AT5G44500

Small nuclear

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0001710
Physical Location & Seq
Forward (+)
17927443 .. 17929835
2393 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G44500.1

Sequence Viewer

Length: 765 bp
ATGTCGATGTCGAAGAGCTCCAAGATGCTTCAGTTCATAAACTACAGGATGCGAGTAACAATCCAAGACGGAAGACAGCTAATCGGAAAATTCATGGCGTTCGATCGCCACATGAATCTTGTTCTTGGCGACTGCGAAGAGTTTCGAAAACTTCCTCCGGCGAAAGGTAATAAGAAGACGAACGAAGAAAGAGAAGAGCGTCGTACGCTTGGTTTGGTTTTACTTAGAGGAGAAGAAGTGATTTCGATGACTGTCGAAGGTCCACCGCCACCTGAAGAATCTCGCGCCAAATCTGGATCTGTAACCGCTGTGGCTGGTCCCGGAATCGGTCGTGCTGCTGGACGTGGAGTACCTACTGGTCCATTGGTTCAAGCTCAGCCTGGTTTATCTGGTCCTGTTCGTGGAATTGGTGGACCTGCTCCTGGAATGATGCAGCCTCAGATCTCTAGACCACCACAGATTATTCGTCCTCCGGGACAAATGCCACCACAGCCTCCTTTTGCTGGTCAAGGAGGTCCTCCTCCACCTTATGGTATGAGACCACCGTATCCTGGTCCACCACCGCCTCAGTATGGTGGACAGCAAAGGCCAATGATGATTCCTCCACCTGGTGGTATGATGAGAGGACCTCCTCCACCTCATGGTATGCAAGGACCGCCTCCTTCTCGCCCTGGAATGCCTCCCCCCGGTGGTGCTCCGATGTTTGCTCCGCCTCATCCTGGCATGCCACCTGCTCCGCCAAATCACCATAATCAGCAACATTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 ko05322 map03040 map05322
Pfam Domains
Protein Families
LSM

Protein Analysis

254

Amino Acids

27.0

Weight (kDa)

10.72

Isoelectric Point (pI)

72.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LSM PF01423 9 - 84 3.9e-17 LSM domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 739
Acc36I ACCTGC 2 cut(s) 424, 739
AccB7I CCANNNNNTGG 3 cut(s) 530, 611, 641
AccII CGCG 1 cut(s) 285
AciI CCGC 6 cut(s) 266, 306, 563, 656, 710, 737
AclWI GGATC 1 cut(s) 304
AcsI RAATTY 1 cut(s) 89
AcuI CTGAAG 2 cut(s) 14, 294
AdeI CACNNNGTG 1 cut(s) 611
AfaI GTAC 2 cut(s) 205, 351
AgsI TTSAA 1 cut(s) 371
AjiI CACGTC 1 cut(s) 344
AjnI CCWGG 6 cut(s) 379, 421, 550, 607, 670, 718
AluBI AGCT 3 cut(s) 18, 79, 374
AluI AGCT 3 cut(s) 18, 79, 374
Alw21I GWGCWC 2 cut(s) 20, 697
Alw26I GTCTC 1 cut(s) 532
AlwI GGATC 1 cut(s) 304
AoxI GGCC 1 cut(s) 587
ApeKI GCWGC 2 cut(s) 335, 433
ApoI RAATTY 1 cut(s) 89
Asp700I GAANNNNTTC 1 cut(s) 141
AspLEI GCGC 1 cut(s) 287
AspS9I GGNCC 9 cut(s) 260, 317, 359, 392, 413, 515, 554, 626, 653
AsuC2I CCSGG 3 cut(s) 321, 474, 687
AsuHPI GGTGA 1 cut(s) 737
AsuII TTCGAA 1 cut(s) 145
AvaII GGWCC 9 cut(s) 260, 317, 359, 392, 413, 515, 554, 626, 653
BaeI ACNNNNGTAYC 2 cut(s) 530, 563
BanII GRGCYC 1 cut(s) 20
BbsI GAAGAC 2 cut(s) 79, 182
Bbv12I GWGCWC 2 cut(s) 20, 697
BbvI GCAGC 2 cut(s) 322, 445
BciT130I CCWGG 6 cut(s) 381, 423, 552, 609, 672, 720
BciVI GTATCC 1 cut(s) 558
BcnI CCSGG 3 cut(s) 321, 474, 687
BcoDI GTCTC 1 cut(s) 532
BfaI CTAG 1 cut(s) 447
BfmI CTRYAG 1 cut(s) 43
BfuAI ACCTGC 2 cut(s) 424, 739
BfuI GTATCC 1 cut(s) 558
BglII AGATCT 1 cut(s) 441
BisI GCNGC 2 cut(s) 336, 434
BlpI GCTNAGC 1 cut(s) 375
BlsI GCNGC 2 cut(s) 337, 435
Bme1390I CCNGG 9 cut(s) 321, 381, 423, 474, 552, 609, 672, 687, 720
Bme18I GGWCC 9 cut(s) 260, 317, 359, 392, 413, 515, 554, 626, 653
BmgBI CACGTC 1 cut(s) 344
BmgT120I GGNCC 9 cut(s) 260, 317, 359, 392, 413, 515, 554, 626, 653
BmiI GGNNCC 1 cut(s) 319
BmrFI CCNGG 9 cut(s) 321, 381, 423, 474, 552, 609, 672, 687, 720
BmsI GCATC 3 cut(s) 15, 39, 420
BpiI GAAGAC 2 cut(s) 79, 182
BplI GAGNNNNNCTC 2 cut(s) 613, 645
Bpu1102I GCTNAGC 1 cut(s) 375
Bpu14I TTCGAA 1 cut(s) 145
BpuMI CCSGG 3 cut(s) 321, 474, 687
BsaI GGTCTC 1 cut(s) 532
BsaJI CCNNGG 2 cut(s) 670, 685
BsaXI ACNNNNNCTCC 2 cut(s) 222, 252
Bse1I ACTGG 1 cut(s) 361
BseBI CCWGG 6 cut(s) 381, 423, 552, 609, 672, 720
BseDI CCNNGG 2 cut(s) 670, 685
BseGI GGATG 2 cut(s) 54, 715
BseMII CTCAG 3 cut(s) 389, 452, 581
BseNI ACTGG 1 cut(s) 361
BseRI GAGGAG 3 cut(s) 243, 510, 621
BseXI GCAGC 2 cut(s) 322, 445
Bsh1236I CGCG 1 cut(s) 285
Bsh1285I CGRYCG 2 cut(s) 106, 331
BshFI GGCC 1 cut(s) 589
BsiEI CGRYCG 2 cut(s) 106, 331
BsiHKAI GWGCWC 2 cut(s) 20, 697
BsiSI CCGG 4 cut(s) 158, 321, 473, 687
BsiWI CGTACG 1 cut(s) 203
BslFI GGGAC 2 cut(s) 303, 489
BsmAI GTCTC 1 cut(s) 532
BsmFI GGGAC 2 cut(s) 303, 489
BsmI GAATGC 1 cut(s) 681
BsnI GGCC 1 cut(s) 589
Bso31I GGTCTC 1 cut(s) 532
Bsp119I TTCGAA 1 cut(s) 145
Bsp1286I GDGCHC 2 cut(s) 20, 697
Bsp143I GATC 3 cut(s) 103, 296, 441
Bsp1720I GCTNAGC 1 cut(s) 375
BspACI CCGC 6 cut(s) 266, 306, 563, 656, 710, 737
BspANI GGCC 1 cut(s) 589
BspCNI CTCAG 3 cut(s) 388, 451, 580
BspFNI CGCG 1 cut(s) 285
BspLI GGNNCC 1 cut(s) 319
BspMI ACCTGC 2 cut(s) 424, 739
BspPI GGATC 1 cut(s) 304
BspQI GCTCTTC 2 cut(s) 8, 189
BspT104I TTCGAA 1 cut(s) 145
BspTNI GGTCTC 1 cut(s) 532
BsrI ACTGG 1 cut(s) 361
BssECI CCNNGG 2 cut(s) 670, 685
BssMI GATC 3 cut(s) 103, 296, 441
Bst2UI CCWGG 6 cut(s) 381, 423, 552, 609, 672, 720
Bst4CI ACNGT 2 cut(s) 253, 546
Bst6I CTCTTC 3 cut(s) 8, 132, 189
BstBI TTCGAA 1 cut(s) 145
BstC8I GCNNGC 1 cut(s) 725
BstDEI CTNAG 4 cut(s) 224, 375, 438, 567
BstF5I GGATG 2 cut(s) 54, 715
BstFNI CGCG 1 cut(s) 285
BstHHI GCGC 1 cut(s) 287
BstKTI GATC 3 cut(s) 106, 299, 444
BstMAI GTCTC 1 cut(s) 532
BstMBI GATC 3 cut(s) 103, 296, 441
BstMCI CGRYCG 2 cut(s) 106, 331
BstMWI GCNNNNNNNGC 3 cut(s) 205, 490, 655
BstNI CCWGG 6 cut(s) 381, 423, 552, 609, 672, 720
BstNSI RCATGY 1 cut(s) 727
BstSCI CCNGG 9 cut(s) 319, 379, 421, 472, 550, 607, 670, 685, 718
BstSFI CTRYAG 1 cut(s) 43
BstUI CGCG 1 cut(s) 285
BstV1I GCAGC 2 cut(s) 322, 445
BstV2I GAAGAC 2 cut(s) 79, 182
BstX2I RGATCY 2 cut(s) 296, 441
BstYI RGATCY 2 cut(s) 296, 441
BsuI GTATCC 1 cut(s) 558
BsuRI GGCC 1 cut(s) 589
BtrI CACGTC 1 cut(s) 344
BtsCI GGATG 2 cut(s) 54, 715
BveI ACCTGC 2 cut(s) 424, 739
Cac8I GCNNGC 1 cut(s) 725
CfoI GCGC 1 cut(s) 287
Cfr13I GGNCC 9 cut(s) 260, 317, 359, 392, 413, 515, 554, 626, 653
CseI GACGC 1 cut(s) 188
CsiI ACCWGGT 1 cut(s) 607
Csp6I GTAC 2 cut(s) 204, 350
CviAII CATG 4 cut(s) 94, 112, 641, 724
CviJI RGCY 8 cut(s) 18, 79, 314, 374, 379, 436, 493, 589
CviKI_1 RGCY 8 cut(s) 18, 79, 314, 374, 379, 436, 493, 589
CviQI GTAC 2 cut(s) 204, 350
DdeI CTNAG 4 cut(s) 224, 375, 438, 567
DpnI GATC 3 cut(s) 105, 298, 443
DpnII GATC 3 cut(s) 103, 296, 441
DraIII CACNNNGTG 1 cut(s) 611
Eam1104I CTCTTC 3 cut(s) 8, 132, 189
EarI CTCTTC 3 cut(s) 8, 132, 189
EciI GGCGGA 2 cut(s) 699, 726
Ecl136II GAGCTC 1 cut(s) 18
Eco24I GRGCYC 1 cut(s) 20
Eco31I GGTCTC 1 cut(s) 532
Eco47I GGWCC 9 cut(s) 260, 317, 359, 392, 413, 515, 554, 626, 653
Eco53kI GAGCTC 1 cut(s) 18
Eco57I CTGAAG 2 cut(s) 14, 294
EcoICRI GAGCTC 1 cut(s) 18
EcoO109I RGGNCCY 2 cut(s) 515, 626
EcoRII CCWGG 6 cut(s) 379, 421, 550, 607, 670, 718
EcoT38I GRGCYC 1 cut(s) 20
FaeI CATG 4 cut(s) 97, 115, 644, 727
FaqI GGGAC 2 cut(s) 303, 489
FatI CATG 4 cut(s) 93, 111, 640, 723
Fnu4HI GCNGC 2 cut(s) 336, 434
FokI GGATG 2 cut(s) 61, 702
FriOI GRGCYC 1 cut(s) 20
Fsp4HI GCNGC 2 cut(s) 336, 434
FspBI CTAG 1 cut(s) 447
GlaI GCGC 1 cut(s) 286
GluI GCNGC 2 cut(s) 336, 434
HaeIII GGCC 1 cut(s) 589
HapII CCGG 4 cut(s) 158, 321, 473, 687
HgaI GACGC 1 cut(s) 188
HhaI GCGC 1 cut(s) 287
Hin1II CATG 4 cut(s) 97, 115, 644, 727
Hin6I GCGC 1 cut(s) 285
HinP1I GCGC 1 cut(s) 285
HinfI GANTC 4 cut(s) 115, 278, 324, 598
HpaII CCGG 4 cut(s) 158, 321, 473, 687
HphI GGTGA 1 cut(s) 737
Hpy166II GTNNAC 4 cut(s) 263, 413, 557, 578
Hpy188I TCNGA 3 cut(s) 86, 441, 699
Hpy188III TCNNGA 2 cut(s) 294, 447
Hpy8I GTNNAC 4 cut(s) 263, 413, 557, 578
Hpy99I CGWCG 1 cut(s) 204
HpyAV CCTTC 2 cut(s) 251, 672
HpyCH4III ACNGT 2 cut(s) 253, 546
HpyCH4IV ACGT 1 cut(s) 343
HpyCH4V TGCA 2 cut(s) 433, 649
HpyF10VI GCNNNNNNNGC 3 cut(s) 205, 490, 655
HpyF3I CTNAG 4 cut(s) 224, 375, 438, 567
HpySE526I ACGT 1 cut(s) 343
Hsp92II CATG 4 cut(s) 97, 115, 644, 727
HspAI GCGC 1 cut(s) 285
Kzo9I GATC 3 cut(s) 103, 296, 441
LguI GCTCTTC 2 cut(s) 8, 189
LmnI GCTCC 5 cut(s) 23, 424, 700, 712, 739
Lsp1109I GCAGC 2 cut(s) 322, 445
LweI GCATC 3 cut(s) 15, 39, 420
MabI ACCWGGT 1 cut(s) 607
MaeI CTAG 1 cut(s) 447
MaeII ACGT 1 cut(s) 343
MaeIII GTNAC 2 cut(s) 55, 301
MalI GATC 3 cut(s) 105, 298, 443
MboI GATC 3 cut(s) 103, 296, 441
MboII GAAGA 8 cut(s) 25, 84, 149, 187, 197, 206, 245, 287
MflI RGATCY 2 cut(s) 296, 441
MhlI GDGCHC 2 cut(s) 20, 697
MluCI AATT 2 cut(s) 89, 405
MroXI GAANNNNTTC 1 cut(s) 141
MspA1I CMGCKG 1 cut(s) 308
MspI CCGG 4 cut(s) 158, 321, 473, 687
MspR9I CCNGG 9 cut(s) 321, 381, 423, 474, 552, 609, 672, 687, 720
Mva1269I GAATGC 1 cut(s) 681
MvaI CCWGG 6 cut(s) 381, 423, 552, 609, 672, 720
MvnI CGCG 1 cut(s) 285
MwoI GCNNNNNNNGC 3 cut(s) 205, 490, 655
NciI CCSGG 3 cut(s) 321, 474, 687
NdeII GATC 3 cut(s) 103, 296, 441
NlaIII CATG 4 cut(s) 97, 115, 644, 727
NlaIV GGNNCC 1 cut(s) 319
NspI RCATGY 1 cut(s) 727
NspV TTCGAA 1 cut(s) 145
PaeI GCATGC 1 cut(s) 727
PaqCI CACCTGC 1 cut(s) 739
PciSI GCTCTTC 2 cut(s) 8, 189
PctI GAATGC 1 cut(s) 681
PdmI GAANNNNTTC 1 cut(s) 141
PfeI GAWTC 4 cut(s) 115, 278, 324, 598
Pfl23II CGTACG 1 cut(s) 203
PflMI CCANNNNNTGG 3 cut(s) 530, 611, 641
PfoI TCCNGGA 3 cut(s) 319, 421, 472
PkrI GCNGC 2 cut(s) 337, 435
Ple19I CGATCG 1 cut(s) 106
PpuMI RGGWCCY 2 cut(s) 515, 626
Psp124BI GAGCTC 1 cut(s) 20
Psp5II RGGWCCY 2 cut(s) 515, 626
Psp6I CCWGG 6 cut(s) 379, 421, 550, 607, 670, 718
PspGI CCWGG 6 cut(s) 379, 421, 550, 607, 670, 718
PspLI CGTACG 1 cut(s) 203
PspN4I GGNNCC 1 cut(s) 319
PspPI GGNCC 9 cut(s) 260, 317, 359, 392, 413, 515, 554, 626, 653
PspPPI RGGWCCY 2 cut(s) 515, 626
PsuI RGATCY 2 cut(s) 296, 441
PvuI CGATCG 1 cut(s) 106
RsaI GTAC 2 cut(s) 205, 351
RsaNI GTAC 2 cut(s) 204, 350
SacI GAGCTC 1 cut(s) 20
SapI GCTCTTC 2 cut(s) 8, 189
SatI GCNGC 2 cut(s) 336, 434
Sau3AI GATC 3 cut(s) 103, 296, 441
Sau96I GGNCC 9 cut(s) 260, 317, 359, 392, 413, 515, 554, 626, 653
ScrFI CCNGG 9 cut(s) 321, 381, 423, 474, 552, 609, 672, 687, 720
SduI GDGCHC 2 cut(s) 20, 697
SexAI ACCWGGT 1 cut(s) 607
SfaNI GCATC 3 cut(s) 15, 39, 420
SfcI CTRYAG 1 cut(s) 43
SfuI TTCGAA 1 cut(s) 145
SinI GGWCC 9 cut(s) 260, 317, 359, 392, 413, 515, 554, 626, 653
SphI GCATGC 1 cut(s) 727
Sse9I AATT 2 cut(s) 89, 405
SsiI CCGC 6 cut(s) 266, 306, 563, 656, 710, 737
SspMI CTAG 1 cut(s) 447
SstI GAGCTC 1 cut(s) 20
StyD4I CCNGG 9 cut(s) 319, 379, 421, 472, 550, 607, 670, 685, 718
TaaI ACNGT 2 cut(s) 253, 546
TaiI ACGT 1 cut(s) 346
TaqI TCGA 6 cut(s) 5, 11, 102, 145, 245, 255
TaqII GACCGA 1 cut(s) 317
TasI AATT 2 cut(s) 89, 405
TfiI GAWTC 4 cut(s) 115, 278, 324, 598
TseI GCWGC 2 cut(s) 335, 433
TspDTI ATGAA 3 cut(s) 25, 82, 128
TspGWI ACGGA 1 cut(s) 84
Van91I CCANNNNNTGG 3 cut(s) 530, 611, 641
VpaK11BI GGWCC 9 cut(s) 260, 317, 359, 392, 413, 515, 554, 626, 653
XapI RAATTY 1 cut(s) 89
XbaI TCTAGA 1 cut(s) 446
XceI RCATGY 1 cut(s) 727
XmnI GAANNNNTTC 1 cut(s) 141
XspI CTAG 1 cut(s) 447
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.