AT5G08540

RNA splicing

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0002800
Physical Location & Seq
Forward (+)
2763823 .. 2765734
1912 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G08540.1

Sequence Viewer

Length: 1041 bp
ATGACGTCTCTTCTCCTTCCTTCATCTCAATTTCTCCAGACTCGAACCCAAAACAATGGCCAACCATTCCTTCTCCCTCTAACACCACTGTTCGCACCACTACCTTCTCTCCGTCAGTTGAGACCGAAACACATCTCTATTTCCGCCGCAGCGCCGAAGAAAAAATCGGAGACTGTCACGGCGCCGACACCGGCAGCGAAGAAGAATTCGAGCGTGGAGGAGGAAACAGAAGAGGAAGTAGAGGAAGATATGCCGTGGATTCAAGAGAAGGCGTTAGACCTAGTCGAGTTCACTGGATCGGTGAGTCAGGCGATTCCTGGTCCTCGAGTTGGAAGTAGCAAATTGCCGTGGATGCTCGCCGTTCCGTTAGCTTACGCCGGCGTCACTTTCGTCACTGCTTTCGTCAAAACCGTTCAGAAGTTCTCTTCTCCTAAAGCTCAGCGCAAGAAACTGGTGAATCAGAATGCTATGCTTTGCAGATCTATAGATGAGCTATTAAGGAAAGCTGGAACAGTGCATAGCTCTGAGCTTAAGGCACTTGAACAAAAGACAGAGTTTAACATGGAGGAGATATTGCGGAAATACATTCGTTATGCGTTGAATGAGAAACCGTTTAATCCCGACCTTGTTGCTGATCTCATTCATCTAAGAAAAGCTTCTGGTTTGAATGATTCTCAGATTCCTGAGATTTTAAATGAGATCTCTCGTCGTATTGTCAAGGAAAAAGGTCCGGTAGTGATGAAAATGCAAGGCTTTACCGAAAAAGGATTCAAGAGAAAACTCGCCGTGCAAGCGCTTTTTGGAAAGATTTACTATCTTTCTGAGCTTCCTGACTTCTGCTCAAAAGACAACTCCTTAATCGTCAAGGAAATATTCGGCGTTACAGATGAAGACGCAGAGAAGCTGCGGATACACGCTCTTGCTGAAGCTGGAGACATAGAGGCACTTGAGAAAATGGTGGAATTTGAGAAAACTGCGGAGTCTTCTTCGGATAAAGAAGAAGATTCAAATGAAGAAGATGACTCTAACACCACTTCCTAA
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
No domains found.

Protein Analysis

346

Amino Acids

38.65

Weight (kDa)

5.68

Isoelectric Point (pI)

56.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
ARMH5 PF22915 184 - 275 3.9e-42 Armadillo-like helical domain-containing protein 5
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) 8
AccB1I GGYRCC 1 cut(s) 181
AciI CCGC 5 cut(s) 144, 147, 577, 907, 977
AclWI GGATC 1 cut(s) 304
AcoI YGGCCR 1 cut(s) 58
AcsI RAATTY 2 cut(s) 205, 962
AcuI CTGAAG 1 cut(s) 945
AcyI GRCGYC 3 cut(s) 5, 182, 381
AfeI AGCGCT 1 cut(s) 795
AfiI CCNNNNNNNGG 1 cut(s) 329
AflII CTTAAG 1 cut(s) 530
AgsI TTSAA 6 cut(s) 263, 542, 601, 667, 772, 1008
AjnI CCWGG 1 cut(s) 316
AjuI GAANNNNNNNTTGG 2 cut(s) 54, 86
Alw26I GTCTC 4 cut(s) 12, 115, 164, 927
AlwI GGATC 1 cut(s) 304
Ama87I CYCGRG 1 cut(s) 324
Aor51HI AGCGCT 1 cut(s) 795
AoxI GGCC 1 cut(s) 58
ApeKI GCWGC 3 cut(s) 149, 194, 904
ApoI RAATTY 2 cut(s) 205, 962
Asp700I GAANNNNTTC 1 cut(s) 655
AspLEI GCGC 4 cut(s) 154, 184, 444, 796
AspS9I GGNCC 2 cut(s) 320, 728
AsuHPI GGTGA 2 cut(s) 313, 466
AvaI CYCGRG 1 cut(s) 324
AvaII GGWCC 2 cut(s) 320, 728
BalI TGGCCA 1 cut(s) 60
BanI GGYRCC 1 cut(s) 181
BbsI GAAGAC 2 cut(s) 897, 975
BbvI GCAGC 3 cut(s) 161, 206, 891
BceAI ACGGC 5 cut(s) 195, 238, 331, 344, 770
BcgI CGANNNNNNTGC 2 cut(s) 611, 645
BciT130I CCWGG 1 cut(s) 318
BciVI GTATCC 1 cut(s) 903
BcoDI GTCTC 4 cut(s) 12, 115, 164, 927
BfaI CTAG 1 cut(s) 281
BfmI CTRYAG 1 cut(s) 483
BfoI RGCGCY 3 cut(s) 155, 185, 797
BfrI CTTAAG 1 cut(s) 530
BfuI GTATCC 1 cut(s) 903
BglII AGATCT 2 cut(s) 479, 699
BisI GCNGC 4 cut(s) 147, 150, 195, 905
BlpI GCTNAGC 1 cut(s) 438
BlsI GCNGC 4 cut(s) 148, 151, 196, 906
Bme1390I CCNGG 1 cut(s) 318
Bme18I GGWCC 2 cut(s) 320, 728
BmeT110I CYCGRG 1 cut(s) 324
BmgT120I GGNCC 2 cut(s) 320, 728
BmiI GGNNCC 1 cut(s) 183
BmrFI CCNGG 1 cut(s) 318
BmsI GCATC 1 cut(s) 342
BpiI GAAGAC 2 cut(s) 897, 975
BpmI CTGGAG 2 cut(s) 20, 951
Bpu1102I GCTNAGC 1 cut(s) 438
BpuEI CTTGAG 1 cut(s) 968
BsaHI GRCGYC 3 cut(s) 5, 182, 381
BsaI GGTCTC 1 cut(s) 115
BsaJI CCNNGG 2 cut(s) 254, 347
BsaWI WCCGGW 1 cut(s) 730
BsaXI ACNNNNNCTCC 2 cut(s) 93, 123
Bsc4I CCNNNNNNNGG 1 cut(s) 329
Bse118I RCCGGY 2 cut(s) 190, 377
Bse1I ACTGG 2 cut(s) 298, 456
BseBI CCWGG 1 cut(s) 318
BseDI CCNNGG 2 cut(s) 254, 347
BseGI GGATG 1 cut(s) 357
BseLI CCNNNNNNNGG 1 cut(s) 329
BseMII CTCAG 5 cut(s) 452, 516, 675, 689, 813
BseNI ACTGG 2 cut(s) 298, 456
BseRI GAGGAG 2 cut(s) 233, 581
BseXI GCAGC 3 cut(s) 161, 206, 891
BshFI GGCC 1 cut(s) 60
BshNI GGYRCC 1 cut(s) 181
BsiHKCI CYCGRG 1 cut(s) 324
BsiSI CCGG 3 cut(s) 191, 378, 731
BslI CCNNNNNNNGG 1 cut(s) 329
BsmAI GTCTC 4 cut(s) 12, 115, 164, 927
BsmBI CGTCTC 1 cut(s) 12
BsmI GAATGC 1 cut(s) 469
BsnI GGCC 1 cut(s) 60
Bso31I GGTCTC 1 cut(s) 115
BsoBI CYCGRG 1 cut(s) 324
Bsp143I GATC 4 cut(s) 296, 479, 634, 699
Bsp1720I GCTNAGC 1 cut(s) 438
BspACI CCGC 5 cut(s) 144, 147, 577, 907, 977
BspANI GGCC 1 cut(s) 60
BspCNI CTCAG 5 cut(s) 451, 517, 676, 688, 814
BspLI GGNNCC 1 cut(s) 183
BspPI GGATC 1 cut(s) 304
BspT107I GGYRCC 1 cut(s) 181
BspTI CTTAAG 1 cut(s) 530
BspTNI GGTCTC 1 cut(s) 115
BsrFI RCCGGY 2 cut(s) 190, 377
BsrI ACTGG 2 cut(s) 298, 456
BssAI RCCGGY 2 cut(s) 190, 377
BssECI CCNNGG 2 cut(s) 254, 347
BssMI GATC 4 cut(s) 296, 479, 634, 699
BssNI GRCGYC 3 cut(s) 5, 182, 381
Bst2UI CCWGG 1 cut(s) 318
Bst4CI ACNGT 5 cut(s) 90, 175, 412, 514, 612
Bst6I CTCTTC 3 cut(s) 15, 225, 430
BstACI GRCGYC 3 cut(s) 5, 182, 381
BstAFI CTTAAG 1 cut(s) 530
BstC8I GCNNGC 3 cut(s) 357, 379, 792
BstDEI CTNAG 6 cut(s) 438, 525, 647, 675, 684, 822
BstDSI CCRYGG 2 cut(s) 254, 347
BstF5I GGATG 1 cut(s) 357
BstH2I RGCGCY 3 cut(s) 155, 185, 797
BstHHI GCGC 4 cut(s) 154, 184, 444, 796
BstKTI GATC 4 cut(s) 299, 482, 637, 702
BstMAI GTCTC 4 cut(s) 12, 115, 164, 927
BstMBI GATC 4 cut(s) 296, 479, 634, 699
BstMWI GCNNNNNNNGC 2 cut(s) 352, 791
BstNI CCWGG 1 cut(s) 318
BstSCI CCNGG 1 cut(s) 316
BstSFI CTRYAG 1 cut(s) 483
BstV1I GCAGC 3 cut(s) 161, 206, 891
BstV2I GAAGAC 2 cut(s) 897, 975
BstX2I RGATCY 2 cut(s) 479, 699
BstXI CCANNNNNNTGG 1 cut(s) 56
BstYI RGATCY 2 cut(s) 479, 699
BsuI GTATCC 1 cut(s) 903
BsuRI GGCC 1 cut(s) 60
BtgI CCRYGG 2 cut(s) 254, 347
BtsCI GGATG 1 cut(s) 357
BtsI GCAGTG 1 cut(s) 393
BtsIMutI CAGTG 4 cut(s) 86, 291, 393, 519
Cac8I GCNNGC 3 cut(s) 357, 379, 792
CfoI GCGC 4 cut(s) 154, 184, 444, 796
Cfr10I RCCGGY 2 cut(s) 190, 377
Cfr13I GGNCC 2 cut(s) 320, 728
CseI GACGC 2 cut(s) 370, 902
CviAII CATG 1 cut(s) 562
DdeI CTNAG 6 cut(s) 438, 525, 647, 675, 684, 822
DinI GGCGCC 1 cut(s) 183
DpnI GATC 4 cut(s) 298, 481, 636, 701
DpnII GATC 4 cut(s) 296, 479, 634, 699
DraI TTTAAA 1 cut(s) 693
EaeI YGGCCR 1 cut(s) 58
Eam1104I CTCTTC 3 cut(s) 15, 225, 430
EarI CTCTTC 3 cut(s) 15, 225, 430
EciI GGCGGA 1 cut(s) 133
Eco31I GGTCTC 1 cut(s) 115
Eco47I GGWCC 2 cut(s) 320, 728
Eco47III AGCGCT 1 cut(s) 795
Eco57I CTGAAG 1 cut(s) 945
Eco88I CYCGRG 1 cut(s) 324
EcoRI GAATTC 1 cut(s) 205
EcoRII CCWGG 1 cut(s) 316
EgeI GGCGCC 1 cut(s) 183
EheI GGCGCC 1 cut(s) 183
Esp3I CGTCTC 1 cut(s) 12
FaeI CATG 1 cut(s) 565
FaiI YATR 7 cut(s) 251, 470, 485, 519, 563, 594, 938
FalI AAGNNNNNCTT 2 cut(s) 640, 672
FatI CATG 1 cut(s) 561
Fnu4HI GCNGC 4 cut(s) 147, 150, 195, 905
FokI GGATG 1 cut(s) 364
Fsp4HI GCNGC 4 cut(s) 147, 150, 195, 905
FspBI CTAG 1 cut(s) 281
GlaI GCGC 4 cut(s) 153, 183, 443, 795
GluI GCNGC 4 cut(s) 147, 150, 195, 905
GsuI CTGGAG 2 cut(s) 20, 951
HaeII RGCGCY 3 cut(s) 155, 185, 797
HaeIII GGCC 1 cut(s) 60
HapII CCGG 3 cut(s) 191, 378, 731
HgaI GACGC 2 cut(s) 370, 902
HhaI GCGC 4 cut(s) 154, 184, 444, 796
Hin1I GRCGYC 3 cut(s) 5, 182, 381
Hin1II CATG 1 cut(s) 565
Hin6I GCGC 4 cut(s) 152, 182, 442, 794
HinP1I GCGC 4 cut(s) 152, 182, 442, 794
HindIII AAGCTT 1 cut(s) 654
HpaII CCGG 3 cut(s) 191, 378, 731
HphI GGTGA 2 cut(s) 313, 466
Hpy166II GTNNAC 1 cut(s) 291
Hpy188I TCNGA 7 cut(s) 169, 417, 462, 526, 678, 823, 991
Hpy188III TCNNGA 6 cut(s) 37, 263, 620, 683, 772, 830
Hpy8I GTNNAC 1 cut(s) 291
Hpy99I CGWCG 1 cut(s) 711
HpyAV CCTTC 5 cut(s) 26, 30, 80, 114, 262
HpyCH4III ACNGT 5 cut(s) 90, 175, 412, 514, 612
HpyCH4IV ACGT 1 cut(s) 5
HpyCH4V TGCA 4 cut(s) 477, 517, 748, 790
HpyF10VI GCNNNNNNNGC 2 cut(s) 352, 791
HpyF3I CTNAG 6 cut(s) 438, 525, 647, 675, 684, 822
HpySE526I ACGT 1 cut(s) 5
Hsp92I GRCGYC 3 cut(s) 5, 182, 381
Hsp92II CATG 1 cut(s) 565
HspAI GCGC 4 cut(s) 152, 182, 442, 794
KasI GGCGCC 1 cut(s) 181
KroI GCCGGC 1 cut(s) 377
KroNI GCCGGC 1 cut(s) 379
Kzo9I GATC 4 cut(s) 296, 479, 634, 699
Lsp1109I GCAGC 3 cut(s) 161, 206, 891
LweI GCATC 1 cut(s) 342
MaeI CTAG 1 cut(s) 281
MaeII ACGT 1 cut(s) 5
MaeIII GTNAC 4 cut(s) 175, 382, 391, 880
MalI GATC 4 cut(s) 298, 481, 636, 701
MboI GATC 4 cut(s) 296, 479, 634, 699
MflI RGATCY 2 cut(s) 479, 699
MlsI TGGCCA 1 cut(s) 60
MluCI AATT 4 cut(s) 29, 205, 341, 962
MluNI TGGCCA 1 cut(s) 60
Mly113I GGCGCC 1 cut(s) 182
MlyI GAGTC 4 cut(s) 34, 313, 989, 1016
MmeI TCCRAC 1 cut(s) 310
MnlI CCTC 8 cut(s) 87, 211, 214, 226, 235, 333, 559, 934
Mox20I TGGCCA 1 cut(s) 60
MreI CGCCGGCG 1 cut(s) 377
MroNI GCCGGC 1 cut(s) 377
MroXI GAANNNNTTC 1 cut(s) 655
MscI TGGCCA 1 cut(s) 60
MseI TTAA 6 cut(s) 497, 531, 558, 615, 692, 857
Msp20I TGGCCA 1 cut(s) 60
MspCI CTTAAG 1 cut(s) 530
MspI CCGG 3 cut(s) 191, 378, 731
MspR9I CCNGG 1 cut(s) 318
Mva1269I GAATGC 1 cut(s) 469
MvaI CCWGG 1 cut(s) 318
MwoI GCNNNNNNNGC 2 cut(s) 352, 791
NaeI GCCGGC 1 cut(s) 379
NarI GGCGCC 1 cut(s) 182
NdeII GATC 4 cut(s) 296, 479, 634, 699
NgoMIV GCCGGC 1 cut(s) 377
NlaIII CATG 1 cut(s) 565
NlaIV GGNNCC 1 cut(s) 183
NmuCI GTSAC 3 cut(s) 175, 382, 391
PaeR7I CTCGAG 1 cut(s) 324
PcsI WCGNNNNNNNCGW 1 cut(s) 408
PctI GAATGC 1 cut(s) 469
PdiI GCCGGC 1 cut(s) 379
PdmI GAANNNNTTC 1 cut(s) 655
PfeI GAWTC 7 cut(s) 259, 313, 457, 671, 679, 768, 1004
PflFI GACNNNGTC 1 cut(s) 281
PkrI GCNGC 4 cut(s) 148, 151, 196, 906
PleI GAGTC 4 cut(s) 34, 312, 988, 1016
PluTI GGCGCC 1 cut(s) 185
PpsI GAGTC 4 cut(s) 34, 312, 988, 1016
Psp6I CCWGG 1 cut(s) 316
PspGI CCWGG 1 cut(s) 316
PspN4I GGNNCC 1 cut(s) 183
PspPI GGNCC 2 cut(s) 320, 728
PspXI VCTCGAGB 1 cut(s) 324
PsuI RGATCY 2 cut(s) 479, 699
PsyI GACNNNGTC 1 cut(s) 281
SaqAI TTAA 6 cut(s) 497, 531, 558, 615, 692, 857
SatI GCNGC 4 cut(s) 147, 150, 195, 905
Sau3AI GATC 4 cut(s) 296, 479, 634, 699
Sau96I GGNCC 2 cut(s) 320, 728
SchI GAGTC 4 cut(s) 34, 313, 989, 1016
ScrFI CCNGG 1 cut(s) 318
SfaNI GCATC 1 cut(s) 342
SfcI CTRYAG 1 cut(s) 483
SfoI GGCGCC 1 cut(s) 183
Sfr274I CTCGAG 1 cut(s) 324
SgrAI CRCCGGYG 1 cut(s) 377
SinI GGWCC 2 cut(s) 320, 728
SlaI CTCGAG 1 cut(s) 324
SmlI CTYRAG 3 cut(s) 324, 530, 947
SmoI CTYRAG 3 cut(s) 324, 530, 947
Sse9I AATT 4 cut(s) 29, 205, 341, 962
SsiI CCGC 5 cut(s) 144, 147, 577, 907, 977
SspDI GGCGCC 1 cut(s) 181
SspI AATATT 1 cut(s) 873
SspMI CTAG 1 cut(s) 281
StyD4I CCNGG 1 cut(s) 316
TaaI ACNGT 5 cut(s) 90, 175, 412, 514, 612
TaiI ACGT 1 cut(s) 8
TaqI TCGA 4 cut(s) 43, 209, 285, 325
TaqII GACCGA 1 cut(s) 139
TasI AATT 4 cut(s) 29, 205, 341, 962
TauI GCSGC 1 cut(s) 149
TfiI GAWTC 7 cut(s) 259, 313, 457, 671, 679, 768, 1004
Tru1I TTAA 6 cut(s) 497, 531, 558, 615, 692, 857
Tru9I TTAA 6 cut(s) 497, 531, 558, 615, 692, 857
TscAI CASTG 4 cut(s) 93, 298, 400, 519
TseFI GTSAC 3 cut(s) 175, 382, 391
TseI GCWGC 3 cut(s) 149, 194, 904
Tsp45I GTSAC 3 cut(s) 175, 382, 391
TspDTI ATGAA 5 cut(s) 12, 632, 755, 903, 1026
TspGWI ACGGA 2 cut(s) 101, 354
TspRI CASTG 4 cut(s) 93, 298, 400, 519
Tth111I GACNNNGTC 1 cut(s) 281
Vha464I CTTAAG 1 cut(s) 530
VpaK11BI GGWCC 2 cut(s) 320, 728
XapI RAATTY 2 cut(s) 205, 962
XhoI CTCGAG 1 cut(s) 324
XmnI GAANNNNTTC 1 cut(s) 655
XspI CTAG 1 cut(s) 281
ZraI GACGTC 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.