AT3G48600

regulation of transcription by RNA polymerase I

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0011758
Physical Location & Seq
Reverse (-)
18010026 .. 18011440
1415 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G48600.2

Sequence Viewer

Length: 552 bp
ATGTCGCCAATTTCTAAGATTCTAGGAGGATGCAGGACACTGATGGCGAAGGCGGTGACTAATGCGACGGCTACCGGCGCCGGCGTTGATAGAAGAGGAGGAATTCATAAGATTTTTCCAGTCTCAGAGTCGCTGGCTAGATTCGTCGGCCAAAGCGAAGTCTCTTTTTCCACCGCCATGGAGAAAGTGGAGCAGTATACCGATGATCACAATCTTTGGAATCCGGAGAATATAGAGGAGATACTGTGCGATGATAACTTGAAGACGATTTTCGATGGCCAAGACAAAGTCGTCGGAGTCAGAGAGATGACGGAGCTTTTGTTGCGACATTTTCCTAACGTTAGAACTATGTCGGCGAAGGTGAAGGCTACCGGTGGAGGTACTATAGAAAAATGGGGGTTCAATGATATTGTGAAAGTCTCAGAGCCGCTGGCTAGATTCGTCGGCCAAAGCGAAATCTCTTTTGACGCCGCCTTGAGAAAATTGCTAGATTATGCCTTTGATCACAAGCTCGTAGATGAGGGTGTTACTCTGCTCGAGTTTCCTTGGTAA
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
SWIB

Protein Analysis

183

Amino Acids

20.29

Weight (kDa)

5.41

Isoelectric Point (pI)

54.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SWIB PF02201 37 - 111 3.1e-18 SWIB/MDM2 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: OG0011758)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G31760 AT2G35605 AT3G03590 AT3G48600 AT3G48600
fragaria_vesca FvH4_7g08300 FvH4_7g08300
malus_domestica MD02G1231800.v1.1 MD07G1081700.v1.1
prunus_persica Prupe.2G106900_v2.0.a1
pyrus_communis pycom02g20020 pycom07g06500
rosa_chinensis RchiOBHm_Chr1g0340731
rosa_laevigata RLG00000029041
rosa_multiflora Rmu_sc0001211.1_g000138
rosa_roxburghii Rroxscaffold_4G00311370
rosa_samantha Rh1BG144800 Rh1DG176500
rosa_wichuraiana Rw1G014750

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 290
AccB1I GGYRCC 1 cut(s) 77
AccI GTMKAC 1 cut(s) 197
AccIII TCCGGA 1 cut(s) 223
AciI CCGC 4 cut(s) 53, 174, 428, 471
AclI AACGTT 1 cut(s) 339
AcoI YGGCCR 3 cut(s) 148, 277, 445
AcsI RAATTY 1 cut(s) 102
AcyI GRCGYC 2 cut(s) 78, 468
AfaI GTAC 1 cut(s) 382
AgeI ACCGGT 1 cut(s) 371
AgsI TTSAA 2 cut(s) 262, 403
AluBI AGCT 2 cut(s) 316, 511
AluI AGCT 2 cut(s) 316, 511
Alw26I GTCTC 3 cut(s) 127, 166, 424
Ama87I CYCGRG 1 cut(s) 536
Aor13HI TCCGGA 1 cut(s) 223
AoxI GGCC 3 cut(s) 148, 277, 445
ApoI RAATTY 1 cut(s) 102
ArsI GACNNNNNNTTYG 2 cut(s) 301, 333
AsiGI ACCGGT 1 cut(s) 371
AspLEI GCGC 1 cut(s) 80
AsuHPI GGTGA 2 cut(s) 67, 373
AvaI CYCGRG 1 cut(s) 536
BalI TGGCCA 1 cut(s) 279
BanI GGYRCC 1 cut(s) 77
BbsI GAAGAC 1 cut(s) 269
BccI CCATC 2 cut(s) 37, 269
BceAI ACGGC 1 cut(s) 84
BclI TGATCA 2 cut(s) 205, 502
BcoDI GTCTC 3 cut(s) 127, 166, 424
BfaI CTAG 4 cut(s) 23, 138, 435, 488
BfmI CTRYAG 1 cut(s) 384
BfoI RGCGCY 1 cut(s) 81
BisI GCNGC 2 cut(s) 428, 471
BlsI GCNGC 2 cut(s) 429, 472
BmeT110I CYCGRG 1 cut(s) 536
BmiI GGNNCC 1 cut(s) 79
BmsI GCATC 1 cut(s) 20
BpiI GAAGAC 1 cut(s) 269
BpuEI CTTGAG 1 cut(s) 496
BsaBI GATNNNNATC 1 cut(s) 210
BsaHI GRCGYC 2 cut(s) 78, 468
BsaJI CCNNGG 2 cut(s) 177, 545
BsaWI WCCGGW 2 cut(s) 223, 371
BsaXI ACNNNNNCTCC 4 cut(s) 230, 260, 305, 335
Bse118I RCCGGY 3 cut(s) 74, 80, 371
Bse1I ACTGG 1 cut(s) 119
Bse8I GATNNNNATC 1 cut(s) 210
BseAI TCCGGA 1 cut(s) 223
BseDI CCNNGG 2 cut(s) 177, 545
BseGI GGATG 1 cut(s) 35
BseJI GATNNNNATC 1 cut(s) 210
BseMII CTCAG 2 cut(s) 138, 435
BseNI ACTGG 1 cut(s) 119
BseRI GAGGAG 2 cut(s) 111, 251
BshFI GGCC 3 cut(s) 150, 279, 447
BshNI GGYRCC 1 cut(s) 77
BshTI ACCGGT 1 cut(s) 371
BsiHKCI CYCGRG 1 cut(s) 536
BsiSI CCGG 4 cut(s) 75, 81, 224, 372
BsmAI GTCTC 3 cut(s) 127, 166, 424
BsnI GGCC 3 cut(s) 150, 279, 447
BsoBI CYCGRG 1 cut(s) 536
Bsp13I TCCGGA 1 cut(s) 223
Bsp143I GATC 2 cut(s) 205, 502
Bsp19I CCATGG 1 cut(s) 177
BspACI CCGC 4 cut(s) 53, 174, 428, 471
BspANI GGCC 3 cut(s) 150, 279, 447
BspCNI CTCAG 2 cut(s) 137, 434
BspEI TCCGGA 1 cut(s) 223
BspLI GGNNCC 1 cut(s) 79
BspT107I GGYRCC 1 cut(s) 77
BsrFI RCCGGY 3 cut(s) 74, 80, 371
BsrI ACTGG 1 cut(s) 119
BssAI RCCGGY 3 cut(s) 74, 80, 371
BssECI CCNNGG 2 cut(s) 177, 545
BssMI GATC 2 cut(s) 205, 502
BssNAI GTATAC 1 cut(s) 198
BssNI GRCGYC 2 cut(s) 78, 468
BssT1I CCWWGG 2 cut(s) 177, 545
Bst1107I GTATAC 1 cut(s) 198
Bst4CI ACNGT 1 cut(s) 246
Bst6I CTCTTC 1 cut(s) 88
BstACI GRCGYC 2 cut(s) 78, 468
BstC8I GCNNGC 3 cut(s) 82, 135, 432
BstDEI CTNAG 3 cut(s) 15, 124, 421
BstDSI CCRYGG 1 cut(s) 177
BstF5I GGATG 1 cut(s) 35
BstH2I RGCGCY 1 cut(s) 81
BstHHI GCGC 1 cut(s) 80
BstKTI GATC 2 cut(s) 208, 505
BstMAI GTCTC 3 cut(s) 127, 166, 424
BstMBI GATC 2 cut(s) 205, 502
BstMWI GCNNNNNNNGC 2 cut(s) 77, 322
BstSFI CTRYAG 1 cut(s) 384
BstV2I GAAGAC 1 cut(s) 269
BstXI CCANNNNNNTGG 1 cut(s) 178
BstZ17I GTATAC 1 cut(s) 198
BsuRI GGCC 3 cut(s) 150, 279, 447
BtgI CCRYGG 1 cut(s) 177
BtgZI GCGATG 1 cut(s) 264
BtsCI GGATG 1 cut(s) 35
BtsIMutI CAGTG 1 cut(s) 38
Cac8I GCNNGC 3 cut(s) 82, 135, 432
CfoI GCGC 1 cut(s) 80
Cfr10I RCCGGY 3 cut(s) 74, 80, 371
CseI GACGC 1 cut(s) 476
Csp6I GTAC 1 cut(s) 381
CspAI ACCGGT 1 cut(s) 371
CviAII CATG 1 cut(s) 178
CviQI GTAC 1 cut(s) 381
DdeI CTNAG 3 cut(s) 15, 124, 421
DinI GGCGCC 1 cut(s) 79
DpnI GATC 2 cut(s) 207, 504
DpnII GATC 2 cut(s) 205, 502
DrdI GACNNNNNNGTC 1 cut(s) 290
DseDI GACNNNNNNGTC 1 cut(s) 290
EaeI YGGCCR 3 cut(s) 148, 277, 445
Eam1104I CTCTTC 1 cut(s) 88
EarI CTCTTC 1 cut(s) 88
Eco130I CCWWGG 2 cut(s) 177, 545
Eco88I CYCGRG 1 cut(s) 536
EcoRI GAATTC 1 cut(s) 102
EcoT14I CCWWGG 2 cut(s) 177, 545
EgeI GGCGCC 1 cut(s) 79
EheI GGCGCC 1 cut(s) 79
ErhI CCWWGG 2 cut(s) 177, 545
FaeI CATG 1 cut(s) 181
FaiI YATR 7 cut(s) 108, 179, 198, 233, 350, 386, 495
FatI CATG 1 cut(s) 177
FbaI TGATCA 2 cut(s) 205, 502
FblI GTMKAC 1 cut(s) 197
Fnu4HI GCNGC 2 cut(s) 428, 471
FokI GGATG 1 cut(s) 42
Fsp4HI GCNGC 2 cut(s) 428, 471
FspBI CTAG 4 cut(s) 23, 138, 435, 488
GlaI GCGC 1 cut(s) 79
GluI GCNGC 2 cut(s) 428, 471
HaeII RGCGCY 1 cut(s) 81
HaeIII GGCC 3 cut(s) 150, 279, 447
HapII CCGG 4 cut(s) 75, 81, 224, 372
HgaI GACGC 1 cut(s) 476
HhaI GCGC 1 cut(s) 80
Hin1I GRCGYC 2 cut(s) 78, 468
Hin1II CATG 1 cut(s) 181
Hin6I GCGC 1 cut(s) 78
HinP1I GCGC 1 cut(s) 78
HinfI GANTC 6 cut(s) 19, 128, 141, 220, 297, 438
HpaII CCGG 4 cut(s) 75, 81, 224, 372
HphI GGTGA 2 cut(s) 67, 373
Hpy166II GTNNAC 1 cut(s) 198
Hpy188I TCNGA 4 cut(s) 127, 296, 302, 424
Hpy188III TCNNGA 1 cut(s) 224
Hpy8I GTNNAC 1 cut(s) 198
Hpy99I CGWCG 4 cut(s) 70, 149, 296, 446
HpyAV CCTTC 3 cut(s) 43, 352, 358
HpyCH4III ACNGT 1 cut(s) 246
HpyCH4IV ACGT 1 cut(s) 339
HpyCH4V TGCA 1 cut(s) 33
HpyF10VI GCNNNNNNNGC 2 cut(s) 77, 322
HpyF3I CTNAG 3 cut(s) 15, 124, 421
HpySE526I ACGT 1 cut(s) 339
Hsp92I GRCGYC 2 cut(s) 78, 468
Hsp92II CATG 1 cut(s) 181
HspAI GCGC 1 cut(s) 78
KasI GGCGCC 1 cut(s) 77
Kpn2I TCCGGA 1 cut(s) 223
KroI GCCGGC 1 cut(s) 80
KroNI GCCGGC 1 cut(s) 82
Ksp22I TGATCA 2 cut(s) 205, 502
Kzo9I GATC 2 cut(s) 205, 502
LmnI GCTCC 2 cut(s) 190, 313
LpnPI CCDG 8 cut(s) 19, 88, 94, 119, 132, 237, 385, 416
LweI GCATC 1 cut(s) 20
MaeI CTAG 4 cut(s) 23, 138, 435, 488
MaeII ACGT 1 cut(s) 339
MaeIII GTNAC 2 cut(s) 55, 526
MalI GATC 2 cut(s) 207, 504
MboI GATC 2 cut(s) 205, 502
MboII GAAGA 2 cut(s) 105, 274
MlsI TGGCCA 1 cut(s) 279
MluCI AATT 3 cut(s) 9, 102, 482
MluNI TGGCCA 1 cut(s) 279
Mly113I GGCGCC 1 cut(s) 78
MlyI GAGTC 2 cut(s) 137, 306
MmeI TCCRAC 1 cut(s) 274
MnlI CCTC 6 cut(s) 20, 89, 92, 229, 371, 514
Mox20I TGGCCA 1 cut(s) 279
MreI CGCCGGCG 1 cut(s) 80
MroI TCCGGA 1 cut(s) 223
MroNI GCCGGC 1 cut(s) 80
MscI TGGCCA 1 cut(s) 279
MslI CAYNNNNRTG 1 cut(s) 176
Msp20I TGGCCA 1 cut(s) 279
MspA1I CMGCKG 1 cut(s) 430
MspI CCGG 4 cut(s) 75, 81, 224, 372
MwoI GCNNNNNNNGC 2 cut(s) 77, 322
NaeI GCCGGC 1 cut(s) 82
NarI GGCGCC 1 cut(s) 78
NcoI CCATGG 1 cut(s) 177
NdeII GATC 2 cut(s) 205, 502
NgoMIV GCCGGC 1 cut(s) 80
NlaIII CATG 1 cut(s) 181
NlaIV GGNNCC 1 cut(s) 79
NmuCI GTSAC 1 cut(s) 55
PaeR7I CTCGAG 1 cut(s) 536
PcsI WCGNNNNNNNCGW 2 cut(s) 153, 450
PdiI GCCGGC 1 cut(s) 82
PfeI GAWTC 4 cut(s) 19, 141, 220, 438
PflFI GACNNNGTC 1 cut(s) 287
PinAI ACCGGT 1 cut(s) 371
PkrI GCNGC 2 cut(s) 429, 472
PleI GAGTC 2 cut(s) 136, 305
PluTI GGCGCC 1 cut(s) 81
PpsI GAGTC 2 cut(s) 136, 305
Psp1406I AACGTT 1 cut(s) 339
PspN4I GGNNCC 1 cut(s) 79
PspXI VCTCGAGB 1 cut(s) 536
PsyI GACNNNGTC 1 cut(s) 287
RsaI GTAC 1 cut(s) 382
RsaNI GTAC 1 cut(s) 381
RseI CAYNNNNRTG 1 cut(s) 176
SatI GCNGC 2 cut(s) 428, 471
Sau3AI GATC 2 cut(s) 205, 502
SchI GAGTC 2 cut(s) 137, 306
SetI ASST 5 cut(s) 318, 342, 363, 382, 513
SfaNI GCATC 1 cut(s) 20
SfcI CTRYAG 1 cut(s) 384
SfoI GGCGCC 1 cut(s) 79
Sfr274I CTCGAG 1 cut(s) 536
SgrAI CRCCGGYG 1 cut(s) 80
SlaI CTCGAG 1 cut(s) 536
SmiMI CAYNNNNRTG 1 cut(s) 176
SmlI CTYRAG 2 cut(s) 475, 536
SmoI CTYRAG 2 cut(s) 475, 536
Sse9I AATT 3 cut(s) 9, 102, 482
SsiI CCGC 4 cut(s) 53, 174, 428, 471
SspDI GGCGCC 1 cut(s) 77
SspMI CTAG 4 cut(s) 23, 138, 435, 488
StyI CCWWGG 2 cut(s) 177, 545
TaaI ACNGT 1 cut(s) 246
TaiI ACGT 1 cut(s) 342
TaqI TCGA 2 cut(s) 273, 537
TasI AATT 3 cut(s) 9, 102, 482
TauI GCSGC 2 cut(s) 430, 473
TfiI GAWTC 4 cut(s) 19, 141, 220, 438
TscAI CASTG 1 cut(s) 45
TseFI GTSAC 1 cut(s) 55
Tsp45I GTSAC 1 cut(s) 55
TspDTI ATGAA 1 cut(s) 95
TspGWI ACGGA 1 cut(s) 326
TspRI CASTG 1 cut(s) 45
Tth111I GACNNNGTC 1 cut(s) 287
XapI RAATTY 1 cut(s) 102
XcmI CCANNNNNNNNNTGG 1 cut(s) 184
XhoI CTCGAG 1 cut(s) 536
XmiI GTMKAC 1 cut(s) 197
XspI CTAG 4 cut(s) 23, 138, 435, 488
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.