 cut(s) 470
PpsI GAGTC 1 cut(s) 228
Ppu21I YACGTR 1 cut(s) 470
PshAI GACNNNNGTC 1 cut(s) 305
Psp6I CCWGG 1 cut(s) 711
PspCI CACGTG 1 cut(s) 470
PspGI CCWGG 1 cut(s) 711
PspN4I GGNNCC 1 cut(s) 606
PsuI RGATCY 3 cut(s) 58, 247, 382
PsyI GACNNNGTC 1 cut(s) 95
PvuI CGATCG 2 cut(s) 53, 69
RgaI GCGATCGC 1 cut(s) 53
RseI CAYNNNNRTG 1 cut(s) 744
SacII CCGCGG 1 cut(s) 25
SaqAI TTAA 3 cut(s) 449, 516, 561
SatI GCNGC 6 cut(s) 25, 42, 73, 135, 203, 213
SchI GAGTC 1 cut(s) 229
ScrFI CCNGG 1 cut(s) 713
SetI ASST 6 cut(s) 87, 211, 314, 472, 610, 677
SfaAI GCGATCGC 1 cut(s) 53
SfaNI GCATC 1 cut(s) 691
Sfr303I CCGCGG 1 cut(s) 25
SgfI GCGATCGC 1 cut(s) 53
SgrBI CCGCGG 1 cut(s) 25
SmiMI CAYNNNNRTG 1 cut(s) 744
SpeI ACTAGT 1 cut(s) 511
SphI GCATGC 1 cut(s) 410
Sse9I AATT 6 cut(s) 170, 438, 446, 488, 581, 779
SseBI AGGCCT 1 cut(s) 143
SsiI CCGC 9 cut(s) 22, 24, 41, 72, 108, 135, 200, 212, 215
SspMI CTAG 1 cut(s) 512
StuI AGGCCT 1 cut(s) 143
StyD4I CCNGG 1 cut(s) 711
StyI CCWWGG 1 cut(s) 120
TaaI ACNGT 4 cut(s) 97, 364, 430, 722
TaiI ACGT 2 cut(s) 314, 472
TaqI TCGA 2 cut(s) 425, 774
TaqII GACCGA 1 cut(s) 494
TasI AATT 6 cut(s) 170, 438, 446, 488, 581, 779
TauI GCSGC 5 cut(s) 27, 44, 75, 137, 215
TfiI GAWTC 2 cut(s) 264, 345
Tru1I TTAA 3 cut(s) 449, 516, 561
Tru9I TTAA 3 cut(s) 449, 516, 561
TscAI CASTG 1 cut(s) 727
TseFI GTSAC 2 cut(s) 307, 364
TseI GCWGC 1 cut(s) 202
Tsp45I GTSAC 2 cut(s) 307, 364
TspDTI ATGAA 2 cut(s) 496, 813
TspGWI ACGGA 5 cut(s) 180, 309, 404, 701, 804
TspRI CASTG 1 cut(s) 727
Tth111I GACNNNGTC 1 cut(s) 95
XapI RAATTY 2 cut(s) 438, 488
XceI RCATGY 1 cut(s) 410
XspI CTAG 1 cut(s) 512
Zsp2I ATGCAT 1 cut(s) 706
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.