Rh1BG406900

Belongs to the spermidine spermine synthase family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr1B
OG0018087
Physical Location & Seq
Forward (+)
52876847 .. 52882364
5518 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh1BG406900.1

Sequence Viewer

Length: 885 bp
ATGTGGCCTGGTGAAGCTCACTCACTGAAAGTAGAAAACATTCTATTCAAGGATAAATCAGAGTTCCAAGAGGTTTTGGTTTTTGAGTCTTCAACATATGGAAAAGTGCTTGTTCTTGATGGCATCATTCAGCTGAGTGAGAAGGACGAATGTGCATACCAGGAGATGATAACTCATCTACCTCTTTGTTCGATTCCCTCCCCAAAAAATGTTCTGGTTGTCGGTGGTGGTGATGGCGGAGTTCTTAGGGAGATATCGCGCCATCCTTCTGTTGAGCATATTGATATATGTGAGATAGATAAGATGGTTATAGATGTGTCTAAGAAGTTTTTTCCAGAGTTAGCTGTTGGATTTGAGGACCCTCGTGTCCATCTGCATGTTGGTGATGCTACTGAATTCTTGAGGCATGCACCTGAAGGGAAGTATGATGCTATAATTGTTGATTCATCAGATCCTGTAGGTCCTGCTCAAGAGCTTGTAGAGAAGCCATTTTTTGAGACAATCGCTAGAGCATTAAGGCCTGGCGGTGTTCTCTGTAACATGGCAGAGAGTATGTGGCTCCATACACATCTTATTGAAGATATGATCTCTGTTTGCCATCTAACATTCAAGGGGTCAGTCAACTATGCATGGGCGAGTGTTCCTACATATCCAAGTGGTGTTATAGGTTTTCTGCTATGCTCAACAGAAGGGCCTCCTGTTGATTTTAAAAATCCAGTCAACTCCATTGAGAAGTTGGAAGGAGCTGTCAAACACAGAAGAGAACTTCGGTTCTATAACTCTGAGATGCACTCAGCTGCCTTTGCCCTGCCTGCTTTTTTGAGGAAGGAGGTGAGCGCACTCCGTGATTCTTCAACTCCAGCAAGACAAAGCGGCTTGTCCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00270 ko00330 ko00410 ko00480 ko01100 map00270 map00330 map00410 map00480 map01100
Pfam Domains
Protein Families
Spermine_synt_N Spermine_synth

Protein Analysis

294

Amino Acids

32.56

Weight (kDa)

5.38

Isoelectric Point (pI)

54.4

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Spermine_synt_N PF17284 3 - 47 1.5e-18 Spermidine synthase tetramerisation domain
Spermine_synth PF01564 50 - 238 5.7e-71 Spermine/spermidine synthase 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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Orthologous Genes (Group: OG0018087)

Species Orthologous Gene IDs
fragaria_vesca FvH4_7g31860
malus_domestica MD07G1292400.v1.1
prunus_persica Prupe.2G312400_v2.0.a1 Prupe.2G312400_v2.0.a1 Prupe.2G312400_v2.0.a1
pyrus_communis pycom01g23060
rosa_laevigata RLG00000026245
rosa_rugosa Rorug01G0427500 Rorug01G0427700
rosa_samantha Rh1AG450700 Rh1BG406900

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 365
AccII CGCG 1 cut(s) 259
AciI CCGC 3 cut(s) 237, 525, 873
AclWI GGATC 1 cut(s) 446
AcsI RAATTY 1 cut(s) 395
AcuI CTGAAG 1 cut(s) 435
AdeI CACNNNGTG 1 cut(s) 845
AgsI TTSAA 5 cut(s) 49, 93, 578, 610, 855
AjnI CCWGG 3 cut(s) 7, 159, 520
AluBI AGCT 6 cut(s) 17, 133, 344, 475, 746, 797
AluI AGCT 6 cut(s) 17, 133, 344, 475, 746, 797
Alw26I GTCTC 1 cut(s) 491
AlwI GGATC 1 cut(s) 446
AlwNI CAGNNNCTG 1 cut(s) 455
AoxI GGCC 3 cut(s) 5, 518, 692
ApeKI GCWGC 1 cut(s) 797
ApoI RAATTY 1 cut(s) 395
Asp700I GAANNNNTTC 1 cut(s) 39
AspLEI GCGC 2 cut(s) 261, 839
AspS9I GGNCC 3 cut(s) 358, 461, 692
AsuHPI GGTGA 4 cut(s) 23, 242, 395, 844
AvaII GGWCC 2 cut(s) 358, 461
BauI CACGAG 1 cut(s) 363
BbsI GAAGAC 1 cut(s) 81
BbvI GCAGC 1 cut(s) 784
BccI CCATC 6 cut(s) 113, 227, 270, 298, 378, 606
BciT130I CCWGG 3 cut(s) 9, 161, 522
BcoDI GTCTC 1 cut(s) 491
BfaI CTAG 2 cut(s) 507, 883
BfmI CTRYAG 1 cut(s) 456
BisI GCNGC 2 cut(s) 798, 874
BlsI GCNGC 2 cut(s) 799, 875
Bme1390I CCNGG 3 cut(s) 9, 161, 522
Bme18I GGWCC 2 cut(s) 358, 461
BmgT120I GGNCC 3 cut(s) 358, 461, 692
BmiI GGNNCC 2 cut(s) 360, 560
BmrFI CCNGG 3 cut(s) 9, 161, 522
BmsI GCATC 4 cut(s) 132, 376, 418, 777
BpiI GAAGAC 1 cut(s) 81
BplI GAGNNNNNCTC 2 cut(s) 776, 808
BpmI CTGGAG 1 cut(s) 843
BpuEI CTTGAG 2 cut(s) 421, 453
Bse1I ACTGG 1 cut(s) 716
BseBI CCWGG 3 cut(s) 9, 161, 522
BseGI GGATG 1 cut(s) 262
BseMII CTCAG 3 cut(s) 125, 774, 807
BseNI ACTGG 1 cut(s) 716
BseXI GCAGC 1 cut(s) 784
Bsh1236I CGCG 1 cut(s) 259
BshFI GGCC 3 cut(s) 7, 520, 694
BsmAI GTCTC 1 cut(s) 491
BsnI GGCC 3 cut(s) 7, 520, 694
Bsp143I GATC 2 cut(s) 451, 585
BspACI CCGC 3 cut(s) 237, 525, 873
BspANI GGCC 3 cut(s) 7, 520, 694
BspCNI CTCAG 3 cut(s) 126, 775, 806
BspFNI CGCG 1 cut(s) 259
BspLI GGNNCC 2 cut(s) 360, 560
BspPI GGATC 1 cut(s) 446
BsrI ACTGG 1 cut(s) 716
BssMI GATC 2 cut(s) 451, 585
BssSI CACGAG 1 cut(s) 363
Bst2BI CACGAG 1 cut(s) 363
Bst2UI CCWGG 3 cut(s) 9, 161, 522
Bst6I CTCTTC 1 cut(s) 754
BstC8I GCNNGC 2 cut(s) 408, 813
BstDEI CTNAG 5 cut(s) 134, 245, 321, 783, 793
BstF5I GGATG 1 cut(s) 262
BstFNI CGCG 1 cut(s) 259
BstHHI GCGC 2 cut(s) 261, 839
BstKTI GATC 2 cut(s) 454, 588
BstMAI GTCTC 1 cut(s) 491
BstMBI GATC 2 cut(s) 451, 585
BstMWI GCNNNNNNNGC 2 cut(s) 803, 812
BstNI CCWGG 3 cut(s) 9, 161, 522
BstNSI RCATGY 2 cut(s) 380, 410
BstSCI CCNGG 3 cut(s) 7, 159, 520
BstSFI CTRYAG 1 cut(s) 456
BstUI CGCG 1 cut(s) 259
BstV1I GCAGC 1 cut(s) 784
BstV2I GAAGAC 1 cut(s) 81
BstX2I RGATCY 1 cut(s) 451
BstYI RGATCY 1 cut(s) 451
BsuRI GGCC 3 cut(s) 7, 520, 694
BtsCI GGATG 1 cut(s) 262
BtsIMutI CAGTG 1 cut(s) 23
Cac8I GCNNGC 2 cut(s) 408, 813
CaiI CAGNNNCTG 1 cut(s) 455
CfoI GCGC 2 cut(s) 261, 839
Cfr13I GGNCC 3 cut(s) 358, 461, 692
CviAII CATG 4 cut(s) 377, 407, 541, 630
DdeI CTNAG 5 cut(s) 134, 245, 321, 783, 793
DpnI GATC 2 cut(s) 453, 587
DpnII GATC 2 cut(s) 451, 585
DraI TTTAAA 1 cut(s) 709
DraIII CACNNNGTG 1 cut(s) 845
DrdI GACNNNNNNGTC 1 cut(s) 365
DseDI GACNNNNNNGTC 1 cut(s) 365
Eam1104I CTCTTC 1 cut(s) 754
EarI CTCTTC 1 cut(s) 754
EciI GGCGGA 1 cut(s) 252
Eco147I AGGCCT 1 cut(s) 520
Eco32I GATATC 1 cut(s) 255
Eco47I GGWCC 2 cut(s) 358, 461
Eco57I CTGAAG 1 cut(s) 435
EcoO109I RGGNCCY 3 cut(s) 358, 461, 692
EcoRI GAATTC 1 cut(s) 395
EcoRII CCWGG 3 cut(s) 7, 159, 520
EcoRV GATATC 1 cut(s) 255
EcoT22I ATGCAT 1 cut(s) 631
FaeI CATG 4 cut(s) 380, 410, 544, 633
FatI CATG 4 cut(s) 376, 406, 540, 629
FauNDI CATATG 1 cut(s) 97
Fnu4HI GCNGC 2 cut(s) 798, 874
FokI GGATG 1 cut(s) 249
Fsp4HI GCNGC 2 cut(s) 798, 874
FspBI CTAG 2 cut(s) 507, 883
GlaI GCGC 2 cut(s) 260, 838
GluI GCNGC 2 cut(s) 798, 874
GsuI CTGGAG 1 cut(s) 843
HaeIII GGCC 3 cut(s) 7, 520, 694
HhaI GCGC 2 cut(s) 261, 839
Hin1II CATG 4 cut(s) 380, 410, 544, 633
Hin6I GCGC 2 cut(s) 259, 837
HinP1I GCGC 2 cut(s) 259, 837
HincII GTYRAC 2 cut(s) 622, 721
HindII GTYRAC 2 cut(s) 622, 721
HinfI GANTC 4 cut(s) 86, 193, 443, 848
HphI GGTGA 4 cut(s) 23, 242, 395, 844
Hpy166II GTNNAC 2 cut(s) 622, 721
Hpy188I TCNGA 3 cut(s) 61, 451, 784
Hpy188III TCNNGA 4 cut(s) 116, 335, 400, 470
Hpy8I GTNNAC 2 cut(s) 622, 721
HpyAV CCTTC 6 cut(s) 136, 276, 410, 683, 734, 820
HpyCH4V TGCA 5 cut(s) 155, 376, 410, 629, 790
HpyF10VI GCNNNNNNNGC 2 cut(s) 803, 812
HpyF3I CTNAG 5 cut(s) 134, 245, 321, 783, 793
Hsp92II CATG 4 cut(s) 380, 410, 544, 633
HspAI GCGC 2 cut(s) 259, 837
Kzo9I GATC 2 cut(s) 451, 585
LmnI GCTCC 2 cut(s) 564, 743
Lsp1109I GCAGC 1 cut(s) 784
LweI GCATC 4 cut(s) 132, 376, 418, 777
MaeI CTAG 2 cut(s) 507, 883
MaeIII GTNAC 1 cut(s) 536
MalI GATC 2 cut(s) 453, 587
MboI GATC 2 cut(s) 451, 585
MboII GAAGA 4 cut(s) 81, 590, 771, 843
MflI RGATCY 1 cut(s) 451
MluCI AATT 2 cut(s) 395, 435
MlyI GAGTC 1 cut(s) 95
MmeI TCCRAC 2 cut(s) 328, 717
MnlI CCTC 9 cut(s) 64, 192, 208, 349, 372, 396, 705, 816, 823
Mph1103I ATGCAT 1 cut(s) 631
MroXI GAANNNNTTC 1 cut(s) 39
MseI TTAA 2 cut(s) 515, 708
MslI CAYNNNNRTG 2 cut(s) 375, 381
MspA1I CMGCKG 2 cut(s) 133, 797
MspR9I CCNGG 3 cut(s) 9, 161, 522
MvaI CCWGG 3 cut(s) 9, 161, 522
MvnI CGCG 1 cut(s) 259
MwoI GCNNNNNNNGC 2 cut(s) 803, 812
NdeI CATATG 1 cut(s) 97
NdeII GATC 2 cut(s) 451, 585
NlaIII CATG 4 cut(s) 380, 410, 544, 633
NlaIV GGNNCC 2 cut(s) 360, 560
NsiI ATGCAT 1 cut(s) 631
NspI RCATGY 2 cut(s) 380, 410
PaeI GCATGC 1 cut(s) 410
PceI AGGCCT 1 cut(s) 520
PdmI GAANNNNTTC 1 cut(s) 39
PfeI GAWTC 3 cut(s) 193, 443, 848
PkrI GCNGC 2 cut(s) 799, 875
PleI GAGTC 1 cut(s) 94
PpsI GAGTC 1 cut(s) 94
PpuMI RGGWCCY 2 cut(s) 358, 461
Psp5II RGGWCCY 2 cut(s) 358, 461
Psp6I CCWGG 3 cut(s) 7, 159, 520
PspGI CCWGG 3 cut(s) 7, 159, 520
PspN4I GGNNCC 2 cut(s) 360, 560
PspPI GGNCC 3 cut(s) 358, 461, 692
PspPPI RGGWCCY 2 cut(s) 358, 461
PstNI CAGNNNCTG 1 cut(s) 455
PsuI RGATCY 1 cut(s) 451
PvuII CAGCTG 2 cut(s) 133, 797
RseI CAYNNNNRTG 2 cut(s) 375, 381
SaqAI TTAA 2 cut(s) 515, 708
SatI GCNGC 2 cut(s) 798, 874
Sau3AI GATC 2 cut(s) 451, 585
Sau96I GGNCC 3 cut(s) 358, 461, 692
SchI GAGTC 1 cut(s) 95
ScrFI CCNGG 3 cut(s) 9, 161, 522
SfaNI GCATC 4 cut(s) 132, 376, 418, 777
SfcI CTRYAG 1 cut(s) 456
SinI GGWCC 2 cut(s) 358, 461
SmiMI CAYNNNNRTG 2 cut(s) 375, 381
SmlI CTYRAG 2 cut(s) 400, 468
SmoI CTYRAG 2 cut(s) 400, 468
SphI GCATGC 1 cut(s) 410
Sse9I AATT 2 cut(s) 395, 435
SseBI AGGCCT 1 cut(s) 520
SsiI CCGC 3 cut(s) 237, 525, 873
SspMI CTAG 2 cut(s) 507, 883
StuI AGGCCT 1 cut(s) 520
StyD4I CCNGG 3 cut(s) 7, 159, 520
TaqI TCGA 1 cut(s) 191
TasI AATT 2 cut(s) 395, 435
TauI GCSGC 1 cut(s) 876
TfiI GAWTC 3 cut(s) 193, 443, 848
Tru1I TTAA 2 cut(s) 515, 708
Tru9I TTAA 2 cut(s) 515, 708
TscAI CASTG 1 cut(s) 30
TseI GCWGC 1 cut(s) 797
TspDTI ATGAA 1 cut(s) 435
TspGWI ACGGA 1 cut(s) 833
TspRI CASTG 1 cut(s) 30
VpaK11BI GGWCC 2 cut(s) 358, 461
XapI RAATTY 1 cut(s) 395
XceI RCATGY 2 cut(s) 380, 410
XcmI CCANNNNNNNNNTGG 2 cut(s) 377, 733
XmnI GAANNNNTTC 1 cut(s) 39
XspI CTAG 2 cut(s) 507, 883
Zsp2I ATGCAT 1 cut(s) 631
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.