AT5G53120

Belongs to the spermidine spermine synthase family

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0004702
Physical Location & Seq
Forward (+)
21534473 .. 21537816
3344 bp
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UTR
Exon/CDS
Intron
AT5G53120.7

Sequence Viewer

Length: 1080 bp
ATGGAGGGAGACGTCGGAATAGGTTTGGTATGCCAGAATACTATGGATGGGAAGGCGAGTAATGGAAATGGTTTAGAGAAGACTGTACCTTCTTGTTGCCTTAAGGCTATGGCATGTGTACCTGAGGATGATGCTAAGTGTCACTCCACTGTTGTTTCTGGGTGGTTTTCGGAACCTCACCCTCGCTCTGGGAAAAAAGGCGGCAAAGCAGTCTATTTCAACAACCCTATGTGGCCAGGAGAAGCACACTCACTGAAAGTTGAGAAAGTTCTGTTCAAAGACAAGTCGGATTTTCAGGAAGTCCTAGTGTTCGAGTCAGCCACGTACGGAAAGGTGCTTGTTCTAGATGGTATCGTACAGCTGACCGAAAAAGATGAATGTGCATATCAGGAGATGATAGCCCATCTGCCTTTATGCTCTATATCTTCCCCTAAAAATGTTCTTGTTGTTGGTGGAGGTGATGGTGGTGTTCTTCGAGAGATTTCTCGCCATAGTTCTGTTGAGGTTATTGATATCTGTGAGATAGACAAGATGGTTATAGATGTGTCTAAGAAGTTCTTCCCCGAGTTAGCGGTTGGGTTTGACGATCCTCGTGTTCAACTTCACATTGGTGATGCTGCTGAGTTCCTCCGTAAATCCCCTGAAGGGAAGTATGATGCCATCATTGTTGATTCTTCAGATCCCGTAGGTCCTGCTCTTGCGCTTGTTGAGAAGCCTTTCTTCGAGACACTGGCTAGAGCGTTGAAGCCTGGGGGAGTTCTTTGTAACATGGCAGAAAGTATGTGGCTCCATACTCATCTTATTGAAGATATGATCTCCATTTGCCGTCAAACATTCAAAAGTGTTCACTATGCGTGGAGCAGCGTCCCCACATATCCAAGCGGCGTGATTGGTTTCGTCTTGTGCTCTACTGAAGGACCAGCTGTTGACTTCAAGAACCCAATCAACCCTATTGAGAAACTAGACGGTGCGATGACCCATAAAAGAGAATTGAAGTTCTATAACTCTGATATGCACAGAGCCGCATTTGCTTTGCCCACATTCCTGCGGAGAGAAGTAGCTTCACTTCTGGCTTCTTGA
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

359

Amino Acids

39.24

Weight (kDa)

5.6

Isoelectric Point (pI)

42.99

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Spermine_synt_N PF17284 93 - 140 7.1e-20 Spermidine synthase tetramerisation domain
Spermine_synth PF01564 143 - 330 2e-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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 15
AciI CCGC 5 cut(s) 201, 572, 882, 1023, 1048
AclWI GGATC 2 cut(s) 581, 674
AcoI YGGCCR 1 cut(s) 233
AcuI CTGAAG 3 cut(s) 660, 663, 933
AcyI GRCGYC 1 cut(s) 12
AfaI GTAC 4 cut(s) 87, 120, 326, 357
AfiI CCNNNNNNNGG 2 cut(s) 188, 645
AflII CTTAAG 1 cut(s) 101
AgsI TTSAA 8 cut(s) 220, 277, 599, 745, 806, 838, 934, 994
AjnI CCWGG 2 cut(s) 235, 748
AleI CACNNNNGTG 1 cut(s) 609
AluBI AGCT 3 cut(s) 361, 923, 1061
AluI AGCT 3 cut(s) 361, 923, 1061
Alw21I GWGCWC 1 cut(s) 908
Alw26I GTCTC 2 cut(s) 3, 719
AlwI GGATC 2 cut(s) 581, 674
Ama87I CYCGRG 1 cut(s) 563
AoxI GGCC 1 cut(s) 233
ApeKI GCWGC 2 cut(s) 617, 861
Asp700I GAANNNNTTC 2 cut(s) 557, 716
AspLEI GCGC 1 cut(s) 703
AspS9I GGNCC 2 cut(s) 689, 917
AsuHPI GGTGA 3 cut(s) 170, 470, 623
AvaI CYCGRG 1 cut(s) 563
AvaII GGWCC 2 cut(s) 689, 917
AxyI CCTNAGG 1 cut(s) 123
BalI TGGCCA 1 cut(s) 235
BarI GAAGNNNNNNTAC 1 cut(s) 1050
BauI CACGAG 1 cut(s) 591
BbsI GAAGAC 1 cut(s) 86
Bbv12I GWGCWC 1 cut(s) 908
BbvI GCAGC 2 cut(s) 604, 873
BccI CCATC 6 cut(s) 41, 341, 411, 455, 526, 668
BceAI ACGGC 1 cut(s) 810
BciT130I CCWGG 2 cut(s) 237, 750
BcoDI GTCTC 2 cut(s) 3, 719
BfaI CTAG 4 cut(s) 305, 344, 735, 962
BfrI CTTAAG 1 cut(s) 101
BisI GCNGC 5 cut(s) 202, 618, 862, 883, 1023
BlsI GCNGC 5 cut(s) 203, 619, 863, 884, 1024
Bme1390I CCNGG 2 cut(s) 237, 750
Bme18I GGWCC 2 cut(s) 689, 917
BmeT110I CYCGRG 1 cut(s) 563
BmgT120I GGNCC 2 cut(s) 689, 917
BmiI GGNNCC 2 cut(s) 174, 788
BmrFI CCNGG 2 cut(s) 237, 750
BmsI GCATC 3 cut(s) 121, 604, 646
BpiI GAAGAC 1 cut(s) 86
BsaAI YACGTR 1 cut(s) 324
BsaHI GRCGYC 1 cut(s) 12
BsaJI CCNNGG 1 cut(s) 749
Bsc4I CCNNNNNNNGG 2 cut(s) 188, 645
Bse1I ACTGG 1 cut(s) 735
Bse21I CCTNAGG 1 cut(s) 123
BseBI CCWGG 2 cut(s) 237, 750
BseDI CCNNGG 1 cut(s) 749
BseGI GGATG 2 cut(s) 52, 133
BseLI CCNNNNNNNGG 2 cut(s) 188, 645
BseMII CTCAG 2 cut(s) 114, 612
BseNI ACTGG 1 cut(s) 735
BseXI GCAGC 2 cut(s) 604, 873
BshFI GGCC 1 cut(s) 235
BsiHKAI GWGCWC 1 cut(s) 908
BsiHKCI CYCGRG 1 cut(s) 563
BsiWI CGTACG 1 cut(s) 324
BslFI GGGAC 1 cut(s) 851
BslI CCNNNNNNNGG 2 cut(s) 188, 645
BsmAI GTCTC 2 cut(s) 3, 719
BsmBI CGTCTC 1 cut(s) 3
BsmFI GGGAC 1 cut(s) 851
BsnI GGCC 1 cut(s) 235
BsoBI CYCGRG 1 cut(s) 563
Bsp1286I GDGCHC 1 cut(s) 908
Bsp143I GATC 3 cut(s) 586, 679, 813
BspACI CCGC 5 cut(s) 201, 572, 882, 1023, 1048
BspANI GGCC 1 cut(s) 235
BspCNI CTCAG 2 cut(s) 115, 613
BspLI GGNNCC 2 cut(s) 174, 788
BspPI GGATC 2 cut(s) 581, 674
BspTI CTTAAG 1 cut(s) 101
BsrI ACTGG 1 cut(s) 735
BssECI CCNNGG 1 cut(s) 749
BssMI GATC 3 cut(s) 586, 679, 813
BssNI GRCGYC 1 cut(s) 12
BssSI CACGAG 1 cut(s) 591
Bst2BI CACGAG 1 cut(s) 591
Bst2UI CCWGG 2 cut(s) 237, 750
Bst4CI ACNGT 3 cut(s) 85, 151, 968
BstACI GRCGYC 1 cut(s) 12
BstAFI CTTAAG 1 cut(s) 101
BstBAI YACGTR 1 cut(s) 324
BstDEI CTNAG 4 cut(s) 123, 135, 549, 621
BstF5I GGATG 2 cut(s) 52, 133
BstHHI GCGC 1 cut(s) 703
BstKTI GATC 3 cut(s) 589, 682, 816
BstMAI GTCTC 2 cut(s) 3, 719
BstMBI GATC 3 cut(s) 586, 679, 813
BstMWI GCNNNNNNNGC 1 cut(s) 1028
BstNI CCWGG 2 cut(s) 237, 750
BstNSI RCATGY 1 cut(s) 117
BstSCI CCNGG 2 cut(s) 235, 748
BstV1I GCAGC 2 cut(s) 604, 873
BstV2I GAAGAC 1 cut(s) 86
BstX2I RGATCY 1 cut(s) 679
BstYI RGATCY 1 cut(s) 679
Bsu36I CCTNAGG 1 cut(s) 123
BsuRI GGCC 1 cut(s) 235
BtgZI GCGATG 1 cut(s) 986
BtsCI GGATG 2 cut(s) 52, 133
BtsIMutI CAGTG 3 cut(s) 147, 251, 728
CfoI GCGC 1 cut(s) 703
Cfr13I GGNCC 2 cut(s) 689, 917
CseI GACGC 1 cut(s) 853
Csp6I GTAC 4 cut(s) 86, 119, 325, 356
CviAII CATG 2 cut(s) 114, 769
CviQI GTAC 4 cut(s) 86, 119, 325, 356
DdeI CTNAG 4 cut(s) 123, 135, 549, 621
DpnI GATC 3 cut(s) 588, 681, 815
DpnII GATC 3 cut(s) 586, 679, 813
EaeI YGGCCR 1 cut(s) 233
Eco32I GATATC 1 cut(s) 514
Eco47I GGWCC 2 cut(s) 689, 917
Eco57I CTGAAG 3 cut(s) 660, 663, 933
Eco81I CCTNAGG 1 cut(s) 123
Eco88I CYCGRG 1 cut(s) 563
EcoO109I RGGNCCY 1 cut(s) 689
EcoRII CCWGG 2 cut(s) 235, 748
EcoRV GATATC 1 cut(s) 514
Esp3I CGTCTC 1 cut(s) 3
FaeI CATG 2 cut(s) 117, 772
FalI AAGNNNNNCTT 4 cut(s) 542, 574, 704, 736
FaqI GGGAC 1 cut(s) 851
FatI CATG 2 cut(s) 113, 768
Fnu4HI GCNGC 5 cut(s) 202, 618, 862, 883, 1023
FokI GGATG 2 cut(s) 59, 140
Fsp4HI GCNGC 5 cut(s) 202, 618, 862, 883, 1023
FspBI CTAG 4 cut(s) 305, 344, 735, 962
GlaI GCGC 1 cut(s) 702
GluI GCNGC 5 cut(s) 202, 618, 862, 883, 1023
HaeIII GGCC 1 cut(s) 235
HgaI GACGC 1 cut(s) 853
HhaI GCGC 1 cut(s) 703
Hin1I GRCGYC 1 cut(s) 12
Hin1II CATG 2 cut(s) 117, 772
Hin6I GCGC 1 cut(s) 701
HinP1I GCGC 1 cut(s) 701
HincII GTYRAC 1 cut(s) 928
HindII GTYRAC 1 cut(s) 928
HinfI GANTC 2 cut(s) 314, 671
HphI GGTGA 3 cut(s) 170, 470, 623
Hpy166II GTNNAC 3 cut(s) 119, 847, 928
Hpy188I TCNGA 5 cut(s) 17, 172, 289, 679, 1009
Hpy188III TCNNGA 7 cut(s) 296, 344, 389, 476, 724, 934, 1077
Hpy8I GTNNAC 3 cut(s) 119, 847, 928
Hpy99I CGWCG 1 cut(s) 17
HpyAV CCTTC 4 cut(s) 46, 99, 638, 908
HpyCH4III ACNGT 3 cut(s) 85, 151, 968
HpyCH4IV ACGT 2 cut(s) 12, 323
HpyCH4V TGCA 2 cut(s) 383, 1015
HpyF10VI GCNNNNNNNGC 1 cut(s) 1028
HpyF3I CTNAG 4 cut(s) 123, 135, 549, 621
HpySE526I ACGT 2 cut(s) 12, 323
Hsp92I GRCGYC 1 cut(s) 12
Hsp92II CATG 2 cut(s) 117, 772
HspAI GCGC 1 cut(s) 701
Kzo9I GATC 3 cut(s) 586, 679, 813
LmnI GCTCC 2 cut(s) 792, 858
Lsp1109I GCAGC 2 cut(s) 604, 873
LweI GCATC 3 cut(s) 121, 604, 646
MaeI CTAG 4 cut(s) 305, 344, 735, 962
MaeII ACGT 2 cut(s) 12, 323
MaeIII GTNAC 2 cut(s) 140, 764
MalI GATC 3 cut(s) 588, 681, 815
MboI GATC 3 cut(s) 586, 679, 813
MboII GAAGA 7 cut(s) 91, 417, 464, 550, 666, 712, 818
MflI RGATCY 1 cut(s) 679
MhlI GDGCHC 1 cut(s) 908
MlsI TGGCCA 1 cut(s) 235
MluCI AATT 1 cut(s) 989
MluNI TGGCCA 1 cut(s) 235
MlyI GAGTC 1 cut(s) 323
MmeI TCCRAC 1 cut(s) 267
MnlI CCTC 7 cut(s) 118, 186, 192, 449, 496, 600, 638
Mox20I TGGCCA 1 cut(s) 235
MroXI GAANNNNTTC 2 cut(s) 557, 716
MscI TGGCCA 1 cut(s) 235
MseI TTAA 1 cut(s) 102
MslI CAYNNNNRTG 1 cut(s) 609
Msp20I TGGCCA 1 cut(s) 235
MspA1I CMGCKG 2 cut(s) 361, 923
MspCI CTTAAG 1 cut(s) 101
MspR9I CCNGG 2 cut(s) 237, 750
MvaI CCWGG 2 cut(s) 237, 750
MwoI GCNNNNNNNGC 1 cut(s) 1028
NdeII GATC 3 cut(s) 586, 679, 813
NlaIII CATG 2 cut(s) 117, 772
NlaIV GGNNCC 2 cut(s) 174, 788
NmuCI GTSAC 1 cut(s) 140
NspI RCATGY 1 cut(s) 117
OliI CACNNNNGTG 1 cut(s) 609
PdmI GAANNNNTTC 2 cut(s) 557, 716
PfeI GAWTC 1 cut(s) 671
Pfl23II CGTACG 1 cut(s) 324
PkrI GCNGC 5 cut(s) 203, 619, 863, 884, 1024
PleI GAGTC 1 cut(s) 322
PpsI GAGTC 1 cut(s) 322
Ppu21I YACGTR 1 cut(s) 324
PpuMI RGGWCCY 1 cut(s) 689
Psp5II RGGWCCY 1 cut(s) 689
Psp6I CCWGG 2 cut(s) 235, 748
PspGI CCWGG 2 cut(s) 235, 748
PspLI CGTACG 1 cut(s) 324
PspN4I GGNNCC 2 cut(s) 174, 788
PspPI GGNCC 2 cut(s) 689, 917
PspPPI RGGWCCY 1 cut(s) 689
PsuI RGATCY 1 cut(s) 679
PvuII CAGCTG 2 cut(s) 361, 923
RsaI GTAC 4 cut(s) 87, 120, 326, 357
RsaNI GTAC 4 cut(s) 86, 119, 325, 356
RseI CAYNNNNRTG 1 cut(s) 609
SaqAI TTAA 1 cut(s) 102
SatI GCNGC 5 cut(s) 202, 618, 862, 883, 1023
Sau3AI GATC 3 cut(s) 586, 679, 813
Sau96I GGNCC 2 cut(s) 689, 917
SchI GAGTC 1 cut(s) 323
ScrFI CCNGG 2 cut(s) 237, 750
SduI GDGCHC 1 cut(s) 908
SfaNI GCATC 3 cut(s) 121, 604, 646
SinI GGWCC 2 cut(s) 689, 917
SmiMI CAYNNNNRTG 1 cut(s) 609
SmlI CTYRAG 1 cut(s) 101
SmoI CTYRAG 1 cut(s) 101
Sse9I AATT 1 cut(s) 989
SsiI CCGC 5 cut(s) 201, 572, 882, 1023, 1048
SspMI CTAG 4 cut(s) 305, 344, 735, 962
StyD4I CCNGG 2 cut(s) 235, 748
TaaI ACNGT 3 cut(s) 85, 151, 968
TaiI ACGT 2 cut(s) 15, 326
TaqI TCGA 3 cut(s) 312, 475, 723
TaqII GACCGA 1 cut(s) 380
TasI AATT 1 cut(s) 989
TauI GCSGC 3 cut(s) 204, 885, 1025
TfiI GAWTC 1 cut(s) 671
Tru1I TTAA 1 cut(s) 102
Tru9I TTAA 1 cut(s) 102
TscAI CASTG 3 cut(s) 154, 258, 735
TseFI GTSAC 1 cut(s) 140
TseI GCWGC 2 cut(s) 617, 861
Tsp45I GTSAC 1 cut(s) 140
TspDTI ATGAA 1 cut(s) 390
TspGWI ACGGA 2 cut(s) 342, 620
TspRI CASTG 3 cut(s) 154, 258, 735
Vha464I CTTAAG 1 cut(s) 101
VpaK11BI GGWCC 2 cut(s) 689, 917
XbaI TCTAGA 1 cut(s) 343
XceI RCATGY 1 cut(s) 117
XmnI GAANNNNTTC 2 cut(s) 557, 716
XspI CTAG 4 cut(s) 305, 344, 735, 962
ZraI GACGTC 1 cut(s) 13
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.