AT3G27600

mRNA 3'-splice site recognition

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
OG0008238
Physical Location & Seq
Reverse (-)
10223743 .. 10224948
1206 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G27600.1

Sequence Viewer

Length: 942 bp
ATGGCGAGTTACATTTCCACTGGAGGGTTGGTGGTTGAGAAGGTGATGAGGTATCTTGTTGTAGGTGACGCAAGATACAACTTTATGGGTATTTCAGACCCCTTTCACCCGTTTTACCAGCAAAGGCTTACCCAGTACCGTTCTCTGAATCAACAAGACGAAGCTAATCTTGATTATGATGCTACTCTTGCTGCTTACATGCGAAAGGCTACTGAATTCCGTTCTCGGATTCAACAAGAGGGACCTAATCTTGATGATGATGATGCTGATGCTGGTCAACGCATTGTTCTGCCACATCTTCTGGACTATAGACTTCCAAAAGGGATGAGTGTCAAGAATTTAGAACTATCAAGCTCACAACACAGTTTGGGGCTTGGGTTCAAGGAAAGAGATGGATTTGAGTTTACGAATCCAACTGATAGTAAGTTCCCACGATTCACTCTATTTGTTCTTGAGTATTCAGAAGTATTTAAGGCACCTAAAGATCTGAAAGAAAAGTGGGATTCTCTCCATGATGTTAAATGGAGGGATGGTGGGGTGATGTCTATGGTTAATTGGCATGCTTCTTTTGAGAAAGAGTTTTTTGCTAACAATGAAGAGCTTCCACCACCTGAAATTACTGAAACTGGTTGGTGTATAATCATGATCTCTGTTGTGGATGTTGATGGTCGTGAGCTAAACATTATTGAGAAAACAGTGCAGTCGTTATCTGAAAACGTGGCGAGTTTCAAGGAGAAAATAGCCGCGGATAAACCGAAGAATCCCACCAGAGAAGCAGGTGATATTCGGAAAATCCGGGTTGTTAAAGGACAACAACAAGTCACTAGCATATTAAAATGTAGGAGCAGGAGAAATCCTCACTTTGTCATTCTGTACGTGTGGGAGATAGACAGATTTGGACAAGCCTTGTTTATGCACGGAAATGTTTTTCGACGCACTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
Surp ubiquitin

Protein Analysis

313

Amino Acids

36.14

Weight (kDa)

6.41

Isoelectric Point (pI)

39.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Surp PF01805 1 - 46 1.3e-06 Surp module
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)
AarI CACCTGC 1 cut(s) 767
Acc36I ACCTGC 1 cut(s) 767
AccB1I GGYRCC 1 cut(s) 475
AccII CGCG 1 cut(s) 746
AciI CCGC 2 cut(s) 744, 746
AcsI RAATTY 2 cut(s) 215, 337
AfaI GTAC 2 cut(s) 137, 875
AfiI CCNNNNNNNGG 1 cut(s) 24
AflIII ACRYGT 1 cut(s) 876
AgsI TTSAA 3 cut(s) 233, 382, 730
AluBI AGCT 4 cut(s) 164, 354, 601, 676
AluI AGCT 4 cut(s) 164, 354, 601, 676
ApeKI GCWGC 1 cut(s) 191
ApoI RAATTY 2 cut(s) 215, 337
Asp700I GAANNNNTTC 1 cut(s) 600
AspS9I GGNCC 1 cut(s) 242
AsuC2I CCSGG 1 cut(s) 797
AsuHPI GGTGA 5 cut(s) 55, 77, 98, 550, 791
AvaII GGWCC 1 cut(s) 242
BanI GGYRCC 1 cut(s) 475
BbvI GCAGC 1 cut(s) 178
BccI CCATC 3 cut(s) 386, 524, 659
BcnI CCSGG 1 cut(s) 797
BfaI CTAG 1 cut(s) 825
BfmI CTRYAG 1 cut(s) 307
BfuAI ACCTGC 1 cut(s) 767
BglII AGATCT 1 cut(s) 484
BisI GCNGC 2 cut(s) 192, 744
BlsI GCNGC 2 cut(s) 193, 745
Bme1390I CCNGG 1 cut(s) 797
Bme18I GGWCC 1 cut(s) 242
BmgT120I GGNCC 1 cut(s) 242
BmiI GGNNCC 2 cut(s) 243, 477
BmrFI CCNGG 1 cut(s) 797
BmrI ACTGGG 1 cut(s) 127
BmsI GCATC 3 cut(s) 169, 253, 259
BmuI ACTGGG 1 cut(s) 127
BplI GAGNNNNNCTC 2 cut(s) 841, 873
BpmI CTGGAG 1 cut(s) 42
BpuEI CTTGAG 1 cut(s) 473
BpuMI CCSGG 1 cut(s) 797
BsaAI YACGTR 1 cut(s) 877
BsaJI CCNNGG 1 cut(s) 744
BsaXI ACNNNNNCTCC 4 cut(s) 15, 45, 517, 547
Bsc4I CCNNNNNNNGG 1 cut(s) 24
Bse1I ACTGG 3 cut(s) 25, 133, 631
BseDI CCNNGG 1 cut(s) 744
BseGI GGATG 3 cut(s) 330, 535, 664
BseLI CCNNNNNNNGG 1 cut(s) 24
BseNI ACTGG 3 cut(s) 25, 133, 631
BseXI GCAGC 1 cut(s) 178
BsgI GTGCAG 1 cut(s) 719
Bsh1236I CGCG 1 cut(s) 746
BshNI GGYRCC 1 cut(s) 475
BsiSI CCGG 1 cut(s) 796
BslFI GGGAC 1 cut(s) 255
BslI CCNNNNNNNGG 1 cut(s) 24
BsmFI GGGAC 1 cut(s) 255
Bsp143I GATC 2 cut(s) 484, 645
BspACI CCGC 2 cut(s) 744, 746
BspFNI CGCG 1 cut(s) 746
BspHI TCATGA 1 cut(s) 642
BspLI GGNNCC 2 cut(s) 243, 477
BspMI ACCTGC 1 cut(s) 767
BspQI GCTCTTC 1 cut(s) 591
BspT107I GGYRCC 1 cut(s) 475
BsrI ACTGG 3 cut(s) 25, 133, 631
BssECI CCNNGG 1 cut(s) 744
BssMI GATC 2 cut(s) 484, 645
Bst4CI ACNGT 3 cut(s) 140, 365, 697
Bst6I CTCTTC 1 cut(s) 591
BstBAI YACGTR 1 cut(s) 877
BstC8I GCNNGC 1 cut(s) 561
BstDSI CCRYGG 1 cut(s) 744
BstF5I GGATG 3 cut(s) 330, 535, 664
BstFNI CGCG 1 cut(s) 746
BstKTI GATC 2 cut(s) 487, 648
BstMBI GATC 2 cut(s) 484, 645
BstMWI GCNNNNNNNGC 1 cut(s) 188
BstNSI RCATGY 2 cut(s) 202, 563
BstSCI CCNGG 1 cut(s) 795
BstSFI CTRYAG 1 cut(s) 307
BstUI CGCG 1 cut(s) 746
BstV1I GCAGC 1 cut(s) 178
BstX2I RGATCY 1 cut(s) 484
BstYI RGATCY 1 cut(s) 484
BtgI CCRYGG 1 cut(s) 744
BtsCI GGATG 3 cut(s) 330, 535, 664
BtsIMutI CAGTG 2 cut(s) 18, 702
BveI ACCTGC 1 cut(s) 767
Cac8I GCNNGC 1 cut(s) 561
CciI TCATGA 1 cut(s) 642
Cfr13I GGNCC 1 cut(s) 242
Cfr42I CCGCGG 1 cut(s) 747
CseI GACGC 1 cut(s) 77
Csp6I GTAC 2 cut(s) 136, 874
CviAII CATG 4 cut(s) 199, 512, 560, 643
CviJI RGCY 9 cut(s) 127, 164, 209, 354, 373, 601, 676, 743, 905
CviKI_1 RGCY 9 cut(s) 127, 164, 209, 354, 373, 601, 676, 743, 905
CviQI GTAC 2 cut(s) 136, 874
DpnI GATC 2 cut(s) 486, 647
DpnII GATC 2 cut(s) 484, 645
Eam1104I CTCTTC 1 cut(s) 591
EarI CTCTTC 1 cut(s) 591
Eco47I GGWCC 1 cut(s) 242
EcoO109I RGGNCCY 1 cut(s) 242
EcoRI GAATTC 1 cut(s) 215
FaeI CATG 4 cut(s) 202, 515, 563, 646
FalI AAGNNNNNCTT 2 cut(s) 153, 185
FaqI GGGAC 1 cut(s) 255
FatI CATG 4 cut(s) 198, 511, 559, 642
Fnu4HI GCNGC 2 cut(s) 192, 744
FokI GGATG 3 cut(s) 337, 542, 671
Fsp4HI GCNGC 2 cut(s) 192, 744
FspBI CTAG 1 cut(s) 825
GluI GCNGC 2 cut(s) 192, 744
GsuI CTGGAG 1 cut(s) 42
HapII CCGG 1 cut(s) 796
HgaI GACGC 1 cut(s) 77
Hin1II CATG 4 cut(s) 202, 515, 563, 646
HincII GTYRAC 1 cut(s) 278
HindII GTYRAC 1 cut(s) 278
HinfI GANTC 6 cut(s) 148, 229, 409, 435, 503, 760
HpaII CCGG 1 cut(s) 796
HphI GGTGA 5 cut(s) 55, 77, 98, 550, 791
Hpy166II GTNNAC 2 cut(s) 278, 405
Hpy188I TCNGA 7 cut(s) 97, 147, 228, 463, 489, 712, 789
Hpy188III TCNNGA 7 cut(s) 170, 251, 302, 334, 452, 643, 671
Hpy8I GTNNAC 2 cut(s) 278, 405
Hpy99I CGWCG 1 cut(s) 936
HpyAV CCTTC 1 cut(s) 34
HpyCH4III ACNGT 3 cut(s) 140, 365, 697
HpyCH4IV ACGT 2 cut(s) 717, 876
HpyCH4V TGCA 2 cut(s) 700, 916
HpyF10VI GCNNNNNNNGC 1 cut(s) 188
HpySE526I ACGT 2 cut(s) 717, 876
Hsp92II CATG 4 cut(s) 202, 515, 563, 646
KspI CCGCGG 1 cut(s) 747
Kzo9I GATC 2 cut(s) 484, 645
LguI GCTCTTC 1 cut(s) 591
LmnI GCTCC 1 cut(s) 843
Lsp1109I GCAGC 1 cut(s) 178
LweI GCATC 3 cut(s) 169, 253, 259
MaeI CTAG 1 cut(s) 825
MaeII ACGT 2 cut(s) 717, 876
MaeIII GTNAC 3 cut(s) 8, 65, 820
MalI GATC 2 cut(s) 486, 647
MboI GATC 2 cut(s) 484, 645
MboII GAAGA 3 cut(s) 290, 608, 769
MflI RGATCY 1 cut(s) 484
MluCI AATT 4 cut(s) 215, 337, 553, 615
MmeI TCCRAC 1 cut(s) 437
MnlI CCTC 5 cut(s) 17, 42, 232, 519, 867
MroXI GAANNNNTTC 1 cut(s) 600
MseI TTAA 5 cut(s) 471, 519, 552, 804, 833
MslI CAYNNNNRTG 1 cut(s) 921
MspA1I CMGCKG 1 cut(s) 746
MspI CCGG 1 cut(s) 796
MspR9I CCNGG 1 cut(s) 797
MvnI CGCG 1 cut(s) 746
MwoI GCNNNNNNNGC 1 cut(s) 188
NciI CCSGG 1 cut(s) 797
NdeII GATC 2 cut(s) 484, 645
NlaIII CATG 4 cut(s) 202, 515, 563, 646
NlaIV GGNNCC 2 cut(s) 243, 477
NmuCI GTSAC 2 cut(s) 65, 820
NspI RCATGY 2 cut(s) 202, 563
PaeI GCATGC 1 cut(s) 563
PagI TCATGA 1 cut(s) 642
PaqCI CACCTGC 1 cut(s) 767
PciSI GCTCTTC 1 cut(s) 591
PdmI GAANNNNTTC 1 cut(s) 600
PfeI GAWTC 6 cut(s) 148, 229, 409, 435, 503, 760
PkrI GCNGC 2 cut(s) 193, 745
Ppu21I YACGTR 1 cut(s) 877
PpuMI RGGWCCY 1 cut(s) 242
Psp5II RGGWCCY 1 cut(s) 242
PspN4I GGNNCC 2 cut(s) 243, 477
PspPI GGNCC 1 cut(s) 242
PspPPI RGGWCCY 1 cut(s) 242
PsuI RGATCY 1 cut(s) 484
RsaI GTAC 2 cut(s) 137, 875
RsaNI GTAC 2 cut(s) 136, 874
RseI CAYNNNNRTG 1 cut(s) 921
SacII CCGCGG 1 cut(s) 747
SapI GCTCTTC 1 cut(s) 591
SaqAI TTAA 5 cut(s) 471, 519, 552, 804, 833
SatI GCNGC 2 cut(s) 192, 744
Sau3AI GATC 2 cut(s) 484, 645
Sau96I GGNCC 1 cut(s) 242
ScrFI CCNGG 1 cut(s) 797
SfaNI GCATC 3 cut(s) 169, 253, 259
SfcI CTRYAG 1 cut(s) 307
Sfr303I CCGCGG 1 cut(s) 747
SgrBI CCGCGG 1 cut(s) 747
SinI GGWCC 1 cut(s) 242
SmiMI CAYNNNNRTG 1 cut(s) 921
SmlI CTYRAG 1 cut(s) 452
SmoI CTYRAG 1 cut(s) 452
SphI GCATGC 1 cut(s) 563
Sse9I AATT 4 cut(s) 215, 337, 553, 615
SsiI CCGC 2 cut(s) 744, 746
SspMI CTAG 1 cut(s) 825
StyD4I CCNGG 1 cut(s) 795
TaaI ACNGT 3 cut(s) 140, 365, 697
TaiI ACGT 2 cut(s) 720, 879
TaqI TCGA 1 cut(s) 931
TasI AATT 4 cut(s) 215, 337, 553, 615
TauI GCSGC 1 cut(s) 746
TfiI GAWTC 6 cut(s) 148, 229, 409, 435, 503, 760
Tru1I TTAA 5 cut(s) 471, 519, 552, 804, 833
Tru9I TTAA 5 cut(s) 471, 519, 552, 804, 833
TscAI CASTG 2 cut(s) 25, 702
TseFI GTSAC 2 cut(s) 65, 820
TseI GCWGC 1 cut(s) 191
Tsp45I GTSAC 2 cut(s) 65, 820
TspDTI ATGAA 1 cut(s) 609
TspGWI ACGGA 2 cut(s) 209, 933
TspRI CASTG 2 cut(s) 25, 702
VpaK11BI GGWCC 1 cut(s) 242
XapI RAATTY 2 cut(s) 215, 337
XceI RCATGY 2 cut(s) 202, 563
XcmI CCANNNNNNNNNTGG 1 cut(s) 25
XmnI GAANNNNTTC 1 cut(s) 600
XspI CTAG 1 cut(s) 825
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.