AT5G24490

Sigma 54 modulation protein / S30EA ribosomal protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0015107
Physical Location & Seq
Forward (+)
8365601 .. 8367460
1860 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G24490.1

Sequence Viewer

Length: 927 bp
ATGGCAACGCTTTTAGGTTTCTCTCAGACTAAGTTTCACCATTGCGGCGTCTGGATTTCTACGCCGCCGTGCTCATCTTCTTCCACGGTAGTCTCAATGGTGGGCTTGAATCGGACTGATTCGAAAAAGCTCCGTTCAGATTTCCTCGGCCAGATTGGTTACGAAGATCGGAGACAAGTAAGACACAGTTACTGTAGAAGCTCATTAGCTGTGAAAATGTCGTGGGACGGTCCTCTTGCTTCCGTCAAGTTGATCATCCAAGGAAAAAACCTCGAGTTATCAGAGCCAATTAAGCAGCATGTTGAAGAGAAAGTAGGCAAATCTGTTCAGAAACACAGTCATCTTGTGAGAGAAGTTGATGTAAGACTCTCTGTTCGTGGTGGAGAGTTTGGTAAAGGCCCTAGGATTCGAAGATGTGAGGTGACATTGTTTACAAAGAAGCATGGTGTTGTGCGTGCTGAGGAAGATGCTGAGACAGTATACGCTTGTATCGACTTGGTATCAACGATAATACAGAGGAAGCTGAGGAAGATCAAGGAGAAGGACTCAGACCATGGAAGGCACATGAAAGGTTTCAACAGATTGAAGGTAAGGGAACCAGTGATTGAGCCGGTTGTGGAGGATGTTGAGGACAGTACTGACTCGAGCGTAGGAGAAGAAGAAGAAGAGGATGATTTGATCAAGGAGATTGTCCGTACCAAGACTTTCGAGATGCCACCATTGACTGTCGCTGAGGCAGTCGAGCAGCTGGAACTAGTCAGTCACGACTTCTATGGCTTCCAAAATGAAGAAACTGGTGAGATAAACATAGTGTACAAGAGAAAAGAAGGAGGTTACGGTCTGATAATCCCAAAGAAAGACGGGAAGGCCGAGAAGGTTGAGCCGCTTCCAACCGAGCAATTGAATGAACACTCTTTCGCCGAGTAG
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
Ribosom_S30AE_C Ribosomal_S30AE

Protein Analysis

308

Amino Acids

34.86

Weight (kDa)

6.3

Isoelectric Point (pI)

46.66

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Ribosomal_S30AE PF02482 85 - 181 2.3e-20 Sigma 54 modulation protein / S30EA ribosomal protein
Ribosom_S30AE_C PF16321 228 - 281 8.2e-25 Sigma 54 modulation/S30EA ribosomal protein C terminus
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: OG0015107)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G24490
fragaria_vesca FvH4_7g32900
malus_domestica MD07G1298900.v1.1
prunus_persica Prupe.2G318800_v2.0.a1
pyrus_communis pycom07g27140
rosa_chinensis RchiOBHm_Chr1g0382861
rosa_laevigata RLG00000026153
rosa_multiflora Rmu_sc0002242.1_g000012 Rmu_sc0010366.1_g000008
rosa_roxburghii Rroxscaffold_4G00277830
rosa_rugosa Rorug01G0436900
rosa_samantha Rh1AG461900 Rh1BG418900 Rh1CG432600 Rh1DG451000
rosa_wichuraiana Rw1G040990

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 480
AciI CCGC 3 cut(s) 45, 65, 884
AcoI YGGCCR 1 cut(s) 148
AcyI GRCGYC 1 cut(s) 48
AfaI GTAC 3 cut(s) 637, 697, 815
AgsI TTSAA 5 cut(s) 109, 305, 577, 586, 904
AhlI ACTAGT 1 cut(s) 754
AluBI AGCT 5 cut(s) 130, 201, 209, 523, 748
AluI AGCT 5 cut(s) 130, 201, 209, 523, 748
Alw21I GWGCWC 1 cut(s) 74
Alw26I GTCTC 3 cut(s) 97, 166, 467
AlwNI CAGNNNCTG 1 cut(s) 192
Ama87I CYCGRG 2 cut(s) 272, 643
AoxI GGCC 3 cut(s) 148, 397, 867
ApeKI GCWGC 2 cut(s) 295, 745
ArsI GACNNNNNNTTYG 2 cut(s) 357, 389
Asp700I GAANNNNTTC 1 cut(s) 572
AspA2I CCTAGG 1 cut(s) 401
AspS9I GGNCC 2 cut(s) 230, 398
AsuHPI GGTGA 3 cut(s) 29, 433, 809
AsuII TTCGAA 2 cut(s) 122, 409
AvaI CYCGRG 2 cut(s) 272, 643
AvaII GGWCC 1 cut(s) 230
AvrII CCTAGG 1 cut(s) 401
BaeI ACNNNNGTAYC 2 cut(s) 472, 505
Bbv12I GWGCWC 1 cut(s) 74
BbvCI CCTCAGC 3 cut(s) 459, 524, 732
BbvI GCAGC 2 cut(s) 307, 757
BceAI ACGGC 1 cut(s) 52
BclI TGATCA 2 cut(s) 252, 678
BcoDI GTCTC 3 cut(s) 97, 166, 467
BcuI ACTAGT 1 cut(s) 754
BfaI CTAG 2 cut(s) 402, 755
BfmI CTRYAG 1 cut(s) 193
BisI GCNGC 5 cut(s) 46, 65, 296, 746, 884
BlnI CCTAGG 1 cut(s) 401
BlsI GCNGC 5 cut(s) 47, 66, 297, 747, 885
BmcAI AGTACT 1 cut(s) 637
Bme18I GGWCC 1 cut(s) 230
BmeT110I CYCGRG 2 cut(s) 272, 643
BmgT120I GGNCC 2 cut(s) 230, 398
BmiI GGNNCC 1 cut(s) 597
BmsI GCATC 2 cut(s) 457, 702
BplI GAGNNNNNCTC 2 cut(s) 530, 562
Bpu10I CCTNAGC 3 cut(s) 459, 524, 732
Bpu14I TTCGAA 2 cut(s) 122, 409
BsaHI GRCGYC 1 cut(s) 48
BsaJI CCNNGG 5 cut(s) 84, 145, 259, 401, 553
Bse118I RCCGGY 1 cut(s) 610
Bse1I ACTGG 2 cut(s) 599, 799
Bse3DI GCAATG 1 cut(s) 40
BseDI CCNNGG 5 cut(s) 84, 145, 259, 401, 553
BseGI GGATG 3 cut(s) 255, 628, 676
BseMI GCAATG 1 cut(s) 40
BseMII CTCAG 6 cut(s) 38, 450, 462, 515, 561, 723
BseNI ACTGG 2 cut(s) 599, 799
BseXI GCAGC 2 cut(s) 307, 757
BshFI GGCC 3 cut(s) 150, 399, 869
BsiHKAI GWGCWC 1 cut(s) 74
BsiHKCI CYCGRG 2 cut(s) 272, 643
BsiSI CCGG 1 cut(s) 611
BslFI GGGAC 1 cut(s) 239
BsmAI GTCTC 3 cut(s) 97, 166, 467
BsmFI GGGAC 1 cut(s) 239
BsnI GGCC 3 cut(s) 150, 399, 869
BsoBI CYCGRG 2 cut(s) 272, 643
Bsp119I TTCGAA 2 cut(s) 122, 409
Bsp1286I GDGCHC 1 cut(s) 74
Bsp1407I TGTACA 1 cut(s) 813
Bsp143I GATC 4 cut(s) 166, 252, 531, 678
Bsp19I CCATGG 1 cut(s) 553
BspACI CCGC 3 cut(s) 45, 65, 884
BspANI GGCC 3 cut(s) 150, 399, 869
BspCNI CTCAG 6 cut(s) 37, 451, 463, 516, 560, 724
BspLI GGNNCC 1 cut(s) 597
BspT104I TTCGAA 2 cut(s) 122, 409
BsrDI GCAATG 1 cut(s) 40
BsrFI RCCGGY 1 cut(s) 610
BsrGI TGTACA 1 cut(s) 813
BsrI ACTGG 2 cut(s) 599, 799
BssAI RCCGGY 1 cut(s) 610
BssECI CCNNGG 5 cut(s) 84, 145, 259, 401, 553
BssMI GATC 4 cut(s) 166, 252, 531, 678
BssNAI GTATAC 1 cut(s) 481
BssNI GRCGYC 1 cut(s) 48
BssT1I CCWWGG 3 cut(s) 259, 401, 553
Bst1107I GTATAC 1 cut(s) 481
Bst4CI ACNGT 9 cut(s) 88, 188, 194, 230, 338, 478, 635, 727, 839
Bst6I CTCTTC 2 cut(s) 300, 660
BstACI GRCGYC 1 cut(s) 48
BstAUI TGTACA 1 cut(s) 813
BstBI TTCGAA 2 cut(s) 122, 409
BstC8I GCNNGC 1 cut(s) 456
BstDEI CTNAG 7 cut(s) 24, 30, 459, 471, 524, 547, 732
BstDSI CCRYGG 2 cut(s) 84, 553
BstF5I GGATG 3 cut(s) 255, 628, 676
BstKTI GATC 4 cut(s) 169, 255, 534, 681
BstMAI GTCTC 3 cut(s) 97, 166, 467
BstMBI GATC 4 cut(s) 166, 252, 531, 678
BstMWI GCNNNNNNNGC 1 cut(s) 292
BstNSI RCATGY 1 cut(s) 302
BstSFI CTRYAG 1 cut(s) 193
BstV1I GCAGC 2 cut(s) 307, 757
BstZ17I GTATAC 1 cut(s) 481
BsuRI GGCC 3 cut(s) 150, 399, 869
BtgI CCRYGG 2 cut(s) 84, 553
BtsCI GGATG 3 cut(s) 255, 628, 676
BtsIMutI CAGTG 1 cut(s) 606
Cac8I GCNNGC 1 cut(s) 456
CaiI CAGNNNCTG 1 cut(s) 192
Cfr10I RCCGGY 1 cut(s) 610
Cfr13I GGNCC 2 cut(s) 230, 398
CseI GACGC 1 cut(s) 37
Csp6I GTAC 3 cut(s) 636, 696, 814
CviAII CATG 4 cut(s) 299, 443, 554, 565
CviQI GTAC 3 cut(s) 636, 696, 814
DdeI CTNAG 7 cut(s) 24, 30, 459, 471, 524, 547, 732
DpnI GATC 4 cut(s) 168, 254, 533, 680
DpnII GATC 4 cut(s) 166, 252, 531, 678
EaeI YGGCCR 1 cut(s) 148
Eam1104I CTCTTC 2 cut(s) 300, 660
EarI CTCTTC 2 cut(s) 300, 660
Eco130I CCWWGG 3 cut(s) 259, 401, 553
Eco47I GGWCC 1 cut(s) 230
Eco88I CYCGRG 2 cut(s) 272, 643
EcoO109I RGGNCCY 1 cut(s) 398
EcoT14I CCWWGG 3 cut(s) 259, 401, 553
ErhI CCWWGG 3 cut(s) 259, 401, 553
FaeI CATG 4 cut(s) 302, 446, 557, 568
FaiI YATR 7 cut(s) 300, 444, 481, 555, 566, 774, 809
FaqI GGGAC 1 cut(s) 239
FatI CATG 4 cut(s) 298, 442, 553, 564
FbaI TGATCA 2 cut(s) 252, 678
FblI GTMKAC 1 cut(s) 480
Fnu4HI GCNGC 5 cut(s) 46, 65, 296, 746, 884
FokI GGATG 3 cut(s) 242, 635, 683
Fsp4HI GCNGC 5 cut(s) 46, 65, 296, 746, 884
FspBI CTAG 2 cut(s) 402, 755
GluI GCNGC 5 cut(s) 46, 65, 296, 746, 884
HaeIII GGCC 3 cut(s) 150, 399, 869
HapII CCGG 1 cut(s) 611
HgaI GACGC 1 cut(s) 37
Hin1I GRCGYC 1 cut(s) 48
Hin1II CATG 4 cut(s) 302, 446, 557, 568
HinfI GANTC 6 cut(s) 109, 119, 366, 406, 545, 641
HpaII CCGG 1 cut(s) 611
HphI GGTGA 3 cut(s) 29, 433, 809
Hpy166II GTNNAC 3 cut(s) 432, 481, 814
Hpy188I TCNGA 8 cut(s) 27, 114, 139, 171, 283, 330, 550, 843
Hpy188III TCNNGA 3 cut(s) 52, 709, 764
Hpy8I GTNNAC 3 cut(s) 432, 481, 814
HpyAV CCTTC 6 cut(s) 535, 552, 580, 821, 859, 868
HpyCH4III ACNGT 9 cut(s) 88, 188, 194, 230, 338, 478, 635, 727, 839
HpyF10VI GCNNNNNNNGC 1 cut(s) 292
HpyF3I CTNAG 7 cut(s) 24, 30, 459, 471, 524, 547, 732
Hsp92I GRCGYC 1 cut(s) 48
Hsp92II CATG 4 cut(s) 302, 446, 557, 568
Ksp22I TGATCA 2 cut(s) 252, 678
Kzo9I GATC 4 cut(s) 166, 252, 531, 678
LmnI GCTCC 1 cut(s) 135
LpnPI CCDG 6 cut(s) 37, 164, 612, 624, 734, 780
Lsp1109I GCAGC 2 cut(s) 307, 757
LweI GCATC 2 cut(s) 457, 702
MaeI CTAG 2 cut(s) 402, 755
MaeIII GTNAC 5 cut(s) 158, 188, 421, 761, 833
MalI GATC 4 cut(s) 168, 254, 533, 680
MboI GATC 4 cut(s) 166, 252, 531, 678
MfeI CAATTG 1 cut(s) 899
MhlI GDGCHC 1 cut(s) 74
MluCI AATT 2 cut(s) 288, 899
MlyI GAGTC 3 cut(s) 360, 539, 635
MmeI TCCRAC 1 cut(s) 914
MroXI GAANNNNTTC 1 cut(s) 572
MseI TTAA 1 cut(s) 291
MspA1I CMGCKG 1 cut(s) 748
MspI CCGG 1 cut(s) 611
MunI CAATTG 1 cut(s) 899
MwoI GCNNNNNNNGC 1 cut(s) 292
NcoI CCATGG 1 cut(s) 553
NdeII GATC 4 cut(s) 166, 252, 531, 678
NlaIII CATG 4 cut(s) 302, 446, 557, 568
NlaIV GGNNCC 1 cut(s) 597
NmeAIII GCCGAG 2 cut(s) 126, 895
NmuCI GTSAC 2 cut(s) 421, 761
NspI RCATGY 1 cut(s) 302
NspV TTCGAA 2 cut(s) 122, 409
PaeR7I CTCGAG 2 cut(s) 272, 643
PcsI WCGNNNNNNNCGW 2 cut(s) 489, 867
PdmI GAANNNNTTC 1 cut(s) 572
PfeI GAWTC 3 cut(s) 109, 119, 406
PkrI GCNGC 5 cut(s) 47, 66, 297, 747, 885
PleI GAGTC 3 cut(s) 360, 539, 635
PpsI GAGTC 3 cut(s) 360, 539, 635
PspN4I GGNNCC 1 cut(s) 597
PspPI GGNCC 2 cut(s) 230, 398
PspXI VCTCGAGB 2 cut(s) 272, 643
PstNI CAGNNNCTG 1 cut(s) 192
PvuII CAGCTG 1 cut(s) 748
RsaI GTAC 3 cut(s) 637, 697, 815
RsaNI GTAC 3 cut(s) 636, 696, 814
SaqAI TTAA 1 cut(s) 291
SatI GCNGC 5 cut(s) 46, 65, 296, 746, 884
Sau3AI GATC 4 cut(s) 166, 252, 531, 678
Sau96I GGNCC 2 cut(s) 230, 398
ScaI AGTACT 1 cut(s) 637
SchI GAGTC 3 cut(s) 360, 539, 635
SduI GDGCHC 1 cut(s) 74
SfaNI GCATC 2 cut(s) 457, 702
SfcI CTRYAG 1 cut(s) 193
Sfr274I CTCGAG 2 cut(s) 272, 643
SfuI TTCGAA 2 cut(s) 122, 409
SinI GGWCC 1 cut(s) 230
SlaI CTCGAG 2 cut(s) 272, 643
SmlI CTYRAG 2 cut(s) 272, 643
SmoI CTYRAG 2 cut(s) 272, 643
SpeI ACTAGT 1 cut(s) 754
Sse9I AATT 2 cut(s) 288, 899
SsiI CCGC 3 cut(s) 45, 65, 884
SspMI CTAG 2 cut(s) 402, 755
StyI CCWWGG 3 cut(s) 259, 401, 553
TaaI ACNGT 9 cut(s) 88, 188, 194, 230, 338, 478, 635, 727, 839
TaqI TCGA 7 cut(s) 122, 273, 409, 492, 644, 708, 741
TasI AATT 2 cut(s) 288, 899
TatI WGTACW 2 cut(s) 635, 813
TauI GCSGC 3 cut(s) 48, 67, 886
TfiI GAWTC 3 cut(s) 109, 119, 406
Tru1I TTAA 1 cut(s) 291
Tru9I TTAA 1 cut(s) 291
TscAI CASTG 1 cut(s) 606
TseFI GTSAC 2 cut(s) 421, 761
TseI GCWGC 2 cut(s) 295, 745
Tsp45I GTSAC 2 cut(s) 421, 761
TspDTI ATGAA 3 cut(s) 581, 801, 921
TspGWI ACGGA 3 cut(s) 122, 232, 683
TspRI CASTG 1 cut(s) 606
VpaK11BI GGWCC 1 cut(s) 230
XceI RCATGY 1 cut(s) 302
XhoI CTCGAG 2 cut(s) 272, 643
XmaJI CCTAGG 1 cut(s) 401
XmiI GTMKAC 1 cut(s) 480
XmnI GAANNNNTTC 1 cut(s) 572
XspI CTAG 2 cut(s) 402, 755
ZrmI AGTACT 1 cut(s) 637
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.